Model_id	Action	ARO_name	ARO_category	Changes To	Summary
344	UPDATE	SHV-188	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
345	UPDATE	bcrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
346	UPDATE	QnrB23	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
347	UPDATE	SFH-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
340	UPDATE	CMY-51	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
341	UPDATE	IMP-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
342	UPDATE	smeS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
343	UPDATE	OXA-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
348	UPDATE	OXY-3-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
349	UPDATE	vanL	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2317	UPDATE	mgrB	 efflux pump complex or subunit conferring antibiotic resistance;  determinant of polymyxin resistance;  gene conferring resistance via absence;  protein(s) and two-component regulatory system modulating antibiotic efflux;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with An AMR detection model for instances where the absence of a protein - due to large-scale insertion elements, large deletions, or other methods of protein knockout - confers clinical resistance to a known antibiotic. These models include reference sequences. Protein knockout models are currently in development.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2310	UPDATE	Streptomyces cinnamoneus EF-Tu mutants conferring resistance to elfamycin	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
298	UPDATE	vanYG1	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
299	UPDATE	CepS beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
296	UPDATE	VIM-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
297	UPDATE	CMY-98	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
294	UPDATE	CfxA4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
295	UPDATE	OXA-145	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
292	UPDATE	TEM-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
293	UPDATE	SHV-180	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
290	UPDATE	vatD	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
291	UPDATE	APH(3')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
270	UPDATE	LEN-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
271	UPDATE	CMY-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
272	UPDATE	QnrB36	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
273	UPDATE	VEB-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
274	UPDATE	OXA-174	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
275	UPDATE	OKP-B-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
276	UPDATE	tetR	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param; model_type_id	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
UPDATED model_type_id with 41091
"
277	UPDATE	TEM-91	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
278	UPDATE	imiS	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
279	UPDATE	CTX-M-107	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
642	UPDATE	aadA25	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2262	UPDATE	mefC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2260	UPDATE	vatF	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2261	UPDATE	lnuE	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2267	UPDATE	Escherichia coli nfsA mutations conferring resistance to nitrofurantoin	 determinant of nitrofuratoin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2264	UPDATE	oleC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2265	UPDATE	salA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1781	UPDATE	AAC(2')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2445	UPDATE	Erm(44)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
108	UPDATE	PDC-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
109	UPDATE	ErmE	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
102	UPDATE	TLA-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
103	UPDATE	SHV-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
100	UPDATE	Mycobacterium tuberculosis ethA with mutation conferring resistance to ethionamide	 determinant of ethionamide resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
101	UPDATE	TEM-109	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
106	UPDATE	catB9	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
107	UPDATE	TEM-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
104	UPDATE	OXA-61	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
105	UPDATE	CARB-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2046	UPDATE	tet(33)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2047	UPDATE	OXA-322	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2044	UPDATE	QnrB31	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2045	UPDATE	OXY-2-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2042	UPDATE	IND-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2043	UPDATE	aadA8	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2040	UPDATE	TEM-60	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2041	UPDATE	OXA-424	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2048	UPDATE	OXA-57	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2049	UPDATE	QnrB72	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1213	UPDATE	nalD	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1210	UPDATE	novA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2688	UPDATE	ArmR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2689	UPDATE	Staphylococcus aureus 23S rRNA with mutation conferring resistance to linezolid	 antibiotic resistant gene variant or mutant; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 500039
UPDATED strand with +
UPDATED accession with NZ_CP009828.1
UPDATED fmin with 497113
UPDATED sequence with AGATTAAGTTATTAAGGGCGCACGGTGGATGCCTTGGCACTAGAAGCCGATGAAGGACGTTACTAACGACGATATGCTTTGGGGAGCTGTAAGTAAGCTTTGATCCAGAGATTTCCGAATGGGGAAACCCAGCATGAGTTATGTCATGTTATCGATATGTGAATACATAGCATATCAGAAGGCACACCCGGAGAACTGAAACATCTTAGTACCCGGAGGAAGAGAAAGAAAATTCGATTCCCTTAGTAGCGGCGAGCGAAACGGGAAGAGCCCAAACCAACAAGCTTGCTTGTTGGGGTTGTAGGACACTCTATACGGAGTTACAAAGGACGACATTAGACGAATCATCTGGAAAGATGAATCAAAGAAGGTAATAATCCTGTAGTCGAAAATGTTGTCTCTCTTGAGTGGATCCTGAGTACGACGGAGCACGTGAAATTCCGTCGGAATCTGGGAGGACCATCTCCTAAGGCTAAATACTCTCTAGTGACCGATAGTGAACCAGTACCGTGAGGGAAAGGTGAAAAGCACCCCGGAAGGGGAGTGAAATAGAACCTGAAACCGTGTGCTTACAAGTAGTCAGAGCCCGTTAATGGGTGATGGCGTGCCTTTTGTAGAATGAACCGGCGAGTTACGATTTGATGCAAGGTTAAGCAGTAAATGTGGAGCCGTAGCGAAAGCGAGTCTGAATAGGGCGTTTAGTATTTGGTCGTAGACCCGAAACCAGGTGATCTACCCTTGGTCAGGTTGAAGTTCAGGTAACACTGAATGGAGGACCGAACCGACTTACGTTGAAAAGTGAGCGGATGAACTGAGGGTAGCGGAGAAATTCCAATCGAACCTGGAGATAGCTGGTTCTCTCCGAAATAGCTTTAGGGCTAGCCTCAAGTGATGATTATTGGAGGTAGAGCACTGTTTGGACGAGGGGCCCCTCTCGGGTTACCGAATTCAGACAAACTCCGAATGCCAATTAATTTAACTTGGGAGTCAGAACATGGGTGATAAGGTCCGTGTTCGAAAGGGAAACAGCCCAGACCACCAGCTAAGGTCCCAAAATATATGTTAAGTGGAAAAGGATGTGGCGTTGCCCAGACAACTAGGATGTTGGCTTAGAAGCAGCCATCATTTAAAGAGTGCGTAATAGCTCACTAGTCGAGTGACACTGCGCCGAAAATGTACCGGGGCTAAACATATTACCGAAGCTGTGGATTGTCCTTTGGACAATGGTAGGAGAGCGTTCTAAGGGCGTTGAAGCATGATCGTAAGGACATGTGGAGCGCTTAGAAGTGAGAATGCCGGTGTGAGTAGCGAAAGACGGGTGAGAATCCCGTCCACCGATTGACTAAGGTTTCCAGAGGAAGGCTCGTCCGCTCTGGGTTAGTCGGGTCCTAAGCTGAGGCCGACAGGCGTAGGCGATGGATAACAGGTTGATATTCCTGTACCACCTATAATCGTTTTAATCGATGGGGGGACGCAGTAGGATAGGCGAAGCGTGCGATTGGATTGCACGTCTAAGCAGTAAGGCTGAGTATTAGGCAAATCCGGTACTCGTTAAGGCTGAGCTGTGATGGGGAGAAGACATTGTGTCTTCGAGTCGTTGATTTCACACTGCCGAGAAAAGCCTCTAGATAGAAAATAGGTGCCCGTACCGCAAACCGACACAGGTAGTCAAGATGAGAATTCTAAGGTGAGCGAGCGAACTCTCGTTAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTTTAGGGTTAACGCCCAGAAGAGCCGCAGTGAATAGGCCCAAGCGACTGTTTATCAAAAACACAGGTCTCTGCTAAACCGTAAGGTGATGTATAGGGGCTGACGCCTGCCCGGTGCTGGAAGGTTAAGAGGAGTGGTTAGCTTCTGCGAAGCTACGAATCGAAGCCCCAGTAAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGATTTGGGCACTGTCTCAACGAGAGACTCGGTGAAATCATAGTACCTGTGAAGATGCAGGTTACCCGCGACAGGACGGAAAGACCCCGTGGAGCTTTACTGTAGCCTGATATTGAAATTCGGCACAGCTTGTACAGGATAGGTAGGAGCCTTTGAAACGTGAGCGCTAGCTTACGTGGAGGCGCTGGTGGGATACTACCCTAGCTGTGTTGGCTTTCTAACCCGCACCACTTATCGTGGTGGGAGACAGTGTCAGGCGGGCAGTTTGACTGGGGCGGTCGCCTCCTAAAAGGTAACGGAGGCGCTCAAAGGTTCCCTCAGAATGGTTGGAAATCATTCATAGAGTGTAAAGGCATAAGGGAGCTTGACTGCGAGACCTACAAGTCGAGCAGGGTCGAAAGACGGACTTAGTGATCCGGTGGTTCCGCATGGAAGGGCCATCGCTCAACGGATAAAAGCTACCCCGGGGATAACAGGCTTATCTCCCCCAAGAGTTCACATCGACGGGGAGGTTTGGCACCTCGATGTCGGCTCATCGCATCCTGGGGCTGTAGTCGGTCCCAAGGGTTGGGCTGTTCGCCCATTAAAGCGGTACGCGAGCTGGGTTCAGAACGTCGTGAGACAGTTCGGTCCCTATCCGTCGTGGGCGTAGGAAATTTGAGAGGAGCTGTCCTTAGTACGAGAGGACCGGGATGGACATACCTCTGGTGTACCAGTTGTCGTGCCAACGGCATAGCTGGGTAGCTATGTGTGGACGGGATAAGTGCTGAAAGCATCTAAGCATGAAGCCCCCCTCAAGATGAGATTTCCCAACTTCGGTTATAAGATCCCTCAAAGATGATGAGGTTAATAGGTTCGAGGTGGAAGCATGGTGACATGTGGAGCTGACGAATACTAATCGATCGAAGACTTAATCAAAA
UPDATED NCBI_taxonomy_name with Staphylococcus aureus
UPDATED NCBI_taxonomy_id with 1280
UPDATED NCBI_taxonomy_cvterm_id with 35508
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 5000
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2685	UPDATE	Pseudomonas aeruginosa CpxR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2686	UPDATE	MexAB-OprM with CpxR regulator conferring resistance to ciprofloxacin, ceftazidime, and aztreonam	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2680	UPDATE	MexAB-OprM with prematurely terminated MexR conferring resistance to meropenem and ciprofloxacin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2681	UPDATE	antibiotic resistant fabG	 antibiotic resistant gene variant or mutant;  determinant of triclosan resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2682	UPDATE	MexAB-OprM with NalC mutations conferring resistance to aztreonam	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2683	UPDATE	MexAB-OprM with NalD mutations conferring resistance to multiple antibiotics	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
645	UPDATE	mecR1	 antibiotic resistance gene cluster, cassette, or operon;  antibiotic target replacement protein;  determinant of beta-lactam resistance;  gene modulating beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
99	UPDATE	QnrB38	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
98	UPDATE	CMY-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
91	UPDATE	gadX	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
90	UPDATE	Staphylococcus aureus rpoB mutants conferring resistance to rifampicin	 determinant of rifamycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
93	UPDATE	SHV-105	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
92	UPDATE	CTX-M-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
95	UPDATE	CMY-56	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
94	UPDATE	CMY-79	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
97	UPDATE	vanXYC	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
96	UPDATE	OXA-426	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1991	UPDATE	otrC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1990	UPDATE	CMY-82	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1993	UPDATE	QnrB74	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1620	UPDATE	CTX-M-156	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1627	UPDATE	CTX-M-95	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1994	UPDATE	gimA	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1625	UPDATE	OXA-179	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1996	UPDATE	vanXM	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1999	UPDATE	TEM-215	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1998	UPDATE	CTX-M-83	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1628	UPDATE	SHV-154	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
559	UPDATE	vanXYE	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
558	UPDATE	qacB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
555	UPDATE	OXA-133	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
554	UPDATE	OXA-163	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
557	UPDATE	SHV-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
556	UPDATE	vanYB	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
551	UPDATE	CTX-M-117	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
550	UPDATE	CMY-71	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
553	UPDATE	VIM-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
552	UPDATE	QnrB28	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1199	UPDATE	SHV-168	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1198	UPDATE	mefB	 efflux pump complex or subunit conferring antibiotic resistance; 	ARO_description; model_description; model_param; ARO_name	"UPDATED ARO_description with mef(B) is a macrolide efflux gene located in the vicinity of sul3 in Escherichia coli. There is also a mefB found in Streptococcus agalactiae that confers resistance to macrolides.
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
UPDATED ARO_name with mef(B)
"
1191	UPDATE	mdtM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1190	UPDATE	OXA-354	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1193	UPDATE	ErmH	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1192	UPDATE	VEB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1195	UPDATE	SHV-55	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1194	UPDATE	OXA-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1197	UPDATE	Mycobacterium tuberculosis rpsL mutations conferring resistance to Streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1196	UPDATE	OXA-71	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1759	UPDATE	vanF	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1758	UPDATE	OXA-326	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1757	UPDATE	emrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1756	UPDATE	CMY-93	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1755	UPDATE	CTX-M-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1754	UPDATE	vanO	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1753	UPDATE	SHV-148	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1752	UPDATE	MdtK	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1751	UPDATE	Erm(33)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1750	UPDATE	OXA-254	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1177	UPDATE	KPC-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1176	UPDATE	Mycobacterium tuberculosis katG mutations conferring resistance to isoniazid	 antibiotic resistant gene variant or mutant;  determinant of isoniazid resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
1175	UPDATE	Enterococcus faecium cls conferring resistance to daptomycin	 antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1174	UPDATE	QnrB22	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1173	UPDATE	TEM-54	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1172	UPDATE	OXA-194	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1171	UPDATE	tet44	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1170	UPDATE	CMY-46	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1179	UPDATE	IMP-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1178	UPDATE	CMY-81	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
511	UPDATE	dfrA3	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
510	UPDATE	CTX-M-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1005	UPDATE	Escherichia coli soxR with mutation conferring antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param; model_type_id	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
UPDATED model_type_id with 41091
"
1285	UPDATE	SAT-1	 determinant of resistance to nucleoside antibiotics;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1284	UPDATE	IND-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1287	UPDATE	CTX-M-110	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
512	UPDATE	CTX-M-82	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1281	UPDATE	OXA-110	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1280	UPDATE	QnrB12	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1283	UPDATE	KPC-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1282	UPDATE	SIM-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1003	UPDATE	OXA-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
879	UPDATE	TEM-185	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1289	UPDATE	OKP-B-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1288	UPDATE	OXA-82	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
514	UPDATE	LEN-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1579	UPDATE	QnrB9	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1578	UPDATE	SHV-123	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
689	UPDATE	CTX-M-123	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
688	UPDATE	MOX-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
685	UPDATE	OXA-239	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
684	UPDATE	SHV-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
687	UPDATE	APH(3')-Vc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
686	UPDATE	OXA-162	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
681	UPDATE	TEM-120	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
680	UPDATE	CMY-54	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
683	UPDATE	CMY-75	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
682	UPDATE	QnrS4	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
623	UPDATE	OXA-68	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1226	UPDATE	adeG	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
621	UPDATE	ErmF	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1224	UPDATE	Erm(30)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
627	UPDATE	Escherichia coli rpoB mutants conferring resistance to rifampicin	 determinant of rifamycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1222	UPDATE	FosA	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1221	UPDATE	OXA-231	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1243	UPDATE	mphA	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1220	UPDATE	OCH-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2035	UPDATE	CTX-M-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
407	UPDATE	OXA-352	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1370	UPDATE	AAC(6')-Ib10	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
405	UPDATE	OXA-202	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1372	UPDATE	ANT(2'')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1375	UPDATE	CMY-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1374	UPDATE	blaI	 antibiotic resistance gene cluster, cassette, or operon;  determinant of beta-lactam resistance;  gene modulating beta-lactam resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1377	UPDATE	CTX-M-60	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
400	UPDATE	PDC-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1379	UPDATE	OXA-313	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1378	UPDATE	AAC(3)-IIc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
452	UPDATE	QnrVC4	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
409	UPDATE	vanRL	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
408	UPDATE	OXA-380	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1343	UPDATE	OXA-166	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2031	UPDATE	OXA-173	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1344	UPDATE	MexH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2030	UPDATE	AAC(3)-IXa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
455	UPDATE	vanC	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
9	UPDATE	ACT-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
456	UPDATE	adeR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
457	UPDATE	OXA-93	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
379	UPDATE	OXA-148	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
378	UPDATE	TEM-214	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
647	UPDATE	TEM-89	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
371	UPDATE	SHV-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
370	UPDATE	SHV-112	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
373	UPDATE	MIR-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
372	UPDATE	qacA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
375	UPDATE	mdtH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
374	UPDATE	SHV-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
377	UPDATE	mepA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
376	UPDATE	lnuC	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1244	UPDATE	OXY-5-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
393	UPDATE	QnrS5	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
392	UPDATE	TUS-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
391	UPDATE	VIM-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
390	UPDATE	vanSG	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
397	UPDATE	OXA-357	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
396	UPDATE	sul3	 antibiotic target replacement protein;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
395	UPDATE	TLE beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
394	UPDATE	OXA-130	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
399	UPDATE	MIR-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
398	UPDATE	TEM-71	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2306	UPDATE	Escherichia coli acrR with mutation conferring multidrug antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1246	UPDATE	AAC(2')-Ic	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
244	UPDATE	SHV-164	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
247	UPDATE	TEM-158	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
246	UPDATE	CTX-M-126	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
241	UPDATE	ACT-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
240	UPDATE	vanRF	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
243	UPDATE	OXA-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
242	UPDATE	SHV-152	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
249	UPDATE	basS	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
248	UPDATE	OKP-B-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2274	UPDATE	RlmA(II)	 antibiotic target modifying enzyme;  gene involved in self-resistance to antibiotic;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2277	UPDATE	Bacillus Cluster B intrinsic mph	 determinant of macrolide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2404	UPDATE	Neisseria gonorrhoeae gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2279	UPDATE	Listeria monocytogenes mprF	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2278	UPDATE	Bifidobacteria intrinsic ileS conferring resistance to mupirocin	 determinant of mupirocin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
179	UPDATE	QnrA5	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
178	UPDATE	vanHA	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
177	UPDATE	IMP-51	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
176	UPDATE	CMY-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
175	UPDATE	CTX-M-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
174	UPDATE	CfxA2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
173	UPDATE	arr-4	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
172	UPDATE	OprN	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
171	UPDATE	TEM-78	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
170	UPDATE	IMP-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2051	UPDATE	dfrA15	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2050	UPDATE	OXA-331	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2053	UPDATE	dfrA7	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2052	UPDATE	APH(3'')-Ic	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2055	UPDATE	LRA-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2054	UPDATE	msrC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2057	UPDATE	SHV-179	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2056	UPDATE	mdtO	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2059	UPDATE	OKP-A-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2058	UPDATE	pp-flo	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
654	UPDATE	dfrA26	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
655	UPDATE	OXA-243	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
652	UPDATE	tcr3	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
653	UPDATE	AAC(3)-VIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1367	UPDATE	oleD	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
650	UPDATE	aadA	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2157	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to gentamicin C	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
1364	UPDATE	CMY-101	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1977	UPDATE	AAC(6')-Ik	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2698	UPDATE	MexCD-OprJ with NfxB mutation conferring resistance to ciprofloxacin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2697	UPDATE	EdeQ	 determinant of resistance to peptide antibiotics;  antibiotic inactivation enzyme;  gene involved in self-resistance to antibiotic;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2695	UPDATE	MexCD-OprJ with type B NfxB mutation	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2694	UPDATE	MexCD-OprJ with type A NfxB mutation	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2693	UPDATE	Type B NfxB	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1975	UPDATE	blt	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2691	UPDATE	Type A NfxB	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1365	UPDATE	AAC(6')-I30	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1974	UPDATE	emrD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1973	UPDATE	TEM-111	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1972	UPDATE	OXA-149	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1971	UPDATE	dfrB2	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1970	UPDATE	SHV-44	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1362	UPDATE	IMP-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1968	UPDATE	SHV-189	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1969	UPDATE	tet(35)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1618	UPDATE	OXA-362	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1619	UPDATE	L1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1616	UPDATE	CTX-M-152	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1617	UPDATE	vanE	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1614	UPDATE	TEM-194	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1615	UPDATE	APH(2'')-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1960	UPDATE	smeB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1613	UPDATE	CMY-38	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1610	UPDATE	OXA-74	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1611	UPDATE	SME-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1363	UPDATE	CARB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1768	UPDATE	CTX-M-144	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1769	UPDATE	CTX-M-115	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1361	UPDATE	OXA-223	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1762	UPDATE	aadA16	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1763	UPDATE	NDM-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1760	UPDATE	QnrB35	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1761	UPDATE	OXA-351	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1766	UPDATE	VIM-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1767	UPDATE	OKP-A-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1764	UPDATE	OXA-97	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1765	UPDATE	OXA-56	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1142	UPDATE	dfrA17	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1143	UPDATE	OXA-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1140	UPDATE	CMY-86	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1141	UPDATE	OXA-169	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1146	UPDATE	TEM-156	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1147	UPDATE	CMY-63	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1144	UPDATE	VgbB	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1145	UPDATE	CTX-M-124	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1148	UPDATE	OXA-363	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1149	UPDATE	AER-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
769	UPDATE	KPC-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
692	UPDATE	TEM-159	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
693	UPDATE	OXA-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1544	UPDATE	dfrE	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
691	UPDATE	vanRE	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
696	UPDATE	cfrA	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
697	UPDATE	Erm(42)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
694	UPDATE	CTX-M-40	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
695	UPDATE	CMY-66	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
698	UPDATE	TEM-205	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
699	UPDATE	QnrS9	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1548	UPDATE	APH(3')-Vb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1549	UPDATE	ErmB	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
542	UPDATE	adeH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
543	UPDATE	TEM-106	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
540	UPDATE	emrY	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
541	UPDATE	TEM-133	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
546	UPDATE	TLA-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
547	UPDATE	arr-5	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
544	UPDATE	AAC(6')-Is	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
545	UPDATE	GES-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
548	UPDATE	QnrB3	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
549	UPDATE	TEM-107	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
760	UPDATE	TEM-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
761	UPDATE	GES-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
766	UPDATE	SHV-102	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
767	UPDATE	OXA-207	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
764	UPDATE	FOX-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
765	UPDATE	QnrB7	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
414	UPDATE	OXA-377	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
415	UPDATE	TEM-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
416	UPDATE	OXA-204	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
417	UPDATE	QnrB6	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
410	UPDATE	AAC(3)-IIIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
411	UPDATE	QnrB11	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
412	UPDATE	OXA-117	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
413	UPDATE	OXA-144	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1384	UPDATE	OXA-382	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1385	UPDATE	mdsB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1386	UPDATE	ANT(9)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1387	UPDATE	OXA-99	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1380	UPDATE	TEM-193	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
419	UPDATE	SLB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1382	UPDATE	rmtG	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1383	UPDATE	IMI-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
368	UPDATE	CARB-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
369	UPDATE	SHV-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
366	UPDATE	Mycobacterium tuberculosis iniA mutant conferring resistance to Ethambutol	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
367	UPDATE	CTX-M-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
364	UPDATE	CMY-83	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
365	UPDATE	TEM-122	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
362	UPDATE	CTX-M-151	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
363	UPDATE	TEM-155	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
360	UPDATE	AAC(6')-Iy	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
361	UPDATE	OXA-278	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
380	UPDATE	CTX-M-147	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
381	UPDATE	QnrS1	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
382	UPDATE	QnrB61	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
383	UPDATE	Pseudomonas mutant PhoQ conferring resistance to colistin	 efflux pump complex or subunit conferring antibiotic resistance;  determinant of polymyxin resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
384	UPDATE	APH(2'')-IVa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
385	UPDATE	OXA-46	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
386	UPDATE	LEN-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
387	UPDATE	mdtA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
388	UPDATE	QnrB71	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
389	UPDATE	tetW	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1253	UPDATE	GES-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1077	UPDATE	OXA-420	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2191	UPDATE	AAC(6')-Iaj	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
258	UPDATE	OXA-208	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2193	UPDATE	TriB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2194	UPDATE	TriC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2195	UPDATE	OpmH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2196	UPDATE	Pseudomonas aeruginosa gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
2198	UPDATE	Pseudomonas aeruginosa parE conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
253	UPDATE	vanXYG	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
251	UPDATE	APH(3')-VIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
256	UPDATE	CMY-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
257	UPDATE	ACT-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
254	UPDATE	OXA-150	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
255	UPDATE	determinant of bleomycin resistance	 determinant of resistance to glycopeptide antibiotics;  gene involved in antibiotic sequestration; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2200	UPDATE	APH(3')-VI	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2201	UPDATE	PvrR	 determinant of aminoglycoside resistance;  gene conferring resistance via absence; 	model_description; model_param	"UPDATED model_description with An AMR detection model for instances where the absence of a protein - due to large-scale insertion elements, large deletions, or other methods of protein knockout - confers clinical resistance to a known antibiotic. These models include reference sequences. Protein knockout models are currently in development.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2202	UPDATE	AAC(3)-Ib/AAC(6')-Ib''	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_type; model_description	"UPDATED model_type with protein domain meta-model
UPDATED model_description with A meta-model used to detect specific domains of proteins that confer resistance to antibiotic(s) relative to wild type. These models include reference sequences, a curated BLASTP cut-off for each of the genes, and directionality of the fused genes (if known).
"
2203	UPDATE	MCR-1	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2204	UPDATE	AAC(6')-IId	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2205	UPDATE	MexJ	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2206	UPDATE	MexK	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2207	UPDATE	MexV	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2208	UPDATE	MexW	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2428	UPDATE	farA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2429	UPDATE	farB	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2421	UPDATE	efrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2422	UPDATE	efrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2423	UPDATE	msbA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2424	UPDATE	YojI	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1849	UPDATE	Mycobacterium tuberculosis tlyA mutations conferring resistance to aminoglycosides	 antibiotic target modifying enzyme;  antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2426	UPDATE	efmA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2427	UPDATE	efpA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2432	UPDATE	Klebsiella OmpK35 conferring resistance to beta-lactam	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	ARO_description; model_description; model_param; ARO_name; model_name	"UPDATED ARO_description with Klebsiella pneumoniae outer membrane porin protein. In beta-lactam-resistant Klebsiella, this porin is often deleted, limiting diffusion of the antibiotic into the cell. Klebsiella strains expressing OmpK35 are often beta-lactam sensitive even in the presence of beta-lactamases because of an inefficient mechanism.
UPDATED model_description with An AMR detection model for instances where the absence of a protein - due to large-scale insertion elements, large deletions, or other methods of protein knockout - confers clinical resistance to a known antibiotic. These models include reference sequences. Protein knockout models are currently in development.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
UPDATED ARO_name with Klebsiella pneumoniae OmpK35
UPDATED model_name with Klebsiella pneumoniae OmpK35
"
1848	UPDATE	CTX-M-75	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
168	UPDATE	VIM-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
169	UPDATE	IMP-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
164	UPDATE	vanN	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
165	UPDATE	VIM-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
166	UPDATE	TEM-77	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
167	UPDATE	CMY-39	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
160	UPDATE	OXA-236	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
161	UPDATE	SHV-56	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
162	UPDATE	KPC-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
163	UPDATE	OXA-376	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2518	UPDATE	tetB(48)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2519	UPDATE	LlmA 23S ribosomal RNA methyltransferase	 antibiotic target modifying enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2517	UPDATE	tetA(48)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
908	UPDATE	CTX-M-139	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2734	UPDATE	PmpM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
909	UPDATE	OXA-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2731	UPDATE	MexJK-OpmH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2732	UPDATE	MexVW-OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2733	UPDATE	TriABC-OpmH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
1090	UPDATE	TEM-169	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1091	UPDATE	IMP-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1814	UPDATE	AAC(6')-Ie-APH(2'')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1815	UPDATE	CTX-M-134	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1816	UPDATE	TEM-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1817	UPDATE	vgaB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1810	UPDATE	VIM-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1811	UPDATE	CARB-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1812	UPDATE	KHM-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1813	UPDATE	MOX-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1818	UPDATE	GES-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1819	UPDATE	TEM-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1098	UPDATE	vanB	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1099	UPDATE	OXA-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1609	UPDATE	QnrC	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1608	UPDATE	MexT	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1979	UPDATE	FosA4	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1978	UPDATE	OXA-200	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1601	UPDATE	LRA-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1976	UPDATE	mefA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1603	UPDATE	SHV-86	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1602	UPDATE	AAC(6')-Iai	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1605	UPDATE	cphA5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1604	UPDATE	CTX-M-84	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1607	UPDATE	Streptococcus pneumoniae PBP1a conferring resistance to amoxicillin	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1606	UPDATE	CTX-M-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
809	UPDATE	lnuB	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
808	UPDATE	TEM-171	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
803	UPDATE	cphA4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
802	UPDATE	QnrA3	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
801	UPDATE	mfpA	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
800	UPDATE	CTX-M-87	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
807	UPDATE	OKP-B-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
806	UPDATE	SHV-150	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
805	UPDATE	MexC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
804	UPDATE	tetB(P)	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1775	UPDATE	QnrS7	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1774	UPDATE	CTX-M-106	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1777	UPDATE	OXA-177	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1776	UPDATE	SHV-159	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1771	UPDATE	TEM-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1770	UPDATE	TEM-127	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1773	UPDATE	tet(43)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1772	UPDATE	aadA11	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1779	UPDATE	CTX-M-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1778	UPDATE	OKP-A-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
608	UPDATE	OXA-361	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1159	UPDATE	TEM-129	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1158	UPDATE	SHV-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1155	UPDATE	ACT-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1154	UPDATE	TEM-146	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1157	UPDATE	vanG	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1156	UPDATE	Erm(31)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1151	UPDATE	OXA-240	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1150	UPDATE	QnrVC5	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1153	UPDATE	KPC-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1152	UPDATE	CTX-M-39	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1555	UPDATE	SHV-140	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1554	UPDATE	norA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1551	UPDATE	OXA-78	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1550	UPDATE	smeR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1553	UPDATE	tetS	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1552	UPDATE	MUS-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
59	UPDATE	OXA-256	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
58	UPDATE	QnrB47	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1557	UPDATE	SHV-187	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1556	UPDATE	VIM-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
55	UPDATE	OXA-69	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
54	UPDATE	TEM-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
57	UPDATE	SHV-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
56	UPDATE	TEM-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
51	UPDATE	AAC(3)-IIIc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
50	UPDATE	SME-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
53	UPDATE	MOX-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
52	UPDATE	OXY-2-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
537	UPDATE	OXA-120	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
536	UPDATE	TEM-95	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
535	UPDATE	Morganella morganii gyrB conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
534	UPDATE	vanV	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
533	UPDATE	CARB-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
532	UPDATE	CTX-M-47	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
531	UPDATE	SAT-3	 determinant of resistance to nucleoside antibiotics;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
530	UPDATE	VIM-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
539	UPDATE	QnrB59	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
538	UPDATE	robA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	ARO_accession; ARO_name; ARO_description; model_param; model_description; ARO_id; model_name	"UPDATED ARO_accession with 3004108
UPDATED ARO_name with Enterobacter cloacae rob
UPDATED ARO_description with rob is a positive regulator for the acrAB efflux genes, and is structurally similar to SoxS and MarA.
UPDATED param_value with 350
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED ARO_id with 41229
UPDATED model_name with Enterobacter cloacae rob
"
1558	UPDATE	Bacillus subtilis mprF	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
429	UPDATE	mdsA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
428	UPDATE	OXY-2-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1399	UPDATE	OXA-315	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1398	UPDATE	OXA-108	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
421	UPDATE	TEM-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
420	UPDATE	CTX-M-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1395	UPDATE	Neisseria gonorrhoeae mutant porin PIB (por) with reduced permeability to antibiotic	 determinant of tetracycline resistance;  antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance;  protein modulating permeability to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
422	UPDATE	FOX-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1393	UPDATE	THIN-B beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
424	UPDATE	SHV-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1391	UPDATE	CTX-M-92	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
426	UPDATE	aadK	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1443	UPDATE	CARB-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1321	UPDATE	mecA	 antibiotic resistance gene cluster, cassette, or operon;  determinant of beta-lactam resistance;  antibiotic target replacement protein; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2183	UPDATE	glycopeptide resistance gene cluster VanB	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2182	UPDATE	glycopeptide resistance gene cluster VanD	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2181	UPDATE	glycopeptide resistance gene cluster VanF	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2180	UPDATE	glycopeptide resistance gene cluster VanL	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2186	UPDATE	glycopeptide resistance gene cluster VanG	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2185	UPDATE	glycopeptide resistance gene cluster VanM	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2184	UPDATE	glycopeptide resistance gene cluster VanC	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
227	UPDATE	OKP-B-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
226	UPDATE	OXA-113	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
225	UPDATE	CTX-M-88	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
224	UPDATE	MIR-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
223	UPDATE	GES-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
222	UPDATE	JOHN-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
221	UPDATE	CMY-100	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
220	UPDATE	TEM-92	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2213	UPDATE	opmE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2212	UPDATE	mexQ	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2211	UPDATE	mexP	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2217	UPDATE	mexN	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2216	UPDATE	mexM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2215	UPDATE	Pseudomonas aeruginosa gyrA and parC conferring resistance to fluoroquinolone	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2219	UPDATE	MexL	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
151	UPDATE	OKP-A-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
150	UPDATE	catB3	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
153	UPDATE	adeF	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
152	UPDATE	cpxA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
155	UPDATE	TEM-195	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
154	UPDATE	mgrA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
157	UPDATE	dfrA21	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
156	UPDATE	AAC(6')-Iaf	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2433	UPDATE	lrfA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
158	UPDATE	myrA	 antibiotic target modifying enzyme;  gene involved in self-resistance to antibiotic;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2431	UPDATE	hp1184	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2430	UPDATE	hp1181	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2436	UPDATE	D-Ala-D-Ala ligase	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2435	UPDATE	lmrP	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2434	UPDATE	Klebsiella OmpK36 conferring resistance to beta-lactam	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	ARO_description; model_description; model_param; ARO_name; model_name	"UPDATED ARO_description with Klebsiella pneumoniae outer membrane porin protein. In beta-lactam-resistant Klebsiella, this porin is often deleted, limiting diffusion of the antibiotic into the cell. Klebsiella strains expressing OmpK36 are often beta-lactam sensitive even in the presence of beta-lactamases because of an inefficient mechanism.
UPDATED model_description with An AMR detection model for instances where the absence of a protein - due to large-scale insertion elements, large deletions, or other methods of protein knockout - confers clinical resistance to a known antibiotic. These models include reference sequences. Protein knockout models are currently in development.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
UPDATED ARO_name with Klebsiella pneumoniae OmpK36
UPDATED model_name with Klebsiella pneumoniae OmpK36
"
2724	UPDATE	MuxABC-OpmB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2720	UPDATE	MuxC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2729	UPDATE	MexJK-OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
1807	UPDATE	OXA-70	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1806	UPDATE	OXA-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1805	UPDATE	TEM-131	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1804	UPDATE	OXA-107	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1803	UPDATE	QnrVC3	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1802	UPDATE	OXA-168	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1801	UPDATE	AAC(6')-Ib11	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1800	UPDATE	SHV-120	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1809	UPDATE	QnrB5	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1808	UPDATE	tet(A)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1256	UPDATE	bmr	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1948	UPDATE	TEM-167	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1949	UPDATE	cphA6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1257	UPDATE	QnrB68	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1942	UPDATE	BJP-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1943	UPDATE	Mycobacterium tuberculosis kasA mutant conferring resistance to isoniazid	 antibiotic resistant gene variant or mutant;  determinant of isoniazid resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1940	UPDATE	QnrB30	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1941	UPDATE	SHV-98	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1946	UPDATE	CTX-M-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1947	UPDATE	CTX-M-160	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1944	UPDATE	CTX-M-148	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1945	UPDATE	SHV-50	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
818	UPDATE	SHV-141	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
819	UPDATE	CTX-M-68	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1255	UPDATE	OXA-119	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2425	UPDATE	hmrM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
810	UPDATE	mecC	 antibiotic resistance gene cluster, cassette, or operon;  determinant of beta-lactam resistance;  antibiotic target replacement protein; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
811	UPDATE	TEM-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
812	UPDATE	CMY-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
813	UPDATE	OXA-216	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
814	UPDATE	TEM-113	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
815	UPDATE	GOB-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
816	UPDATE	OXA-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
817	UPDATE	CTX-M-158	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1623	UPDATE	GIM-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1250	UPDATE	CTX-M-96	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1622	UPDATE	vanWG	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1251	UPDATE	CTX-M-157	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1621	UPDATE	SHV-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1490	UPDATE	SHV-107	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1397	UPDATE	dfrC	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1492	UPDATE	MOX-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1493	UPDATE	PER-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1494	UPDATE	LAT-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1495	UPDATE	ACT-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1496	UPDATE	OXA-224	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1497	UPDATE	dfrA10	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1498	UPDATE	cphA8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1499	UPDATE	VEB-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
423	UPDATE	DHA-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1626	UPDATE	vgaE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1700	UPDATE	ACT-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1701	UPDATE	Erm(39)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1702	UPDATE	MIR-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1703	UPDATE	FosK	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1704	UPDATE	CMY-57	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1705	UPDATE	SHV-111	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1706	UPDATE	OXA-142	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1707	UPDATE	QnrB4	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1708	UPDATE	tet36	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1709	UPDATE	TEM-115	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1624	UPDATE	lmrD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1392	UPDATE	aadA22	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
427	UPDATE	OCH-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1390	UPDATE	arlR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1629	UPDATE	TEM-197	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1128	UPDATE	OXA-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1129	UPDATE	CMY-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1120	UPDATE	IMI-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1121	UPDATE	APH(3')-VIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1122	UPDATE	OXA-180	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1123	UPDATE	FOX-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1124	UPDATE	TEM-186	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1125	UPDATE	OKP-B-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1126	UPDATE	OXA-184	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1127	UPDATE	CTX-M-64	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
524	UPDATE	dfrA25	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
525	UPDATE	CMY-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
526	UPDATE	ACT-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
527	UPDATE	SHV-38	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1018	UPDATE	APH(3')-IIc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
521	UPDATE	OXA-386	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
522	UPDATE	floR	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 99
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
523	UPDATE	OXA-75	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1014	UPDATE	SHV-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1015	UPDATE	evgA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1016	UPDATE	OXA-255	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1017	UPDATE	CTX-M-86	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
528	UPDATE	OCH-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
529	UPDATE	SHV-185	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1012	UPDATE	KPC-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1013	UPDATE	APH(2'')-IIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1234	UPDATE	MIR-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1235	UPDATE	AAC(6')-Ib'	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1236	UPDATE	CMY-53	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1237	UPDATE	Mycobacterium tuberculosis rpoB mutants conferring resistance to rifampicin	 determinant of rifamycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
1230	UPDATE	CTX-M-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1231	UPDATE	mel	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1232	UPDATE	cmeR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1233	UPDATE	tet32	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1238	UPDATE	OXA-397	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1239	UPDATE	SHV-81	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
_version	N/A	N/A	N/A	N/A	NEW: 1.1.9 , OLD: 1.1.8
438	UPDATE	VIM-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
439	UPDATE	SHV-83	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
436	UPDATE	OXY-4-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
437	UPDATE	SHV-69	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
434	UPDATE	LEN-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
435	UPDATE	OKP-A-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
432	UPDATE	sav1866	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
433	UPDATE	ACT-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
430	UPDATE	OXA-87	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
431	UPDATE	Escherichia coli marR mutant conferring antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1630	UPDATE	IMP-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1961	UPDATE	TEM-105	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
238	UPDATE	SHV-137	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
239	UPDATE	OXA-83	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
234	UPDATE	QnrS8	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
235	UPDATE	OXA-181	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
236	UPDATE	ACT-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
237	UPDATE	BlaB beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
230	UPDATE	OXA-422	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
231	UPDATE	OXA-178	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
232	UPDATE	imiH	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
233	UPDATE	LEN-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
993	UPDATE	AAC(6')-Ib9	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2228	UPDATE	PEDO-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2229	UPDATE	PEDO-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2227	UPDATE	VCC-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2224	UPDATE	Pseudomonas aeruginosa oprD with mutation conferring resistance to imipenem	 protein modulating permeability to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2222	UPDATE	VEB-1b	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2223	UPDATE	MexZ	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2221	UPDATE	VEB-1a	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1	UPDATE	PDC-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
146	UPDATE	OXA-98	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
147	UPDATE	OXA-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
144	UPDATE	IMP-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
145	UPDATE	OXA-229	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
142	UPDATE	tet(E)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
143	UPDATE	cphA7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
140	UPDATE	AAC(6')-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
141	UPDATE	vanRB	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
148	UPDATE	SHV-92	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
149	UPDATE	aadA12	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2088	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2083	UPDATE	Mycoplasma hominis parC conferring resistance to fluoroquinolone	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2080	UPDATE	Escherichia coli 16S rRNA (rrsH) mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2081	UPDATE	patA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2086	UPDATE	Escherichia coli 16S rRNA (rrnB) mutation conferring resistance to tetracycline	 antibiotic resistant gene variant or mutant;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2087	UPDATE	aadA13	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2084	UPDATE	Mycobacterium abscessus 16S rRNA mutation conferring resistance to amikacin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2085	UPDATE	Escherichia coli 16S rRNA (rrnB) mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2712	UPDATE	MexXY-OprA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2713	UPDATE	MexXY-OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2711	UPDATE	MexXY-OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2716	UPDATE	OpmB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2717	UPDATE	MuxA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2718	UPDATE	MuxB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1832	UPDATE	QnrS2	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1833	UPDATE	OXA-374	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1830	UPDATE	APH(3'')-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1831	UPDATE	AAC(6')-Iid	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1836	UPDATE	OXA-201	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1837	UPDATE	CTX-M-59	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1834	UPDATE	TEM-94	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1835	UPDATE	tet(38)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1838	UPDATE	ACT-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1839	UPDATE	aadA14	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2154	UPDATE	Borrelia burgdorferi 16S rRNA mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2155	UPDATE	Propionibacterium acnes 16S rRNA mutation conferring resistance to tetracycline	 antibiotic resistant gene variant or mutant;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2156	UPDATE	NDM-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2405	UPDATE	Neisseria gonorrhoeae parC conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2402	UPDATE	Haemophilus parainfluenzae parC conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2403	UPDATE	Salmonella enterica gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2152	UPDATE	Neisseria meningitidis 16S rRNA mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 62514
UPDATED strand with +
UPDATED accession with NC_003112
UPDATED fmin with 60970
UPDATED sequence with TGAACATAAGAGTTTGATCCTGGCTCAGATTGAACGCTGGCGGCATGCTTTACACATGCAAGTCGGACGGCAGCACAGAGAAGCTTGCTTCTCGGGTGGCGAGTGGCGAACGGGTGAGTAACATATCGGAACGTACCGAGTAGTGGGGGATAACTGATCGAAAGATCAGCTAATACCGCATACGTCTTGAGAGAGAAAGCAGGGGACCTTCGGGCCTTGCGCTATTCGAGCGGCCGATATCTGATTAGCTAGTTGGTGGGGTAAAGGCCTACCAAGGCGACGATCAGTAGCGGGTCTGAGAGGATGATCCGCCACACTGGGACTGAGACACGGCCCAGACTCCTACGGGAGGCAGCAGTGGGGAATTTTGGACAATGGGCGCAAGCCTGATCCAGCCATGCCGCGTGTCTGAAGAAGGCCTTCGGGTTGTAAAGGACTTTTGTCAGGGAAGAAAAGGCTGTTGCTAATATCAGCGGCTGATGACGGTACCTGAAGAATAAGCACCGGCTAACTACGTGCCAGCAGCCGCGGTAATACGTAGGGTGCGAGCGTTAATCGGAATTACTGGGCGTAAAGCGGGCGCAGACGGTTACTTAAGCAGGATGTGAAATCCCCGGGCTCAACCCGGGAACTGCGTTCTGAACTGGGTGACTCGAGTGTGTCAGAGGGAGGTAGAATTCCACGTGTAGCAGTGAAATGCGTAGAGATGTGGAGGAATACCGATGGCGAAGGCAGCCTCCTGGGACAACACTGACGTTCATGCCCGAAAGCGTGGGTAGCAAACAGGATTAGATACCCTGGTAGTCCACGCCCTAAACGATGTCAATTAGCTGTTGGGCAACCTGATTGCTTGGTAGCGTAGCTAACGCGTGAAATTGACCGCCTGGGGAGTACGGTCGCAAGATTAAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGATGATGTGGATTAATTCGATGCAACGCGAAGAACCTTACCTGGTCTTGACATGTACGGAATCCTCCGGAGACGGAGGAGTGCCTTCGGGAGCCGTAACACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTCATTAGTTGCCATCATTCAGTTGGGCACTCTAATGAGACTGCCGGTGACAAGCCGGAGGAAGGTGGGGATGACGTCAAGTCCTCATGGCCCTTATGACCAGGGCTTCACACGTCATACAATGGTCGGTACAGAGGGTAGCCAAGCCGCGAGGCGGAGCCAATCTCACAAAACCGATCGTAGTCCGGATTGCACTCTGCAACTCGAGTGCATGAAGTCGGAATCGCTAGTAATCGCAGGTCAGCATACTGCGGTGAATACGTTCCCGGGTCTTGTACACACCGCCCGTCACACCATGGGAGTGGGGGATACCAGAAGTAGGTAGGATAACCACAAGGAGTCCGCTTACCACGGTATGCTTCATGACTGGGGTGAAGTCGTAACAAGGTAGCCGTAGGGGAACCTGCGGCTGGATCACCTCCTTTCT
UPDATED NCBI_taxonomy_name with Neisseria meningitidis MC58
UPDATED NCBI_taxonomy_id with 122586
UPDATED NCBI_taxonomy_cvterm_id with 39597
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2401	UPDATE	Haemophilus parainfluenzae gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
933	UPDATE	OKP-A-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
932	UPDATE	GES-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
931	UPDATE	OXA-316	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
937	UPDATE	OXA-242	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
936	UPDATE	OKP-A-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
935	UPDATE	OXA-314	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2409	UPDATE	Neisseria meningititis PBP2 conferring resistance to beta-lactam	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1955	UPDATE	OXA-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1954	UPDATE	TEM-154	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1957	UPDATE	VIM-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1956	UPDATE	IMI-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1951	UPDATE	TEM-76	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1950	UPDATE	arr-1	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1953	UPDATE	SHV-155	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1952	UPDATE	OXA-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1959	UPDATE	ACT-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1958	UPDATE	VIM-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
829	UPDATE	DHA-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
828	UPDATE	TEM-83	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
825	UPDATE	SHV-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
824	UPDATE	vanD	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
827	UPDATE	QnrB55	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
826	UPDATE	TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
821	UPDATE	Mycobacterium tuberculosis embB mutants conferring resistance to rifampicin	 determinant of rifamycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
820	UPDATE	mdtB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
823	UPDATE	cat	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
822	UPDATE	QnrD1	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1536	UPDATE	OXA-421	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1483	UPDATE	AAC(3)-Xa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1482	UPDATE	SME-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1481	UPDATE	OXY-1-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1480	UPDATE	EXO beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1487	UPDATE	SHV-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1486	UPDATE	CARB-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1485	UPDATE	MOX-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1484	UPDATE	ACT-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1489	UPDATE	CMY-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1488	UPDATE	TEM-75	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
797	UPDATE	TEM-55	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2411	UPDATE	Shigella flexneri gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
795	UPDATE	OXA-324	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
794	UPDATE	Staphylococcus aureus rpoC conferring resistance to daptomycin	 antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
793	UPDATE	IMP-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
792	UPDATE	OXY-1-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
791	UPDATE	SHV-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
929	UPDATE	GES-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1719	UPDATE	ceoA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1718	UPDATE	DIM-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
799	UPDATE	CTX-M-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
798	UPDATE	cmeC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
612	UPDATE	PDC-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2144	UPDATE	Mycobacterium bovis embB mutations conferring resistance to ethambutol	 antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
613	UPDATE	VEB-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1272	UPDATE	CTX-M-67	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1139	UPDATE	dfrA12	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1138	UPDATE	tet(D)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1133	UPDATE	SHV-109	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1132	UPDATE	OXA-88	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1131	UPDATE	AAC(3)-Ic	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1130	UPDATE	PDC-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1137	UPDATE	TEM-90	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1136	UPDATE	MIR-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1135	UPDATE	Staphylococcus aureus parE conferring resistance to aminocoumarin	 determinant of aminocoumarin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1134	UPDATE	linB	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
614	UPDATE	SFB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1277	UPDATE	GES-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
519	UPDATE	VIM-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
518	UPDATE	vanXYN	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
926	UPDATE	KPC-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1009	UPDATE	IND-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1008	UPDATE	BEL-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1007	UPDATE	OKP-A-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1006	UPDATE	tet(V)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
513	UPDATE	CARB-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1004	UPDATE	vanRD	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
515	UPDATE	mgtA	 determinant of macrolide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1002	UPDATE	AAC(6')-Ib4	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1001	UPDATE	Staphylococcus aureus mprF mutations conferring resistance to daptomycin	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param; ARO_name	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
UPDATED ARO_name with Staphylococcus aureus mprF with mutation conferring resistance to daptomycin
"
1000	UPDATE	AAC(6')-Ib-Hangzhou	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1227	UPDATE	aadA2	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
622	UPDATE	DHA-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1225	UPDATE	TEM-178	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
620	UPDATE	OXA-320	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1223	UPDATE	viomycin phosphotransferase	 determinant of resistance to peptide antibiotics;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
626	UPDATE	vanHB	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
625	UPDATE	QnrB46	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
624	UPDATE	Mycobacterium leprae rpoB mutations conferring resistance to rifampicin	 determinant of rifamycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
629	UPDATE	VIM-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
628	UPDATE	catB10	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1229	UPDATE	CTX-M-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1228	UPDATE	CMY-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2	UPDATE	CblA-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1286	UPDATE	SHV-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1714	UPDATE	ErmW	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
11	UPDATE	Erm(34)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
10	UPDATE	CARB-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
13	UPDATE	LRA-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
12	UPDATE	TEM-126	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
15	UPDATE	TEM-59	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
14	UPDATE	TEM-72	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
17	UPDATE	tet(45)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
16	UPDATE	KPC-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
19	UPDATE	IMP-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
18	UPDATE	OXA-212	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
928	UPDATE	carA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
201	UPDATE	OCH-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
200	UPDATE	LEN-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
203	UPDATE	OXY-2-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
202	UPDATE	SHV-101	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
205	UPDATE	APH(4)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
204	UPDATE	VIM-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
207	UPDATE	GES-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
206	UPDATE	FomA	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
209	UPDATE	AAC(3)-Ib/AAC(6')-Ib''	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
208	UPDATE	CMY-105	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1573	UPDATE	SHV-110	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1572	UPDATE	OXA-205	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1571	UPDATE	vanSE	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1570	UPDATE	OprA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2231	UPDATE	CPS-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2230	UPDATE	PEDO-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2233	UPDATE	MSI-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2232	UPDATE	ESP-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2235	UPDATE	SPG-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2234	UPDATE	MSI-OXA	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1576	UPDATE	OXA-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1575	UPDATE	OXA-91	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1574	UPDATE	Mycobacterium tuberculosis inhA mutations conferring resistance to isoniazid	 antibiotic resistant gene variant or mutant;  determinant of isoniazid resistance;  determinant of triclosan resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
229	UPDATE	vanTmL	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
228	UPDATE	sdiA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2097	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to paromomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2096	UPDATE	Escherichia coli 16S rRNA (rrsC) mutation conferring resistance to kasugamicin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2091	UPDATE	Mycobacterium chelonae 16S rRNA mutation conferring resistance to gentamicin C	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2090	UPDATE	Mycobacterium abscessus 16S rRNA mutation conferring resistance to kanamycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2093	UPDATE	Chlamydophila psittaci 16S rRNA mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2092	UPDATE	Enterobacter aerogenes acrR with mutation conferring multidrug antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2099	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to kanamycin A	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2098	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to viomycin	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2525	UPDATE	AAC(6')-34	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2524	UPDATE	AAC(2')-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2527	UPDATE	mphI	 determinant of macrolide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2526	UPDATE	VgbC	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2521	UPDATE	BahA	 determinant of resistance to peptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2520	UPDATE	CatU	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2523	UPDATE	VatI	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2522	UPDATE	TaeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2529	UPDATE	cpaA	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with antibiotic inactivation enzyme
UPDATED category_aro_cvterm_id with 36696
UPDATED category_aro_accession with 3000557
UPDATED category_aro_description with Enzyme that catalyzes the inactivation of an antibiotic resulting in resistance.  Inactivation includes chemical modification, destruction, etc.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2528	UPDATE	rphB	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2705	UPDATE	MexEF-OprN with MexS mutations conferring resistance to chloramphenicol and ciprofloxacin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2704	UPDATE	MexEF-OprN with MexT mutation conferring resistance to chloramphenicol and ciprofloxacin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2707	UPDATE	MexEF-OprN with MvaT deletion conferring resistance to chloramphenicol and norfloxacin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2706	UPDATE	MvaT	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with An AMR detection model for instances where the absence of a protein - due to large-scale insertion elements, large deletions, or other methods of protein knockout - confers clinical resistance to a known antibiotic. These models include reference sequences. Protein knockout models are currently in development.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1829	UPDATE	CMY-87	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1828	UPDATE	GES-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1825	UPDATE	CTX-M-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1824	UPDATE	oleI	 determinant of macrolide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1827	UPDATE	SHV-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1826	UPDATE	ykkC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1821	UPDATE	AAC(6')-Ir	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1820	UPDATE	bacA	 determinant of resistance to peptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1823	UPDATE	OXY-1-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1822	UPDATE	Staphylococcus aureus gyrB conferring resistance to aminocoumarin	 determinant of aminocoumarin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2147	UPDATE	Escherichia coli EF-Tu mutants conferring resistance to Enacyloxin IIa	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2146	UPDATE	Escherichia coli 16S rRNA (rrnB) mutation conferring resistance to streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2145	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to tetracycline	 antibiotic resistant gene variant or mutant;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2412	UPDATE	Shigella flexneri parC conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2143	UPDATE	Borrelia burgdorferi 16S rRNA mutation conferring resistance to gentamicin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2142	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsA) mutation conferring resistance to viomycin	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 3825143
UPDATED strand with -
UPDATED accession with NC_008596.1
UPDATED fmin with 3823614
UPDATED sequence with AGAAAGGAGGTGATCCAGCCGCACCTTCCGGTACGGCTACCTTGTTACGACTTCGTCCCAATCGCCGATCCCACCTTCGACGGCTCCCTCCACAAGGGTTAGGCCACCGGCTTCGGGTGTTACCGACTTTCATGACGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGCAGCGTTGCTGATCTGCGATTACTAGCGACTCCGACTTCACGGGGTCGAGTTGCAGACCCCGATCCGAACTGAGACCGGCTTTGAAAGGATTCGCTCCACCTCACGGCATCGCAGCCCTTTGTACCGGCCATTGTAGCATGTGTGAAGCCCTGGACATAAGGGGCATGATGACTTGACGTCATCCCCACCTTCCTCCGAGTTGACCCCGGCAGTCTCTCACGAGTCCCCACCATAACGTGCTGGCAACATGAGACAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCATGCACCACCTGCACACAGGCCACAAGGGAACCGACATCTCTGCCGGCGTCCTGTGCATGTCAAACCCAGGTAAGGTTCTTCGCGTTGCATCGAATTAATCCACATGCTCCGCCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTTAGCCTTGCGGCCGTACTCCCCAGGCGGGGTACTTAATGCGTTAGCTACGGCACGGATCCCAAGGAAGGAAACCCACACCTAGTACCCACCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTCCCCACGCTTTCGCTCCTCAGCGTCAGTTACTGCCCAGAGACCCGCCTTCGCCACCGGTGTTCCTCCTGATATCTGCGCATTCCACCGCTACACCAGGAATTCCAGTCTCCCCTGCAGTACTCTAGTCTGCCCGTATCGCCCGCACGCCCACAGTTAAGCTGTGAGTTTTCACGAACAACGCGACAAACCACCTACGAGCTCTTTACGCCCAGTAATTCCGGACAACGCTCGGACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGTCCTTCTTCTGCACATACCGTCACTTGCGCTTCGTCTGTGCTGAAAGAGGTTTACAACCCGAAGGCCGTCATCCCTCACGCGGCGTCGCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAGTGTGGCCGGTCACCCTCTCAGGCCGGCTACCCGTCGTCGCCTTGGTAGGCCATCACCCCACCAACAAGCTGATAGGCCGCGGGCCCATCCCACACCGCAAAAGCTTTCCCCTACCAGGCCATGCGACCAGCAGGGTGTATTCGGTATTAGACCCAGTTTCCCAGGCTTATCCCAAAGTGCAGGGCAGATCACCCACGTGTTACTCACCCGTTCGCCACTCGAGTACCCCCGAAAGGGCCTTTCCGTTCGACTTGCATGTGTTAAGCACGCCGCCAGCGTTCGTCCTGAGCCAGGATCAAACTCTCCAAACAAAAAC
UPDATED NCBI_taxonomy_name with Mycobacterium smegmatis str. MC2 155
UPDATED NCBI_taxonomy_id with 246196
UPDATED NCBI_taxonomy_cvterm_id with 36769
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2141	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to neomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2140	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
920	UPDATE	TEM-152	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
921	UPDATE	OKP-A-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
922	UPDATE	AAC(6')-30/AAC(6')-Ib' fusion protein	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
923	UPDATE	VIM-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
924	UPDATE	AAC(6')-33	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
925	UPDATE	AAC(3)-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2149	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsA) mutation conferring resistance to hygromycin B	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 3825143
UPDATED strand with -
UPDATED accession with NC_008596.1
UPDATED fmin with 3823614
UPDATED sequence with AGAAAGGAGGTGATCCAGCCGCACCTTCCGGTACGGCTACCTTGTTACGACTTCGTCCCAATCGCCGATCCCACCTTCGACGGCTCCCTCCACAAGGGTTAGGCCACCGGCTTCGGGTGTTACCGACTTTCATGACGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGCAGCGTTGCTGATCTGCGATTACTAGCGACTCCGACTTCACGGGGTCGAGTTGCAGACCCCGATCCGAACTGAGACCGGCTTTGAAAGGATTCGCTCCACCTCACGGCATCGCAGCCCTTTGTACCGGCCATTGTAGCATGTGTGAAGCCCTGGACATAAGGGGCATGATGACTTGACGTCATCCCCACCTTCCTCCGAGTTGACCCCGGCAGTCTCTCACGAGTCCCCACCATAACGTGCTGGCAACATGAGACAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCATGCACCACCTGCACACAGGCCACAAGGGAACCGACATCTCTGCCGGCGTCCTGTGCATGTCAAACCCAGGTAAGGTTCTTCGCGTTGCATCGAATTAATCCACATGCTCCGCCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTTAGCCTTGCGGCCGTACTCCCCAGGCGGGGTACTTAATGCGTTAGCTACGGCACGGATCCCAAGGAAGGAAACCCACACCTAGTACCCACCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTCCCCACGCTTTCGCTCCTCAGCGTCAGTTACTGCCCAGAGACCCGCCTTCGCCACCGGTGTTCCTCCTGATATCTGCGCATTCCACCGCTACACCAGGAATTCCAGTCTCCCCTGCAGTACTCTAGTCTGCCCGTATCGCCCGCACGCCCACAGTTAAGCTGTGAGTTTTCACGAACAACGCGACAAACCACCTACGAGCTCTTTACGCCCAGTAATTCCGGACAACGCTCGGACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGTCCTTCTTCTGCACATACCGTCACTTGCGCTTCGTCTGTGCTGAAAGAGGTTTACAACCCGAAGGCCGTCATCCCTCACGCGGCGTCGCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAGTGTGGCCGGTCACCCTCTCAGGCCGGCTACCCGTCGTCGCCTTGGTAGGCCATCACCCCACCAACAAGCTGATAGGCCGCGGGCCCATCCCACACCGCAAAAGCTTTCCCCTACCAGGCCATGCGACCAGCAGGGTGTATTCGGTATTAGACCCAGTTTCCCAGGCTTATCCCAAAGTGCAGGGCAGATCACCCACGTGTTACTCACCCGTTCGCCACTCGAGTACCCCCGAAAGGGCCTTTCCGTTCGACTTGCATGTGTTAAGCACGCCGCCAGCGTTCGTCCTGAGCCAGGATCAAACTCTCCAAACAAAAAC
UPDATED NCBI_taxonomy_name with Mycobacterium smegmatis str. MC2 155
UPDATED NCBI_taxonomy_id with 246196
UPDATED NCBI_taxonomy_cvterm_id with 36769
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2148	UPDATE	Ureaplasma urealyticum  gyrB conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1920	UPDATE	vanSF	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1921	UPDATE	EreB	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1922	UPDATE	marA	 efflux pump complex or subunit conferring antibiotic resistance;  protein modulating permeability to antibiotic;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1923	UPDATE	APH(3'')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1924	UPDATE	vanM	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1925	UPDATE	MexB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1926	UPDATE	CMY-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1927	UPDATE	SHV-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1928	UPDATE	OXA-50	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1929	UPDATE	ACT-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
832	UPDATE	SHV-161	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
833	UPDATE	CfxA5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
830	UPDATE	SHV-157	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
831	UPDATE	OKP-B-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
836	UPDATE	TEM-68	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
837	UPDATE	vatH	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
834	UPDATE	FosA3	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
835	UPDATE	APH(3')-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
838	UPDATE	CTX-M-102	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
839	UPDATE	CMY-44	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
3	UPDATE	Escherichia coli ompF with mutation	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance;  protein modulating permeability to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1267	UPDATE	QnrB40	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
784	UPDATE	AAC(6')-Iv	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
785	UPDATE	OXY-2-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
786	UPDATE	vanHO	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
787	UPDATE	dfrA23	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
780	UPDATE	CARB-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
781	UPDATE	QnrB25	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
782	UPDATE	OXA-63	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1729	UPDATE	CTX-M-66	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1726	UPDATE	FOX-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1727	UPDATE	SHV-73	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1724	UPDATE	vanHM	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1725	UPDATE	TEM-101	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
788	UPDATE	SHV-46	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
789	UPDATE	IMP-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1720	UPDATE	tap	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1721	UPDATE	Mycobacterium leprae folP with mutation conferring resistance to dapsone	 antibiotic resistant gene variant or mutant;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
468	UPDATE	Erm(37)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
60	UPDATE	QnrS6	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
61	UPDATE	OXA-330	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
62	UPDATE	CMY-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
63	UPDATE	AAC(6')-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 230
UPDATED param_value with 350
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
64	UPDATE	CMY-70	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
65	UPDATE	GES-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
66	UPDATE	SHV-41	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
67	UPDATE	OXA-391	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
68	UPDATE	TEM-132	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
69	UPDATE	aadA23	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1371	UPDATE	CTX-M-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1588	UPDATE	QnrB50	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1589	UPDATE	PER-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
406	UPDATE	ACC-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1582	UPDATE	dfrA5	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1583	UPDATE	QnrVC6	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1580	UPDATE	catIII	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 529
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1581	UPDATE	ACT-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1586	UPDATE	CTX-M-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1373	UPDATE	CMY-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1584	UPDATE	tet(41)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1585	UPDATE	CMY-73	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
159	UPDATE	vgaALC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
404	UPDATE	OXA-217	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
508	UPDATE	tetA(P)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
509	UPDATE	FOX-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1032	UPDATE	OXA-365	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
507	UPDATE	rosB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
504	UPDATE	TEM-52	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1031	UPDATE	APH(6)-Id	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
502	UPDATE	aadA17	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
503	UPDATE	CTX-M-69	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1034	UPDATE	QnrA7	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
402	UPDATE	tet(Y)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1212	UPDATE	OXA-141	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
631	UPDATE	TEM-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
632	UPDATE	basR	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1211	UPDATE	VIM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1216	UPDATE	SHV-119	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
635	UPDATE	OXA-332	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
636	UPDATE	CFE-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
637	UPDATE	OXY-6-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
638	UPDATE	ACT-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
639	UPDATE	AAC(3)-IV	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_value with 400
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1218	UPDATE	TEM-219	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
927	UPDATE	OXA-381	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2416	UPDATE	abcA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1728	UPDATE	OXA-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
783	UPDATE	NDM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1454	UPDATE	CMY-112	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1455	UPDATE	IND-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1456	UPDATE	IMP-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1105	UPDATE	AAC(3)-VIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1450	UPDATE	Escherichia coli parC conferring resistance to fluoroquinolone	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1103	UPDATE	CMY-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1452	UPDATE	TEM-216	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1453	UPDATE	vanYD	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1458	UPDATE	TEM-157	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1459	UPDATE	CTX-M-78	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1108	UPDATE	Enterococcus faecium liaS mutant conferring daptomycin resistance	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1109	UPDATE	CAU-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1722	UPDATE	TEM-184	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1723	UPDATE	IMP-44	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1577	UPDATE	AAC(6')-32	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
959	UPDATE	OXA-64	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
958	UPDATE	OXA-418	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
216	UPDATE	LEN-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
217	UPDATE	vanXA	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
214	UPDATE	SHV-121	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
215	UPDATE	bcrC	 determinant of resistance to peptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
213	UPDATE	OXA-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
210	UPDATE	SHV-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
211	UPDATE	TEM-206	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
218	UPDATE	npmA	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
219	UPDATE	OKP-A-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
957	UPDATE	tet(G)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
956	UPDATE	TEM-88	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
4	UPDATE	SHV-52	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2550	UPDATE	Clostridium difficile gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2551	UPDATE	glycopeptide resistance gene cluster VanI	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
2396	UPDATE	OXA-368	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2397	UPDATE	pgpB	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2395	UPDATE	apmA	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2398	UPDATE	TEM-220	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2399	UPDATE	oqxA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1858	UPDATE	OXA-387	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1859	UPDATE	QnrVC7	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1850	UPDATE	FomB	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1851	UPDATE	KPC-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1852	UPDATE	rmtF	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1853	UPDATE	OXA-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1854	UPDATE	rmtA	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1855	UPDATE	CTX-M-72	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1856	UPDATE	QnrB20	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1857	UPDATE	VIM-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
919	UPDATE	PER-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
918	UPDATE	TEM-49	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
915	UPDATE	SHV-106	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
914	UPDATE	ANT(6)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
917	UPDATE	SHV-186	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
916	UPDATE	OXA-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
911	UPDATE	CMY-50	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
910	UPDATE	rphA	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
913	UPDATE	OXY-6-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
912	UPDATE	LEN-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
516	UPDATE	PmrC	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1420	UPDATE	aadA5	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1423	UPDATE	TEM-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1933	UPDATE	SHV-160	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1932	UPDATE	IMP-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1931	UPDATE	TEM-150	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1930	UPDATE	CTX-M-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1937	UPDATE	OXA-118	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1936	UPDATE	CTX-M-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1935	UPDATE	Mycobacterium tuberculosis gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A model parameter to describe mutations in multiple genes or proteins where resistance is co-dependent on each. For example, the G247S SNP in M. tuberculosis gyrA does not confer resistance to fluoroquinolones. However, when the D500N SNP is also present in gyrB, resistance is conferred. In this case, gyrA G247S is co-dependent on gyrB D500N to confer resistance. This parameter is noted on relevant models with the following notation: [cvterm-id-gene-1],[gene-1-SNP]+[cvterm-id-gene-2],[gene-2-SNP]+ ... +[cvterm-id-gene-n],[gene-n-SNP] e.g. 39879,G247S+40052,D500N. This parameter is not currently included in any detection algorithms.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
1934	UPDATE	lnuD	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1939	UPDATE	AAC(6')-Ix	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1938	UPDATE	mtrD	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1424	UPDATE	OXY-2-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
847	UPDATE	CTX-M-108	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
846	UPDATE	DHA-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
845	UPDATE	TEM-163	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
844	UPDATE	CMY-117	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
843	UPDATE	QnrB14	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
842	UPDATE	PmrE	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
841	UPDATE	CTX-M-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
840	UPDATE	CMY-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1426	UPDATE	IMP-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
849	UPDATE	OXA-138	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
848	UPDATE	OKP-A-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
459	UPDATE	CTX-M-94	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1587	UPDATE	OXA-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1739	UPDATE	SHV-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1738	UPDATE	CTX-M-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1731	UPDATE	mphB	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1730	UPDATE	OXA-235	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1733	UPDATE	OXA-415	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1732	UPDATE	SHV-151	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1735	UPDATE	vatA	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1734	UPDATE	IND-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1737	UPDATE	ANT(4')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1736	UPDATE	GES-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1039	UPDATE	dfrB3	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
753	UPDATE	SMB-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
752	UPDATE	vanRM	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
751	UPDATE	TEM-217	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
750	UPDATE	SHV-172	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
757	UPDATE	CMY-80	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
756	UPDATE	Enterococcus faecium liaR mutant conferring daptomycin resistance	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
755	UPDATE	KPC-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
754	UPDATE	CTX-M-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
759	UPDATE	OCH-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
758	UPDATE	OXA-198	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1595	UPDATE	mecB	 antibiotic resistance gene cluster, cassette, or operon;  antibiotic target replacement protein;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
506	UPDATE	IMP-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1597	UPDATE	SHV-2A	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1596	UPDATE	OXA-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1591	UPDATE	CMY-64	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1590	UPDATE	QnrB27	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1593	UPDATE	CMY-99	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1592	UPDATE	dfrA14	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1599	UPDATE	SHV-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1030	UPDATE	vanZA	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1025	UPDATE	TEM-136	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1024	UPDATE	AAC(6')-Ib-SK	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1027	UPDATE	tet(H)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1026	UPDATE	SHV-74	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1021	UPDATE	CTX-M-54	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1020	UPDATE	OXA-241	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1023	UPDATE	IMP-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1022	UPDATE	TEM-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1036	UPDATE	vanWB	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1029	UPDATE	CMY-102	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1028	UPDATE	SHV-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
500	UPDATE	OXA-164	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
501	UPDATE	AAC(3)-VIIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
605	UPDATE	OXA-96	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
604	UPDATE	OXA-385	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
607	UPDATE	TEM-201	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
606	UPDATE	IMI-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
601	UPDATE	dfrA20	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
600	UPDATE	CMY-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
603	UPDATE	mdtG	 efflux pump complex or subunit conferring antibiotic resistance; 	ARO_description; model_description; model_param	"UPDATED ARO_description with The MdtG protein, also named YceE, appears to be a member of the major facilitator superfamily of transporters, and it has been reported, when overexpressed, to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon.
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
602	UPDATE	VIM-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1205	UPDATE	VIM-39	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1204	UPDATE	tcmA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1207	UPDATE	DHA-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1206	UPDATE	qepA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
609	UPDATE	emrK	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1200	UPDATE	msrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1203	UPDATE	Mycobacterium tuberculosis ndh mutant conferring resistance to isoniazid	 antibiotic resistant gene variant or mutant;  determinant of isoniazid resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1202	UPDATE	CTX-M-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
633	UPDATE	OXA-355	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
634	UPDATE	smeF	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1217	UPDATE	OXA-139	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1214	UPDATE	TEM-134	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1215	UPDATE	FosC	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1447	UPDATE	OKP-A-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1110	UPDATE	LEN-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1445	UPDATE	AcrE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1444	UPDATE	IND-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1115	UPDATE	OXA-435	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1442	UPDATE	mdtN	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1117	UPDATE	ErmD	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 242
UPDATED param_value with 500
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1116	UPDATE	arr-2	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1119	UPDATE	EBR-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1118	UPDATE	OXA-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1351	UPDATE	QnrVC1	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1449	UPDATE	OXA-59	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1448	UPDATE	SHV-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1219	UPDATE	vanRN	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
461	UPDATE	OXA-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1356	UPDATE	dfrA22	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
463	UPDATE	CTX-M-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
489	UPDATE	Mycobacterium tuberculosis gidB mutation conferring resistance to streptomycin	 antibiotic target modifying enzyme;  antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
488	UPDATE	SHV-156	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
487	UPDATE	macB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
485	UPDATE	TEM-191	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
484	UPDATE	QnrB49	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
483	UPDATE	GES-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
482	UPDATE	LEN-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
481	UPDATE	VIM-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
480	UPDATE	GES-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
199	UPDATE	SRT-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
198	UPDATE	TEM-138	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
195	UPDATE	CTX-M-58	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
194	UPDATE	SHV-61	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
197	UPDATE	CTX-M-56	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
196	UPDATE	Mycobacterium tuberculosis embB mutations conferring resistance to ethambutol	 antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
191	UPDATE	OXA-199	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
190	UPDATE	OXA-195	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
193	UPDATE	TEM-121	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
192	UPDATE	CTX-M-38	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1106	UPDATE	NDM-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1107	UPDATE	PDC-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1104	UPDATE	acrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2383	UPDATE	ANT(4')-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1457	UPDATE	CTX-M-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2387	UPDATE	Erm(47)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2386	UPDATE	cipA	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1102	UPDATE	QnrB29	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1451	UPDATE	MIR-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1100	UPDATE	OXA-245	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1101	UPDATE	CTX-M-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
902	UPDATE	OXA-92	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
903	UPDATE	APH(2'')-Ig	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
900	UPDATE	tet(C)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
901	UPDATE	LCR-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
906	UPDATE	CARB-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
904	UPDATE	rmtB	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
905	UPDATE	CTX-M-93	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1843	UPDATE	rmtD	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1842	UPDATE	IMI-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1841	UPDATE	OXA-76	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1840	UPDATE	CMY-59	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1847	UPDATE	emrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1846	UPDATE	CTX-M-91	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1845	UPDATE	OXA-312	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1844	UPDATE	OXA-128	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2614	UPDATE	mphD	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1908	UPDATE	OKP-A-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1909	UPDATE	AAC(6')-Iak	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1906	UPDATE	CTX-M-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1907	UPDATE	vanSA	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1904	UPDATE	ACT-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1905	UPDATE	ACT-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1902	UPDATE	OXA-246	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1903	UPDATE	mdtE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 35929
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1900	UPDATE	ACT-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1901	UPDATE	CTX-M-51	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
854	UPDATE	CMY-58	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
855	UPDATE	TEM-142	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
856	UPDATE	mepR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
857	UPDATE	NfxB	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
850	UPDATE	OXA-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
851	UPDATE	Mycobacterium tuberculosis pncA mutations conferring resistance to pyrazinamide	 antibiotic resistant gene variant or mutant;  determinant of pyrazinamide resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
852	UPDATE	QnrB62	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
853	UPDATE	OXA-160	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
858	UPDATE	IND-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
425	UPDATE	TEM-182	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
740	UPDATE	QnrB21	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
741	UPDATE	CfxA	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
742	UPDATE	AAC(3)-Id	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
743	UPDATE	arr-3	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
744	UPDATE	vanSL	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
745	UPDATE	CMY-40	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
746	UPDATE	AAC(2')-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
747	UPDATE	QnrA4	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
748	UPDATE	cmeB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
749	UPDATE	SHV-97	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1050	UPDATE	AAC(6')-Ii	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1051	UPDATE	LEN-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1052	UPDATE	OXA-206	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1053	UPDATE	SHV-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1055	UPDATE	Escherichia coli parE conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1056	UPDATE	VIM-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1057	UPDATE	CTX-M-114	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1058	UPDATE	VIM-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1059	UPDATE	APH(9)-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1696	UPDATE	Salmonella serovars gyrB conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1697	UPDATE	TEM-135	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1694	UPDATE	OXA-353	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1695	UPDATE	DHA-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1692	UPDATE	tetM	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1693	UPDATE	TEM-143	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1690	UPDATE	OXA-317	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1691	UPDATE	CMY-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
715	UPDATE	PDC-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1698	UPDATE	OCH-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1699	UPDATE	vanXO	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1278	UPDATE	TEM-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1279	UPDATE	TEM-104	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
618	UPDATE	emeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
619	UPDATE	SHV-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1270	UPDATE	QnrS3	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1271	UPDATE	AAC(6')-Iw	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
610	UPDATE	SHV-153	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
611	UPDATE	OXA-328	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
616	UPDATE	NDM-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
617	UPDATE	OXA-147	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1276	UPDATE	OXA-210	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
615	UPDATE	OXA-211	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
711	UPDATE	SHV-62	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
710	UPDATE	dfrB6	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1491	UPDATE	lnuF	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1472	UPDATE	DHA-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1473	UPDATE	CTX-M-44	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1470	UPDATE	QnrB26	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1471	UPDATE	adeI	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1476	UPDATE	TEM-199	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1477	UPDATE	SHV-39	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1474	UPDATE	MexR	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1475	UPDATE	SHV-99	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1478	UPDATE	CARB-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1479	UPDATE	IMP-40	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1304	UPDATE	CTX-M-85	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1305	UPDATE	OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1306	UPDATE	IND-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1307	UPDATE	OXY-1-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1300	UPDATE	MexF	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1301	UPDATE	Staphylococcus aureus cls conferring resistance to daptomycin	 antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1302	UPDATE	tet34	 protein(s) conferring antibiotic resistance via molecular bypass;  determinant of tetracycline resistance; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED category_aro_name with determinant of tetracycline resistance
UPDATED category_aro_cvterm_id with 36611
UPDATED category_aro_accession with 3000472
UPDATED category_aro_description with Enzymes, other proteins or other gene products shown clinically to confer resistance to tetracycline antibiotics or tetracycline-like derivatives.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1303	UPDATE	BEL-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1308	UPDATE	vanTE	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1309	UPDATE	ACT-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
498	UPDATE	QnrB17	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
499	UPDATE	vanSB	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
494	UPDATE	KPC-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
495	UPDATE	CMY-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
496	UPDATE	KPC-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
497	UPDATE	OXA-79	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
490	UPDATE	TEM-188	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
491	UPDATE	PER-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
492	UPDATE	catB	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
493	UPDATE	TEM-84	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
24	UPDATE	fusB	 antibiotic inactivation enzyme;  determinant of fusidic acid resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
25	UPDATE	CTX-M-121	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
26	UPDATE	VEB-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
27	UPDATE	lnuA	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
20	UPDATE	CMY-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
21	UPDATE	OXA-329	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
22	UPDATE	ACT-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
23	UPDATE	OXA-371	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
28	UPDATE	OXA-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
29	UPDATE	Escherichia coli folP with mutation conferring resistance to sulfonamides	 antibiotic resistant gene variant or mutant;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1516	UPDATE	CMY-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1511	UPDATE	OXA-423	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1600	UPDATE	Pseudomonas mutant PhoP conferring resistance to colistin	 efflux pump complex or subunit conferring antibiotic resistance;  determinant of polymyxin resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
7	UPDATE	CTX-M-130	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2281	UPDATE	Brucella suis mprF	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2282	UPDATE	Clostridium perfringens mprF	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2283	UPDATE	Streptococcus agalactiae mprF	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics;  gene altering cell wall charge; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with gene altering cell wall charge
UPDATED category_aro_cvterm_id with 40190
UPDATED category_aro_accession with 3003580
UPDATED category_aro_description with Genes involved in alteration of the cell wall overall charge, leading to antimicrobial resistance due to reduced binding
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2284	UPDATE	Escherichia coli murA with mutation conferring resistance to fosfomycin	 determinant of fosfomycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
446	UPDATE	catB8	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2375	UPDATE	Rm3 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2372	UPDATE	Escherichia coli GlpT with mutation conferring resistance to fosfomycin	 determinant of fosfomycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
2373	UPDATE	Escherichia coli UhpT with mutation conferring resistance to fosfomycin	 determinant of fosfomycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
591	UPDATE	CTX-M-122	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
590	UPDATE	IND-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
593	UPDATE	abeS	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1876	UPDATE	LEN-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1877	UPDATE	CMY-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1874	UPDATE	OXA-196	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1875	UPDATE	MIR-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1872	UPDATE	vanXYL	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1873	UPDATE	linG	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1870	UPDATE	OXA-66	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1871	UPDATE	OXA-389	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
595	UPDATE	SHV-75	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1878	UPDATE	SRT-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1879	UPDATE	AAC(3)-IIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
977	UPDATE	OXA-112	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
976	UPDATE	CTX-M-61	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
975	UPDATE	QnrB1	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
974	UPDATE	lmrC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
973	UPDATE	OXA-378	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
972	UPDATE	CMY-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
970	UPDATE	OKP-B-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
596	UPDATE	ROB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
979	UPDATE	TEM-96	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
978	UPDATE	OXA-134	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
182	UPDATE	arlS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
183	UPDATE	adeS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
180	UPDATE	DHA-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
181	UPDATE	GES-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
186	UPDATE	OXA-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
187	UPDATE	OXA-348	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
184	UPDATE	OCH-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
185	UPDATE	OXA-232	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2110	UPDATE	CARB-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2111	UPDATE	Mycobacterium chelonae 16S rRNA mutation conferring resistance to tobramycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
188	UPDATE	SHV-89	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
189	UPDATE	CTX-M-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2114	UPDATE	APH(3')-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2115	UPDATE	TEM-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2116	UPDATE	Pasteurella multocida 16S rRNA mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
1559	UPDATE	mtrA	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1919	UPDATE	SHV-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1918	UPDATE	spd	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1464	UPDATE	aadA7	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1911	UPDATE	AAC(6')-Iad	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1910	UPDATE	CTX-M-136	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1913	UPDATE	dfrK	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1912	UPDATE	LRA-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1915	UPDATE	CMY-47	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1914	UPDATE	BEL-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1917	UPDATE	tet(30)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1916	UPDATE	TEM-208	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
869	UPDATE	CRP	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
868	UPDATE	DHA-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2113	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to tobramycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
861	UPDATE	OXA-215	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
860	UPDATE	TEM-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
863	UPDATE	PER-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
862	UPDATE	IMP-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
865	UPDATE	OXA-244	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
864	UPDATE	CMY-61	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
867	UPDATE	OXA-175	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
866	UPDATE	adeB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2024	UPDATE	ACC-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2025	UPDATE	TEM-57	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2026	UPDATE	OXA-84	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2027	UPDATE	CMY-84	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2020	UPDATE	tetO	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2021	UPDATE	SHV-165	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2022	UPDATE	CTX-M-104	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2023	UPDATE	OXA-132	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2117	UPDATE	AAC(6')-Ib7	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2028	UPDATE	QnrB43	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2029	UPDATE	TEM-123	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
656	UPDATE	OXA-219	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
883	UPDATE	LRA-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
882	UPDATE	NPS beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
881	UPDATE	ErmC	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 499
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
880	UPDATE	APH(6)-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
887	UPDATE	SHV-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
886	UPDATE	IND-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
885	UPDATE	TEM-63	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
884	UPDATE	CTX-M-99	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
889	UPDATE	CMY-74	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
888	UPDATE	Erm(36)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
657	UPDATE	SHV-142	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
775	UPDATE	CMY-113	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
774	UPDATE	tet37	 antibiotic inactivation enzyme;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
777	UPDATE	mdtL	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
776	UPDATE	tetX	 antibiotic inactivation enzyme;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
771	UPDATE	CMY-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
770	UPDATE	SHV-57	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
773	UPDATE	OCH-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
772	UPDATE	LEN-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
779	UPDATE	OXA-350	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
778	UPDATE	IMP-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
77	UPDATE	TEM-47	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
76	UPDATE	SHV-79	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
75	UPDATE	fusH	 antibiotic inactivation enzyme;  determinant of fusidic acid resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
74	UPDATE	SHV-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
73	UPDATE	OXA-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
72	UPDATE	SHV-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
71	UPDATE	QnrB66	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
70	UPDATE	NDM-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
79	UPDATE	VIM-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
78	UPDATE	TEM-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1043	UPDATE	SHV-76	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1042	UPDATE	catB7	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1041	UPDATE	MexS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1040	UPDATE	OXA-95	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1047	UPDATE	catS	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1046	UPDATE	vgaD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1045	UPDATE	ErmO	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 550
UPDATED param_value with 450
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1044	UPDATE	CTX-M-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1049	UPDATE	MOX-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1048	UPDATE	QnrB33	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1681	UPDATE	APH(4)-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1680	UPDATE	macA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1683	UPDATE	QnrB67	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1682	UPDATE	aadA24	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1685	UPDATE	SHV-40	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1684	UPDATE	LEN-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1687	UPDATE	CEPH-A3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1686	UPDATE	OXA-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1689	UPDATE	vanRO	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1688	UPDATE	CTX-M-90	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1269	UPDATE	OXA-192	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1268	UPDATE	CMY-115	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
669	UPDATE	MIR-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
668	UPDATE	CTX-M-65	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
667	UPDATE	ACT-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1262	UPDATE	SHV-149	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
665	UPDATE	TEM-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
664	UPDATE	CMY-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
663	UPDATE	ACT-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
662	UPDATE	TEM-162	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1265	UPDATE	MIR-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1264	UPDATE	smeC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1469	UPDATE	facT	 efflux pump complex or subunit conferring antibiotic resistance;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1468	UPDATE	SHV-135	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
520	UPDATE	AcrS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1467	UPDATE	LEN-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1466	UPDATE	SHV-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1461	UPDATE	SHV-63	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1460	UPDATE	FosB3	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1463	UPDATE	GES-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1019	UPDATE	IMP-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1317	UPDATE	CTX-M-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1316	UPDATE	catB6	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1315	UPDATE	mdtC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1314	UPDATE	OXA-214	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1313	UPDATE	adeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1312	UPDATE	OXA-111	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1311	UPDATE	OXY-5-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1310	UPDATE	IMP-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1319	UPDATE	SHV-147	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1318	UPDATE	evgS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1010	UPDATE	TEM-209	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1011	UPDATE	TEM-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
319	UPDATE	OXA-366	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
318	UPDATE	OXA-358	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
313	UPDATE	OXA-143	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
312	UPDATE	OXA-167	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
311	UPDATE	IND-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
310	UPDATE	SHV-78	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
317	UPDATE	TEM-148	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
316	UPDATE	CTX-M-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
315	UPDATE	DHA-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
314	UPDATE	TEM-176	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2756	UPDATE	NDM-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2754	UPDATE	ANT(3'')-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
443	UPDATE	OKP-B-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2755	UPDATE	ANT(3'')-IIc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
442	UPDATE	OpmD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2752	UPDATE	ANT(3'')-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
441	UPDATE	OXA-54	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2753	UPDATE	HMB-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
440	UPDATE	MexA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2750	UPDATE	APH(3')-VIII	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
447	UPDATE	SHV-67	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2751	UPDATE	APH(3')-IX	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1330	UPDATE	emrR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
445	UPDATE	TEM-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
444	UPDATE	AAC(6')-Ib-Suzhou	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
630	UPDATE	adeJ	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2298	UPDATE	SPM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2292	UPDATE	Streptomyces rishiriensis parY mutant conferring resistance to aminocoumarin	 determinant of aminocoumarin resistance;  antibiotic resistant gene variant or mutant;  gene involved in self-resistance to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2291	UPDATE	Chlamydia trachomatis intrinsic murA conferring resistance to fosfomycin	 determinant of fosfomycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2290	UPDATE	Mycobacterium tuberculosis intrinsic murA conferring resistance to fosfomycin	 determinant of fosfomycin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2294	UPDATE	Campylobacter jejuni gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
403	UPDATE	dfrA8	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1712	UPDATE	IMP-41	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1861	UPDATE	LEN-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1860	UPDATE	OXA-165	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1863	UPDATE	VIM-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1862	UPDATE	OXA-109	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1865	UPDATE	ACC-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1864	UPDATE	CMY-67	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1867	UPDATE	CTX-M-116	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1866	UPDATE	KPC-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1869	UPDATE	OXY-2-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1868	UPDATE	TEM-82	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
964	UPDATE	OXA-129	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
965	UPDATE	OXA-333	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
966	UPDATE	vanSC	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
967	UPDATE	AAC(6')-Isa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
960	UPDATE	TEM-137	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
961	UPDATE	SHV-93	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
962	UPDATE	OXA-356	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
963	UPDATE	CMY-69	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
401	UPDATE	ACT-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
968	UPDATE	MIR-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
969	UPDATE	VEB-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2109	UPDATE	Mycobacterium tuberculosis gyrB mutant conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A model parameter to describe mutations in multiple genes or proteins where resistance is co-dependent on each. For example, the G247S SNP in M. tuberculosis gyrA does not confer resistance to fluoroquinolones. However, when the D500N SNP is also present in gyrB, resistance is conferred. In this case, gyrA G247S is co-dependent on gyrB D500N to confer resistance. This parameter is noted on relevant models with the following notation: [cvterm-id-gene-1],[gene-1-SNP]+[cvterm-id-gene-2],[gene-2-SNP]+ ... +[cvterm-id-gene-n],[gene-n-SNP] e.g. 39879,G247S+40052,D500N. This parameter is not currently included in any detection algorithms.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
2108	UPDATE	Enterococcus faecium EF-Tu mutants conferring resistance to GE2270A	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2103	UPDATE	SHV-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2102	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsB) mutation conferring resistance to hygromycin B	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 5029475
UPDATED strand with -
UPDATED accession with NC_008596.1
UPDATED fmin with 5027947
UPDATED sequence with AGAAAGGAGGTGATCCAGCCGCACCTTCCGGTACGGCTACCTTGTTACGACTTCGTCCCAATCGCCGATCCCACCTTCGACGGCTCCCTCCACAAGGGTTAGGCCACCGGCTTCGGGTGTTACCGACTTTCATGACGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGCAGCGTTGCTGATCTGCGATTACTAGCGACTCCGACTTCACGGGGTCGAGTTGCAGACCCCGATCCGAACTGAGACCGGCTTTGAAAGGATTCGCTCCACCTCACGGCATCGCAGCCCTTTGTACCGGCCATTGTAGCATGTGTGAAGCCCTGGACATAAGGGGCATGATGACTTGACGTCATCCCCACCTTCCTCCGAGTTGACCCCGGCAGTCTCTCACGAGTCCCCACCATAACGTGCTGGCAACATGAGACAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCATGCACCACCTGCACACAGGCCACAAGGGAACCGACATCTCTGCCGGCGTCCTGTGCATGTCAAACCCAGGTAAGGTTCTTCGCGTTGCATCGAATTAATCCACATGCTCCGCCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTTAGCCTTGCGGCCGTACTCCCCAGGCGGGGTACTTAATGCGTTAGCTACGGCACGGATCCCAAGGAAGGAAACCCACACCTAGTACCCACCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTCCCCACGCTTTCGCTCCTCAGCGTCAGTTACTGCCCAGAGACCCGCCTTCGCCACCGGTGTTCCTCCTGATATCTGCGCATTCCACCGCTACACCAGGAATTCCAGTCTCCCCTGCAGTACTCTAGTCTGCCCGTATCGCCCGCACGCCCACAGTTAAGCTGTGAGTTTTCACGAACAACGCGACAAACCACCTACGAGCTCTTTACGCCCAGTAATTCCGGACAACGCTCGGACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGTCCTTCTTCTGCACATACCGTCACTTGCGCTTCGTCTGTGCTGAAAGAGGTTTACAACCCGAAGGCCGTCATCCCTCACGCGGCGTCGCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAGTGTGGCCGGTCACCCTCTCAGGCCGGCTACCCGTCGTCGCCTTGGTAGGCCATCACCCCACCAACAAGCTGATAGGCCGCGGGCCCATCCCACACCGCAAAAGCTTTCCCCTACCAGGCCATGCGACCAGCAGGGTGTATTCGGTATTAGACCCAGTTTCCCAGGCTTATCCCAAAGTGCAGGGCAGATCACCCACGTGTTACTCACCCGTTCGCCACTCGAGTACCCCCGAAAGGGCCTTTCCGTTCGACTTGCATGTGTTAAGCACGCCGCCAGCGTTCGTCCTGAGCCAGGATCAAACTCTCCAAACAAAAA
UPDATED NCBI_taxonomy_name with Mycobacterium smegmatis str. MC2 155
UPDATED NCBI_taxonomy_id with 246196
UPDATED NCBI_taxonomy_cvterm_id with 36769
UPDATED accession with 
UPDATED sequence with 
UPDATED 7816 with U2362C
UPDATED 7814 with U1389C
UPDATED 7815 with C2360U
UPDATED 7816 with U2362C
UPDATED 7814 with U1389C
UPDATED 7815 with C2360U
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2100	UPDATE	Mycobacterium chelonae 16S rRNA mutation conferring resistance to amikacin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2106	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsA) mutation conferring resistance to kanamycin A	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 3825143
UPDATED strand with -
UPDATED accession with NC_008596.1
UPDATED fmin with 3823614
UPDATED sequence with AGAAAGGAGGTGATCCAGCCGCACCTTCCGGTACGGCTACCTTGTTACGACTTCGTCCCAATCGCCGATCCCACCTTCGACGGCTCCCTCCACAAGGGTTAGGCCACCGGCTTCGGGTGTTACCGACTTTCATGACGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGCAGCGTTGCTGATCTGCGATTACTAGCGACTCCGACTTCACGGGGTCGAGTTGCAGACCCCGATCCGAACTGAGACCGGCTTTGAAAGGATTCGCTCCACCTCACGGCATCGCAGCCCTTTGTACCGGCCATTGTAGCATGTGTGAAGCCCTGGACATAAGGGGCATGATGACTTGACGTCATCCCCACCTTCCTCCGAGTTGACCCCGGCAGTCTCTCACGAGTCCCCACCATAACGTGCTGGCAACATGAGACAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCATGCACCACCTGCACACAGGCCACAAGGGAACCGACATCTCTGCCGGCGTCCTGTGCATGTCAAACCCAGGTAAGGTTCTTCGCGTTGCATCGAATTAATCCACATGCTCCGCCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTTAGCCTTGCGGCCGTACTCCCCAGGCGGGGTACTTAATGCGTTAGCTACGGCACGGATCCCAAGGAAGGAAACCCACACCTAGTACCCACCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTCCCCACGCTTTCGCTCCTCAGCGTCAGTTACTGCCCAGAGACCCGCCTTCGCCACCGGTGTTCCTCCTGATATCTGCGCATTCCACCGCTACACCAGGAATTCCAGTCTCCCCTGCAGTACTCTAGTCTGCCCGTATCGCCCGCACGCCCACAGTTAAGCTGTGAGTTTTCACGAACAACGCGACAAACCACCTACGAGCTCTTTACGCCCAGTAATTCCGGACAACGCTCGGACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGTCCTTCTTCTGCACATACCGTCACTTGCGCTTCGTCTGTGCTGAAAGAGGTTTACAACCCGAAGGCCGTCATCCCTCACGCGGCGTCGCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAGTGTGGCCGGTCACCCTCTCAGGCCGGCTACCCGTCGTCGCCTTGGTAGGCCATCACCCCACCAACAAGCTGATAGGCCGCGGGCCCATCCCACACCGCAAAAGCTTTCCCCTACCAGGCCATGCGACCAGCAGGGTGTATTCGGTATTAGACCCAGTTTCCCAGGCTTATCCCAAAGTGCAGGGCAGATCACCCACGTGTTACTCACCCGTTCGCCACTCGAGTACCCCCGAAAGGGCCTTTCCGTTCGACTTGCATGTGTTAAGCACGCCGCCAGCGTTCGTCCTGAGCCAGGATCAAACTCTCCAAACAAAAAC
UPDATED NCBI_taxonomy_name with Mycobacterium smegmatis str. MC2 155
UPDATED NCBI_taxonomy_id with 246196
UPDATED NCBI_taxonomy_cvterm_id with 36769
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2105	UPDATE	Mycobacterium abscessus 16S rRNA mutation conferring resistance to neomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2104	UPDATE	Ureaplasma urealyticum parC conferring resistance to fluoroquinolone	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
641	UPDATE	CARB-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
878	UPDATE	CTX-M-142	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
640	UPDATE	tet(31)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
876	UPDATE	smeE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
877	UPDATE	SHV-124	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
874	UPDATE	AAC(1)	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
875	UPDATE	dfrA19	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
872	UPDATE	vatC	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
873	UPDATE	KPC-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
870	UPDATE	otr(B)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
871	UPDATE	CGB-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2037	UPDATE	tetT	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2036	UPDATE	SHV-163	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2743	UPDATE	Escherichia coli AcrAB-TolC with AcrR mutation conferring resistance to ciprofloxacin, tetracycline, and ceftazidime	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
1242	UPDATE	aadA6/aadA10	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2745	UPDATE	AcrAB-TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_value with 2661,1104,826,2306,431,1922,2776,228,2066,520
UPDATED param_type_id with 40725
UPDATED param_type with BLASTP bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
"
2744	UPDATE	Escherichia coli AcrAB-TolC with MarR mutations conferring resistance to ciprofloxacin and tetracycline	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2747	UPDATE	AcrEF-TolC confers resistance to ampicillin, ciprofloxacin and tetracycline	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED 7771 with 520,1445,1437,826,1248
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2746	UPDATE	AcrAD-TolC confers resistance to amikacin, gentamicin, and tobramycin	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_value with 2661,1427,826,1337,986,152,2764
UPDATED param_type_id with 40725
UPDATED param_type with BLASTP bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
"
2749	UPDATE	lnuG	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2748	UPDATE	oqxAB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
2039	UPDATE	CARB-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2038	UPDATE	KPC-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
890	UPDATE	SHV-53	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
891	UPDATE	QnrB37	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
892	UPDATE	APH(6)-Ic	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
893	UPDATE	linA	 determinant of lincosamide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
894	UPDATE	CMY-90	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
895	UPDATE	SHV-122	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
896	UPDATE	CTX-M-131	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
897	UPDATE	OXA-383	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
898	UPDATE	VEB-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
899	UPDATE	OXA-94	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
646	UPDATE	OXA-349	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
649	UPDATE	OXA-115	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1248	UPDATE	H-NS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1537	UPDATE	GES-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1964	UPDATE	IMP-45	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1965	UPDATE	LEN-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1966	UPDATE	lmrA	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1788	UPDATE	ACT-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1789	UPDATE	QnrB44	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
768	UPDATE	SHV-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1967	UPDATE	OXA-116	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1780	UPDATE	OXA-146	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1612	UPDATE	ErmR	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1782	UPDATE	TEM-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1783	UPDATE	VIM-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1784	UPDATE	OXA-334	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1785	UPDATE	TEM-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1786	UPDATE	MexY	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1787	UPDATE	VIM-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1962	UPDATE	OXA-47	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1963	UPDATE	TEM-190	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1078	UPDATE	VIM-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1079	UPDATE	OXA-161	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1076	UPDATE	IMP-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
643	UPDATE	OXY-2-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1074	UPDATE	LEN-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1075	UPDATE	TEM-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1072	UPDATE	OXA-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1073	UPDATE	OKP-B-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1070	UPDATE	sul1	 antibiotic target replacement protein;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1071	UPDATE	DHA-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1678	UPDATE	AAC(6')-Ib-cr	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1679	UPDATE	OXA-49	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1674	UPDATE	AAC(6')-It	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1675	UPDATE	CTX-M-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1676	UPDATE	GES-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1677	UPDATE	cepA beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1670	UPDATE	nalC	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1671	UPDATE	Salmonella serovars soxS with mutation conferring antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein modulating permeability to antibiotic;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1672	UPDATE	TEM-211	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1673	UPDATE	QnrA6	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1094	UPDATE	CARB-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1095	UPDATE	SHV-59	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1096	UPDATE	TEM-79	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1097	UPDATE	Erm(38)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
678	UPDATE	PDC-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
679	UPDATE	SHV-108	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1092	UPDATE	tet(39)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1093	UPDATE	AAC(6')-31	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 266
UPDATED param_value with 325
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
674	UPDATE	OXA-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
675	UPDATE	OXA-25	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
676	UPDATE	AAC(6')-Ih	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
677	UPDATE	OXA-171	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
670	UPDATE	IND-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
671	UPDATE	CTX-M-137	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
672	UPDATE	CMY-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
673	UPDATE	IMP-48	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1533	UPDATE	SHV-143	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1418	UPDATE	DHA-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1419	UPDATE	OXA-454	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1410	UPDATE	OXA-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1411	UPDATE	OXA-62	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1412	UPDATE	SHV-167	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1413	UPDATE	OXA-172	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1414	UPDATE	QnrB15	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1415	UPDATE	AAC(2')-Id	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1416	UPDATE	OXA-89	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1417	UPDATE	OXA-131	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1322	UPDATE	SHV-65	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1323	UPDATE	Salmonella serovars parE conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1320	UPDATE	Klebsiella mutant PhoP conferring antibiotic resistance to colistin	 efflux pump complex or subunit conferring antibiotic resistance;  determinant of polymyxin resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
644	UPDATE	OXY-2-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1326	UPDATE	OXA-170	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1327	UPDATE	AAC(6')-Iq	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1324	UPDATE	LRA-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1325	UPDATE	OXA-65	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1328	UPDATE	vanSM	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1329	UPDATE	ANT(4')-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1531	UPDATE	TEM-81	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1524	UPDATE	cat-TC	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1525	UPDATE	TEM-160	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1254	UPDATE	CTX-M-46	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1527	UPDATE	SHV-51	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1520	UPDATE	SHV-85	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1521	UPDATE	VIM-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1522	UPDATE	IMP-38	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1523	UPDATE	MexD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1528	UPDATE	TEM-168	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1529	UPDATE	TEM-130	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1258	UPDATE	OXA-55	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1259	UPDATE	SHV-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
308	UPDATE	CMY-118	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
309	UPDATE	CMY-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
300	UPDATE	AAC(6')-29a	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
301	UPDATE	CMY-95	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
302	UPDATE	TEM-207	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
303	UPDATE	ErmQ	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
304	UPDATE	IND-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
305	UPDATE	chrB	 antibiotic target modifying enzyme;  gene involved in self-resistance to antibiotic;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
306	UPDATE	SHV-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
307	UPDATE	CTX-M-101	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
732	UPDATE	OXA-237	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1446	UPDATE	PDC-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
_timestamp	N/A	N/A	N/A	N/A	NEW: 2017-08-03T15:06:40+00:00 , OLD: 2017-05-04T14:16:02+00:00
985	UPDATE	ErmA	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
114	UPDATE	dfrA13	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1898	UPDATE	OXA-379	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1899	UPDATE	vanYF	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1894	UPDATE	Salmonella enterica ramR mutants	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1895	UPDATE	CfxA3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1896	UPDATE	NDM-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1897	UPDATE	tet(L)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1890	UPDATE	TEM-86	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1891	UPDATE	AAC(6')-Iih	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1892	UPDATE	OXA-114a	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1893	UPDATE	SHV-127	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2136	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to kanamycin A	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2137	UPDATE	Escherichia coli EF-Tu mutants conferring resistance to kirromycin	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2134	UPDATE	CMY-36	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2135	UPDATE	ACT-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2132	UPDATE	Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to kanamycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2133	UPDATE	Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to viomycin	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2130	UPDATE	opcM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2131	UPDATE	Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 1473382
UPDATED strand with +
UPDATED accession with AL123456.3
UPDATED fmin with 1471845
UPDATED sequence with TTTTGTTTGGAGAGTTTGATCCTGGCTCAGGACGAACGCTGGCGGCGTGCTTAACACATGCAAGTCGAACGGAAAGGTCTCTTCGGAGATACTCGAGTGGCGAACGGGTGAGTAACACGTGGGTGATCTGCCCTGCACTTCGGGATAAGCCTGGGAAACTGGGTCTAATACCGGATAGGACCACGGGATGCATGTCTTGTGGTGGAAAGCGCTTTAGCGGTGTGGGATGAGCCCGCGGCCTATCAGCTTGTTGGTGGGGTGACGGCCTACCAAGGCGACGACGGGTAGCCGGCCTGAGAGGGTGTCCGGCCACACTGGGACTGAGATACGGCCCAGACTCCTACGGGAGGCAGCAGTGGGGAATATTGCACAATGGGCGCAAGCCTGATGCAGCGACGCCGCGTGGGGGATGACGGCCTTCGGGTTGTAAACCTCTTTCACCATCGACGAAGGTCCGGGTTCTCTCGGATTGACGGTAGGTGGAGAAGAAGCACCGGCCAACTACGTGCCAGCAGCCGCGGTAATACGTAGGGTGCGAGCGTTGTCCGGAATTACTGGGCGTAAAGAGCTCGTAGGTGGTTTGTCGCGTTGTTCGTGAAATCTCACGGCTTAACTGTGAGCGTGCGGGCGATACGGGCAGACTAGAGTACTGCAGGGGAGACTGGAATTCCTGGTGTAGCGGTGGAATGCGCAGATATCAGGAGGAACACCGGTGGCGAAGGCGGGTCTCTGGGCAGTAACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGGTGGGTACTAGGTGTGGGTTTCCTTCCTTGGGATCCGTGCCGTAGCTAACGCATTAAGTACCCCGCCTGGGGAGTACGGCCGCAAGGCTAAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGCGGAGCATGTGGATTAATTCGATGCAACGCGAAGAACCTTACCTGGGTTTGACATGCACAGGACGCGTCTAGAGATAGGCGTTCCCTTGTGGCCTGTGTGCAGGTGGTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTCTCATGTTGCCAGCACGTAATGGTGGGGACTCGTGAGAGACTGCCGGGGTCAACTCGGAGGAAGGTGGGGATGACGTCAAGTCATCATGCCCCTTATGTCCAGGGCTTCACACATGCTACAATGGCCGGTACAAAGGGCTGCGATGCCGCGAGGTTAAGCGAATCCTTAAAAGCCGGTCTCAGTTCGGATCGGGGTCTGCAACTCGACCCCGTGAAGTCGGAGTCGCTAGTAATCGCAGATCAGCAACGCTGCGGTGAATACGTTCCCGGGCCTTGTACACACCGCCCGTCACGTCATGAAAGTCGGTAACACCCGAAGCCAGTGGCCTAACCCTCGGGAGGGAGCTGTCGAAGGTGGGATCGGCGATTGGGACGAAGTCGTAACAAGGTAGCCGTACCGGAAGGTGCGGCTGGATCACCTCCTTTCT
UPDATED NCBI_taxonomy_name with Mycobacterium tuberculosis H37Rv
UPDATED NCBI_taxonomy_id with 83332
UPDATED NCBI_taxonomy_cvterm_id with 39507
UPDATED accession with 
UPDATED sequence with 
DELETED 4803
UPDATED 7820 with C516U
DELETED 4803
UPDATED 7820 with C516U
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
951	UPDATE	ACT-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
950	UPDATE	ErmX	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
952	UPDATE	sul2	 antibiotic target replacement protein;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
955	UPDATE	SHV-96	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
954	UPDATE	APH(3')-IIb	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2138	UPDATE	NmcA beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2139	UPDATE	vanSD	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2643	UPDATE	tetA(46)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2644	UPDATE	tetB(46)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2645	UPDATE	tetA(60)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2646	UPDATE	tetB(60)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2002	UPDATE	cat86	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2003	UPDATE	pmrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2000	UPDATE	TEM-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2001	UPDATE	OXA-250	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2006	UPDATE	IMP-27	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2007	UPDATE	OXA-335	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2004	UPDATE	TEM-189	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2005	UPDATE	CTX-M-89	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2008	UPDATE	SHV-145	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2009	UPDATE	aadA6	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1263	UPDATE	QnrB56	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
666	UPDATE	CTX-M-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2176	UPDATE	glycopeptide resistance gene cluster VanN	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
1261	UPDATE	rosA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2177	UPDATE	glycopeptide resistance gene cluster VanA	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
1799	UPDATE	TEM-147	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1798	UPDATE	SHV-183	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
719	UPDATE	CMY-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
718	UPDATE	LRA-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
717	UPDATE	CTX-M-100	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1792	UPDATE	DHA-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1791	UPDATE	TEM-164	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
714	UPDATE	dfrB1	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
713	UPDATE	CTX-M-81	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
712	UPDATE	catB2	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1795	UPDATE	VEB-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1794	UPDATE	tmrB	 determinant of resistance to nucleoside antibiotics;  protein modulating permeability to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
661	UPDATE	VIM-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
716	UPDATE	QnrB32	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
505	UPDATE	Mycobacterium tuberculosis iniC mutant conferring resistance to ethambutol	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A nucleotide substitution resulting in a change from an amino acid codon to a STOP codon. Nonsense SNPs truncate protein translation prematurely, resulting in a defective or completely inactive protein. In CARD, nonsense SNPs may be attached to models, and are recorded in the format: [wild type amino acid][position][STOP] (e.g. Q42STOP). This parameter is not currently used in detection algorithms.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
660	UPDATE	Streptococcus pneumoniae parC conferring resistance to fluoroquinolone	 gene involved in self-resistance to antibiotic;  antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2178	UPDATE	glycopeptide resistance gene cluster VanO	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
1069	UPDATE	IMP-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1068	UPDATE	AAC(6')-Ib3	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2179	UPDATE	glycopeptide resistance gene cluster VanE	 antibiotic resistance gene cluster, cassette, or operon; 	model_type	"UPDATED model_type with gene cluster meta-model
"
1061	UPDATE	OXY-2-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1060	UPDATE	SHV-103	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1063	UPDATE	QnrB73	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1062	UPDATE	SHV-71	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1065	UPDATE	OXA-384	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1064	UPDATE	CTX-M-141	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1067	UPDATE	MexE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1066	UPDATE	TEM-118	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1669	UPDATE	vanZF	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1668	UPDATE	CMY-68	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1667	UPDATE	TEM-80	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1666	UPDATE	vanXB	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1665	UPDATE	ramA	 efflux pump complex or subunit conferring antibiotic resistance;  protein modulating permeability to antibiotic;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1664	UPDATE	adeK	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1663	UPDATE	ACC-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1662	UPDATE	OKP-B-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1661	UPDATE	CARB-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1660	UPDATE	OXA-375	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1087	UPDATE	OXA-253	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1086	UPDATE	CMY-41	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1085	UPDATE	OKP-B-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
592	UPDATE	lmrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1083	UPDATE	OXA-323	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
594	UPDATE	QnrB41	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
597	UPDATE	Klebsiella pneumoniae ramR mutants	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1080	UPDATE	SHV-158	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
599	UPDATE	OKP-A-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
598	UPDATE	dfrA16	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1089	UPDATE	CMY-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1088	UPDATE	Staphylococcus aureus rpoB mutants conferring resistance to daptomycin	 antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1526	UPDATE	AAC(6')-Iaa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1409	UPDATE	CMY-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1408	UPDATE	TEM-124	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1403	UPDATE	OXA-388	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1402	UPDATE	OXA-390	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1401	UPDATE	mefE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1400	UPDATE	CTX-M-74	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1407	UPDATE	CMY-62	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1406	UPDATE	OXA-121	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1405	UPDATE	armA	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1404	UPDATE	IMP-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1546	UPDATE	Erm(43)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
449	UPDATE	SHV-133	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
448	UPDATE	dfrG	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1339	UPDATE	Mycobacterium tuberculosis embR mutant conferring resistance to ethambutol	 antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1338	UPDATE	BLA1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1547	UPDATE	vanRC	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1335	UPDATE	QnrB8	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1334	UPDATE	SHV-126	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1337	UPDATE	baeR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1336	UPDATE	BcII	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1331	UPDATE	CTX-M-52	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
690	UPDATE	OXA-347	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1333	UPDATE	vanHD	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1332	UPDATE	APH(3')-IIIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1545	UPDATE	Escherichia coli gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
1542	UPDATE	amrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED fmax with 2152165
UPDATED strand with -
UPDATED accession with NC_006350.1
UPDATED fmin with 2150965
UPDATED sequence with TCAGGTTGAGCGCCGGCCGGGCGCGGAAGCCGCGGCGGCGCCGGAGGCCGGCTGCGCGGCGGCGCCGCGCTCGAGCGCCTTCACCGTCGTGCCTGCTTCGAATTGCGCGGCGTCGACGACGACGACGCGCTCGCCGCCCGCGAGCCCGCGCGTGACGATCCAGTCGCGGCCTTTCATCTGCGCGGCCTCGACCGTCACGTCGCGTATCTTGCCGTTCTGGCCGACGACCTTGACGGTCGCGCTGTCGGCCGTGCGCAGCAGCGCGTCGCGCGGCACGAGGATCGCGTCGCGCGCGACCGCGCGATCGAGCGCGATCCGCACGTACGCGCCGGGCAGCAGTTCGCGCTCCGGGTTCGGAAAGAGCGCACGCATCGCCACCGTGTCGGTGGACGGGTCGACGGCAAGATCCGCGAACAGCAGCTTGCCCTTGCGCGCGTACGTGCTGCCGTCCGGGCGCACGAGCGTCACCTCGACGTCCTGCTGCGCGATGCCCGCCGCGCGTCCGCTCTTCACCGCGCGCCGCAGCGATTCGACGTCGGCCGCGGGCTGCGAGAAGTTCACGTAGATCGGATCGAGCTGCTCGACGGTCGTGAGCGGCGTCGCCTGATCCTGGCCGACGAGCGCGCCTTCGGTCACGAGCGCGCGGCGCGCGCGGCCGTCGATCGGCGCGGTGACGGTCGCGTAATCGAGCTGCAGTTGCGCGCGCGCGAGCTCCGCGCGCGCCGACGCGACGGCCGCCTTCGCCTGCCGTTCGTCGGCGAGCGCCTCGGTGTGGTCGCGCTCGCTGACCGCGCGGTCGCGCACGAGCTCGTCATAGCGGCGGCGCTTGTCGAGCGCCGCGAGGTGCGCGGCCCGCGCCTTCTCGAGCGCGCCCGCGGCCGCGTCGCGCGCCGCCTTGAACGGCGCGGGATCGATCCTGAACAGCACCGCGCCGCGCTTGACTTCCTGCCCTTCCTCGTAGGTGCGCGCGGTCACGATGCCCGCGACCCGCGCGCGCACCTCGGCCTGCCGGTACGCGTCGAGCCGGCCCGGCAATTCGACCGACAGCGGCACCGATGTCTTCTTCACCGTGACGACGCTCGCCTCGCGCGGCGCGGCGGCGTCGTGCTCGCTTTCGTGCTTGCCGCAGCCGGCCGCGACGAACGCCGCGACCGCGAGCGCCGCCGACAAGCGGCGCGTGCGTGCCCATTCGTATTTCAT
UPDATED NCBI_taxonomy_name with Burkholderia pseudomallei K96243
UPDATED NCBI_taxonomy_id with 272560
UPDATED NCBI_taxonomy_cvterm_id with 41211
UPDATED accession with YP_108403.1
UPDATED sequence with MKYEWARTRRLSAALAVAAFVAAGCGKHESEHDAAAPREASVVTVKKTSVPLSVELPGRLDAYRQAEVRARVAGIVTARTYEEGQEVKRGAVLFRIDPAPFKAARDAAAGALEKARAAHLAALDKRRRYDELVRDRAVSERDHTEALADERQAKAAVASARAELARAQLQLDYATVTAPIDGRARRALVTEGALVGQDQATPLTTVEQLDPIYVNFSQPAADVESLRRAVKSGRAAGIAQQDVEVTLVRPDGSTYARKGKLLFADLAVDPSTDTVAMRALFPNPERELLPGAYVRIALDRAVARDAILVPRDALLRTADSATVKVVGQNGKIRDVTVEAAQMKGRDWIVTRGLAGGERVVVVDAAQFEAGTTVKALERGAAAQPASGAAAASAPGRRST
UPDATED param_value with 500
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1631	UPDATE	CTX-M-71	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1543	UPDATE	CMY-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
39	UPDATE	AAC(3)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
38	UPDATE	APH(3')-Va	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1540	UPDATE	rmtC	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
33	UPDATE	msrE	 efflux pump complex or subunit conferring antibiotic resistance; 	ARO_description; model_description; model_param	"UPDATED ARO_description with MsrE is an ABC-efflux pump expressed to Klebsiella pneumoniae that confers resistance to erythromycin and streptogramin B antibiotics. It is associated with plasmid DNA. It is also 100% identical to ABC-F type ribosomal protection protein Msr(E) which is in multiple species.
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
32	UPDATE	DHA-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
31	UPDATE	CTX-M-155	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
30	UPDATE	OXA-226	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
37	UPDATE	MdfA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
36	UPDATE	Mycobaterium leprae gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
35	UPDATE	FosA2	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
34	UPDATE	OXY-6-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1241	UPDATE	TEM-144	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1240	UPDATE	Bacillus Cluster A intrinsic mph	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1535	UPDATE	CMY-16	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1534	UPDATE	PER-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1245	UPDATE	TEM-114	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1532	UPDATE	OXA-249	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1247	UPDATE	CMY-72	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1530	UPDATE	OXA-67	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1249	UPDATE	FOX-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
648	UPDATE	GES-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1539	UPDATE	aadA3	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1538	UPDATE	SHV-104	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
339	UPDATE	ANT(3'')-Ii-AAC(6')-IId fusion protein	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
338	UPDATE	OXY-1-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
335	UPDATE	Staphylococcus aureus parE conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
334	UPDATE	MexX	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
337	UPDATE	adeC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
336	UPDATE	tlrB conferring tylosin resistance	 antibiotic target modifying enzyme;  gene involved in self-resistance to antibiotic;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
331	UPDATE	TEM-166	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
330	UPDATE	IMP-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
333	UPDATE	CARB-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
332	UPDATE	r39 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
8	UPDATE	NDM-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2119	UPDATE	LRA-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1353	UPDATE	GES-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1636	UPDATE	QnrB57	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1462	UPDATE	LRA-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1352	UPDATE	OXA-251	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1350	UPDATE	TEM-93	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1889	UPDATE	NDM-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1888	UPDATE	MIR-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1887	UPDATE	TEM-70	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1886	UPDATE	LEN-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1885	UPDATE	tet(Z)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1884	UPDATE	CTX-M-111	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1883	UPDATE	DHA-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1882	UPDATE	OXA-80	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1881	UPDATE	OXA-72	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1880	UPDATE	adeN	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2121	UPDATE	LRA-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2123	UPDATE	vgaC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2122	UPDATE	Mycobacterium chelonae 16S rRNA mutation conferring resistance to neomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2124	UPDATE	Clostridium difficile EF-Tu mutants conferring resistance to elfamycin	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
948	UPDATE	mecI	 antibiotic resistance gene cluster, cassette, or operon;  antibiotic target replacement protein;  determinant of beta-lactam resistance;  gene modulating beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
949	UPDATE	CTX-M-77	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
946	UPDATE	QnrB48	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
947	UPDATE	OXA-100	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
944	UPDATE	bcrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1084	UPDATE	LEN-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
942	UPDATE	OXA-104	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
943	UPDATE	vanU	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
940	UPDATE	TEM-125	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
941	UPDATE	GES-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2410	UPDATE	Salmonella enterica parC conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2659	UPDATE	Klebsiella pneumoniae acrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2653	UPDATE	msrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2656	UPDATE	Escherichia coli emrE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2655	UPDATE	Pseudomonas aeruginosa emrE	 efflux pump complex or subunit conferring antibiotic resistance; 	ARO_description; model_description; model_param	"UPDATED ARO_description with EmrE is a small multidrug transporter that functions as a homodimer and that couples the efflux of small polyaromatic cations from the cell with the import of protons down an electrochemical gradient. Confers resistance to tetraphenylphosphonium and methyl viologen.
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2654	UPDATE	adeL	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
133	UPDATE	arr-8	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
132	UPDATE	TEM-198	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
131	UPDATE	CTX-M-50	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
130	UPDATE	CTX-M-112	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
137	UPDATE	APH(2'')-Ie	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
136	UPDATE	CMY-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
135	UPDATE	SME-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
134	UPDATE	rgt1438	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
139	UPDATE	QnrB10	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1354	UPDATE	Mycobacterium tuberculosis embA mutant conferring resistance to ethambutol	 antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2019	UPDATE	OXA-213	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2018	UPDATE	CMY-76	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2015	UPDATE	DHA-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2014	UPDATE	PmrF	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2017	UPDATE	CTX-M-37	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2016	UPDATE	OXA-370	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2011	UPDATE	QnrB60	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2010	UPDATE	CTX-M-129	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2013	UPDATE	Erm(41)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2012	UPDATE	SHV-178	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2112	UPDATE	patB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
708	UPDATE	CTX-M-49	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
709	UPDATE	TEM-213	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
704	UPDATE	OprJ	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
705	UPDATE	CMY-116	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
706	UPDATE	APH(7'')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
707	UPDATE	AIM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
700	UPDATE	ACT-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
701	UPDATE	SHV-129	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
702	UPDATE	CTX-M-98	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
703	UPDATE	cmlv	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
88	UPDATE	CMY-55	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
89	UPDATE	vanYA	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
82	UPDATE	PER-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
83	UPDATE	IMP-47	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
80	UPDATE	ACT-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
81	UPDATE	FOX-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
86	UPDATE	TEM-102	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
87	UPDATE	TEM-116	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
84	UPDATE	GIM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
85	UPDATE	IMP-42	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
762	UPDATE	CTX-M-55	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1658	UPDATE	OKP-B-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1659	UPDATE	OXA-258	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1652	UPDATE	IMP-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1653	UPDATE	AAC(6')-Ip	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1650	UPDATE	CMY-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1651	UPDATE	AAC(6')-If	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1656	UPDATE	CTX-M-79	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1657	UPDATE	AAC(6')-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1654	UPDATE	SHV-95	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1655	UPDATE	TEM-117	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
586	UPDATE	VIM-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
587	UPDATE	TEM-73	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
584	UPDATE	aadA21	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
585	UPDATE	NDM-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
763	UPDATE	catI	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
583	UPDATE	SHV-100	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
580	UPDATE	TEM-110	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
581	UPDATE	QnrB19	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1632	UPDATE	CTX-M-53	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
588	UPDATE	OKP-A-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
589	UPDATE	TEM-145	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1633	UPDATE	catQ	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1634	UPDATE	CMY-78	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1635	UPDATE	vanRG	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1436	UPDATE	TEM-40	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1437	UPDATE	AcrF	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1434	UPDATE	Erm(35)	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1432	UPDATE	Mycobacterium tuberculosis mutant embC conferring resistance to ethambutol	 antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED blastp_evalue
"
1433	UPDATE	CMY-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1430	UPDATE	SHV-125	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1431	UPDATE	GES-15	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
418	UPDATE	OXA-325	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1637	UPDATE	MOX-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1438	UPDATE	SHV-19	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1439	UPDATE	SHV-80	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1260	UPDATE	APH(3')-IVa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1541	UPDATE	ACT-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
458	UPDATE	tet(B)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1349	UPDATE	IND-2a	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
450	UPDATE	OXA-51	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
451	UPDATE	LRA-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1342	UPDATE	plasmid-encoded cat (pp-cat)	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
453	UPDATE	mtrE	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
454	UPDATE	KPC-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1345	UPDATE	tet(K)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1346	UPDATE	SHV-94	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1347	UPDATE	OXA-425	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1082	UPDATE	CTX-M-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
517	UPDATE	QnrD2	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1266	UPDATE	ANT(4')-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1502	UPDATE	OXA-209	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1503	UPDATE	LEN-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1500	UPDATE	APH(6)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1501	UPDATE	CMY-49	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1506	UPDATE	ACT-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1507	UPDATE	smeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1504	UPDATE	CMY-108	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1505	UPDATE	SAT-4	 determinant of resistance to nucleoside antibiotics;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1508	UPDATE	QnrA2	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1509	UPDATE	vanXF	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
658	UPDATE	CMY-104	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
659	UPDATE	AAC(6')-29b	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1992	UPDATE	dfrA1	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2127	UPDATE	Borrelia burgdorferi 16S rRNA mutation conferring resistance to kanamycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2126	UPDATE	Mycobacterium abscessus 16S rRNA mutation conferring resistance to tobramycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2129	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2128	UPDATE	Mycobacterium abscessus 16S rRNA mutation conferring resistance to gentamicin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
945	UPDATE	tet(40)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1292	UPDATE	CTX-M-109	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1376	UPDATE	MOX-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1081	UPDATE	IMP-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
322	UPDATE	FEZ-1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
323	UPDATE	aadA9	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
320	UPDATE	Streptococcus pneumoniae PBP2x conferring resistance to amoxicillin	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
321	UPDATE	CTX-M-35	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
326	UPDATE	OXA-225	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
327	UPDATE	GES-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
324	UPDATE	QnrB54	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
325	UPDATE	LEN-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
329	UPDATE	CTX-M-159	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1340	UPDATE	mtrC	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2330	UPDATE	leuO	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux;  determinant of sulfonamide resistance; 	ARO_description; model_description; ARO_category; model_param	"UPDATED ARO_description with leuO, a LysR family transcription factor, exists in a wide variety of bacteria of the family Enterobacteriaceae and is involved in the regulation of as yet unidentified genes affecting the stress response and pathogenesis expression. LeuO is also an activator of the MdtNOP efflux pump.
UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with efflux pump complex or subunit conferring antibiotic resistance
UPDATED category_aro_cvterm_id with 36298
UPDATED category_aro_accession with 3000159
UPDATED category_aro_description with Efflux proteins that pump antibiotic out of a cell to confer resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2331	UPDATE	kdpE	 determinant of aminoglycoside resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2332	UPDATE	mfd	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_value with 2250
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2333	UPDATE	LEN-26	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2335	UPDATE	ADC-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1594	UPDATE	VgbA	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1341	UPDATE	OXA-53	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1995	UPDATE	AAC(6')-Iz	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1293	UPDATE	OXA-197	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2482	UPDATE	Chlamydomonas reinhardtii 16S rRNA (rrnS) mutation conferring resistance to streptomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 40023
UPDATED strand with +
UPDATED accession with NC_005353.1
UPDATED fmin with 38549
UPDATED sequence with ATCCATGGAGAGTTTGATCCTGGCTCAGGACGAACGCTGGCGGCATGCTTAACACATGCAAGTCGAACGAGCAAAGCAATTTGTGTAGTGGCGAACGGGTGCGTAACGCGTAAGAACCTACCTATCGGAGGGGGATAACATTGGGAAACTGTTGCTAATACCCCATACAGCTGAGGAGTGAAAGGTGAAAAACCGCCGATAGAGGGGCTTGCGTCTGATTAGCTAGTTGGTGGGGGTAACGGCCTCCCAAGGCCACGAGCAGTAGCTGGTCTGAGAGGATGATCAGCCACACTGGGACTGAGACACGGCCCAGACTCCTACGGGAGGCAGCAGTGAGGAATTTTTCGCAATGGGCGCAAGCGACGGAGCAATGCCGCGTGCAGGAAGAAGGCCTGTGGGTCGTAAACTGCTTTTCTCAGAGAAGAAGTTCTGACGGTATCTGAGGAATAAGCACCGGCTAACTCTGTGCCAGCAGCCGCGGTAATACAGAGGGTGCAAGCGTTGTCCGCAATGATTGGGCGTAAAGCGTCTGTAGGTGGCTCGTAAAGTCTAATGTCAAATACCAGGGCTCAACCTTGGACCGGCATTGGAGTACTCACGAGCTTGAGTACGGTAGGGGCAGAGGGAATTCCATGTGGAGCGGTGAAATGCGTAGAGATATGGAGGAACACCAGTGGCGAAGGCGCTCTGCTGGGCCGAAACTGACACTGAGAGACGAAAGCTGGGGGAGCGAATAGGATTAGATACCCTAGTAGTCCCAGCCGTAAACTATGGAGACTAAGTGCTGCCGCAAGCAGTGCTGTAGCTAACGCGTTAAGTCTCCCGCCTGGGGAGTATGCTCGCAAGAGTGAAACTCAAAGGAATTGACGGGACCGCACAAGCGGTGGATTATGTGGATTAATTCGATACAACGCGAAGAACCTTACCAGGGTTTGACATGTCAAGAACCTCTCAGAAATGGGAGGGTGCCCTAACGGACTTGAACACAGGTGGTGCATGGCTGTCGTCAGCTCGTGCTGTGAAGTGTATAGTTAAGTCTCATAACGAGCGCAACCCTCGTCTTTAGTTGCCATTTGGTTCTCTAAAGAGACTGCCAGTGTAAGCTGGAGGAAGGTGAGGATGACGTCAAGTCAGCATGCCCCTTACATCCTGGGCTTCACACGTAATACAATGGTTGGGACAATCAGAAGCGACTCGTGAGAGCTAGCGGCTCTGTTAAACCCAACCTCAGTTCGGATTGTAGGCTGCAACTCGCCTACATGAAGCCGGAATCGCTAGTAATCGCCAGTCAGCTATATGGCGGTGAATACGTTCCCGGGTCTTGTACACACCGCCCGTCACACCATGGAAGCTGGTTCTGCTCCAAGTCGTTACCCTAACCTTCGGGAGGGGGGCGCCTAAAGCAGGGCTAGTGACTAGGGTGAAGTCGTAACAAGGTAGGGCTACTGGAAGGTGGCCCTGGCTCACCTCCTTC
UPDATED NCBI_taxonomy_name with Chlamydomonas reinhardtii
UPDATED NCBI_taxonomy_id with 3055
UPDATED NCBI_taxonomy_cvterm_id with 40815
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
1598	UPDATE	OXA-101	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2248	UPDATE	fusD	 antibiotic inactivation enzyme;  determinant of fusidic acid resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2249	UPDATE	LpxA	 determinant of polymyxin resistance;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistant gene variant or mutant; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2244	UPDATE	vanSI	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2245	UPDATE	vanKI	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2246	UPDATE	vanRI	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2240	UPDATE	vanJ	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2241	UPDATE	vanI	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2242	UPDATE	vanWI	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2243	UPDATE	vanXI	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
995	UPDATE	MexG	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
994	UPDATE	SHV-77	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
997	UPDATE	VIM-31	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
996	UPDATE	CMY-77	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
991	UPDATE	EreA	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
990	UPDATE	FOX-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2462	UPDATE	Propionibacterium acnes gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
992	UPDATE	SHV-66	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
999	UPDATE	LEN-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
998	UPDATE	SHV-134	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
120	UPDATE	aadA4	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
121	UPDATE	mdtF	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 35929
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
122	UPDATE	VIM-34	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
123	UPDATE	SHV-64	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
124	UPDATE	IND-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
125	UPDATE	SHV-182	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
126	UPDATE	TEM-183	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
127	UPDATE	clbB	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
128	UPDATE	srmB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
129	UPDATE	FosX	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2068	UPDATE	Escherichia coli 16S rRNA mutation conferring resistance to edeine	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant;  determinant of resistance to polyamine antibiotics; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2069	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to neomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2060	UPDATE	FosC2	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2061	UPDATE	VIM-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2062	UPDATE	mphC	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2063	UPDATE	blaR1	 antibiotic resistance gene cluster, cassette, or operon;  determinant of beta-lactam resistance;  gene modulating beta-lactam resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2064	UPDATE	TEM-196	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2065	UPDATE	CMY-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2066	UPDATE	Escherichia coli soxS with mutation conferring antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein modulating permeability to antibiotic;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_type; model_description; model_param; model_type_id	"UPDATED model_type with protein overexpression model
UPDATED model_description with This model detects protein overexpression based on the presence of mutations.The detection of the protein without an associated mutation indicates that the protein is likely to be expressed at low or basal levels. The detection of the protein with the mutation indicates that the protein is likely overexpressed. This model reflects how certain proteins are functional with and without mutations. For example, efflux pump subunits and regulators are functional with mutations and without mutations. Without mutations, efflux pump subunits and regulators are usually expressed at a low level. When an efflux pump regulator has a mutation, it can cause the overexpression of the efflux pump it is responsible for regulating, leading to resistance to specific drugs.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
UPDATED model_type_id with 41091
"
2666	UPDATE	antibiotic resistant fabI	 antibiotic resistant gene variant or mutant;  determinant of isoniazid resistance;  determinant of triclosan resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2660	UPDATE	Enterobacter cloacae acrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2661	UPDATE	Escherichia coli acrA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
722	UPDATE	vanRA	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
723	UPDATE	SHV-72	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1645	UPDATE	ACT-23	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1644	UPDATE	SHV-70	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1647	UPDATE	MexI	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1646	UPDATE	TEM-139	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1641	UPDATE	OXA-203	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1640	UPDATE	MIR-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1643	UPDATE	arnA	 determinant of polymyxin resistance;  gene altering cell wall charge; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1642	UPDATE	clbC	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1396	UPDATE	OXA-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1649	UPDATE	DHA-21	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1648	UPDATE	CTX-M-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
728	UPDATE	TEM-192	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
729	UPDATE	CTX-M-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1252	UPDATE	ceoB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
579	UPDATE	vgaA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
578	UPDATE	SHV-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
573	UPDATE	OXA-136	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
572	UPDATE	OXA-137	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
571	UPDATE	clbA	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
570	UPDATE	Streptococcus pyogenes folP with mutation conferring resistance to sulfonamides	 antibiotic resistant gene variant or mutant;  determinant of sulfonamide resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
577	UPDATE	QnrB65	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
576	UPDATE	MIR-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
575	UPDATE	AAC(3)-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
574	UPDATE	AAC(6')-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1209	UPDATE	QnrB45	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1208	UPDATE	SHV-173	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1421	UPDATE	TEM-85	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2406	UPDATE	rpsJ	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1997	UPDATE	tlrC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1422	UPDATE	ACC-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1425	UPDATE	RbpA	 antibiotic target protection protein;  determinant of rifamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1394	UPDATE	OXA-257	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1427	UPDATE	acrD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2407	UPDATE	Capnocytophaga gingivalis gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1429	UPDATE	SHV-60	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1428	UPDATE	cphA2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
939	UPDATE	CTX-M-113	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
731	UPDATE	IMP-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
730	UPDATE	AAC(6')-IIc	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
938	UPDATE	QnrB70	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
735	UPDATE	TEM-30	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
734	UPDATE	vanTC	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
737	UPDATE	MIR-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
736	UPDATE	arr-7	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
739	UPDATE	LRA-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
738	UPDATE	AAC(6')-Iae	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1359	UPDATE	OXA-233	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1358	UPDATE	VIM-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
469	UPDATE	SHV-49	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2400	UPDATE	oqxB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
465	UPDATE	vanSO	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
464	UPDATE	NDM-13	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
467	UPDATE	CARB-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
466	UPDATE	CTX-M-76	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1357	UPDATE	CTX-M-132	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
460	UPDATE	CMY-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1355	UPDATE	TEM-149	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
462	UPDATE	Staphylococcus aureus pgsA mutations conferring resistance to daptomycin	 antibiotic resistant gene variant or mutant;  determinant of resistance to lipopeptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1273	UPDATE	otr(A)	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2158	UPDATE	Escherichia coli EF-Tu mutants conferring resistance to Pulvomycin	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1519	UPDATE	vatE	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1518	UPDATE	EreA2	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1515	UPDATE	NDM-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1514	UPDATE	IMP-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1517	UPDATE	OXA-33	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
934	UPDATE	IMP-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1274	UPDATE	VIM-10	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1510	UPDATE	vanTrL	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1513	UPDATE	QnrB64	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1512	UPDATE	SME-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
281	UPDATE	CMY-110	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1275	UPDATE	ErmT	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
280	UPDATE	CTX-M-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
582	UPDATE	FOX-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
357	UPDATE	VIM-38	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
356	UPDATE	ErmU	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
355	UPDATE	TEM-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
354	UPDATE	QnrB24	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
353	UPDATE	QnrB2	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
352	UPDATE	PDC-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
351	UPDATE	SHV-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
350	UPDATE	ykkD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
359	UPDATE	TEM-112	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
358	UPDATE	QnrB42	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
43	UPDATE	tet(42)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1033	UPDATE	vanSN	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2323	UPDATE	qacH	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1111	UPDATE	AAC(6')-Ig	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2321	UPDATE	cdeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2326	UPDATE	TLA-3	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2325	UPDATE	Mrx	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2324	UPDATE	gadW	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2329	UPDATE	MOX-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2328	UPDATE	MUS-2 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1113	UPDATE	ANT(6)-Ib	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 3593
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
289	UPDATE	OXA-85	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
288	UPDATE	CMY-60	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1112	UPDATE	OXA-58	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1793	UPDATE	DHA-14	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
5	UPDATE	dfrF	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
283	UPDATE	CMY-85	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
282	UPDATE	CTX-M-125	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
285	UPDATE	TEM-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
284	UPDATE	smeD	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
287	UPDATE	TEM-67	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1114	UPDATE	ACT-17	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1441	UPDATE	Enterobacter aerogenes omp36 with mutation	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance;  protein modulating permeability to antibiotic; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1440	UPDATE	CTX-M-103	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
263	UPDATE	dfrA24	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
262	UPDATE	VIM-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
261	UPDATE	CMY-65	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
260	UPDATE	ErmN	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
267	UPDATE	OXA-43	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
266	UPDATE	QnrB13	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
265	UPDATE	SHV-128	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
264	UPDATE	lsaE	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
286	UPDATE	SHV-162	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
269	UPDATE	CMY-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
268	UPDATE	CfxA6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1290	UPDATE	TEM-141	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1291	UPDATE	TEM-177	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1296	UPDATE	OKP-B-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2192	UPDATE	TriA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1297	UPDATE	CTX-M-80	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1294	UPDATE	Sed1 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2259	UPDATE	mphG	 antibiotic inactivation enzyme;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2257	UPDATE	Planobispora rosea EF-Tu mutants conferring resistance to inhibitor GE2270A	 antibiotic resistant gene variant or mutant;  determinant of elfamycin resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1295	UPDATE	catII	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2251	UPDATE	LpxC	 determinant of polymyxin resistance;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistant gene variant or mutant; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2476	UPDATE	Halobacterium salinarum 16S rRNA mutation conferring resistance to pactamycin	 antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED 7809 with A633G
UPDATED 7810 with C734U
UPDATED 7811 with C735U
UPDATED 7809 with A633G
UPDATED 7810 with C734U
UPDATED 7811 with C735U
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2600
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
988	UPDATE	tet(J)	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
989	UPDATE	ErmG	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 589
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
982	UPDATE	TEM-153	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
983	UPDATE	GES-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
980	UPDATE	y56 beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
981	UPDATE	OXA-86	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
986	UPDATE	baeS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
987	UPDATE	CTX-M-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
984	UPDATE	Bartonella bacilliformis gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2478	UPDATE	Helicobacter pylori 16S rRNA mutation conferring resistance to tetracycline	 antibiotic resistant gene variant or mutant;  determinant of tetracycline resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 1512657
UPDATED strand with -
UPDATED accession with CP003904.1
UPDATED fmin with 1511156
UPDATED sequence with AGGAGGTGATCCAACCGCAGGTTCACTACGGTTACCTTGTTACGACTTCACCCCAGTCGCTGTGTGTGCCGTGGGCAGTAGCCAATTTAGCATCCTGACTTAAGGCAAACACAACTCCCATGGTGTGACGGGCGGTGAGTACAAGACCCGGGAACGTATTCACCGCAACATGGCTGATTTGCGATTACTAGCGATTCCAGCTTCATGCAGGCGAGTTGCAGCCTACAATCCGAACTGAGAGGTGTTTTGAAGATTGGCTCCATTCGCAGTATTGCTTCTCTTTGTGCACCCCATTGTAGCACGTGTGTAGCCCTAGGCGTAAGGGCCATGATGACTTGACGTCGTCCCCACCTTCCTNCCCTTACGGAGGCAGTATCCTTAGAGTTCTCAGCATAACCTGTTAGCAACTAAGAAAAGGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCGTGCAGCACCTGTTTTCAAGGTCTGGCAAGCCAGACACTCCACTATTTCTAGCGGATTCTCTCAATGTCAAGCCTAGGTAAGGTTCTTCGTGTATCTTCGAATTAAACCACATGCTCCACCGCTTGTGCGGGTCCCCGTCTATTCCTTTGAGTTTTAATCTTGCGACCGTACTCCCCAGGCGGGATGCTTAATGCGTTAGCTGCATTACTGGAGAGACTAAGCCCTCCAACAACTAGCATCCATCGTTTAGGGCGTGGACTACCAGGGTATCTAATCCTGTTTGCTCCCCAACMGCTTTCGCGCAATCAGCGTCAGTAATGTTCCAGCAGGTCGCCTTCGCAATGAGTATTCCTCTTGATCTCTACGGATTTTACCCCTACACCAAGAATTCCACCTACCTCTCCCACACTCTAGAATAGTAGTTTCAAATGCAGTTCTATGGTTAAGCCATAGGATTTCACACCTGACTGACTATCCCGCCTACGCGCTCTTTACGCCCAGTGATTCCGAGTAACGCTTGCACCCTCCGTATTACCGCGGCTGCTGGCACGGAGTTAGCCGGTGCTTATTCGTTAGATACCGTCATTATCTTCTCTAACAAAAGGAGTTTACAATCCTAAAACCTTCATCCTCCACGCGGCGTTGCTGCTTCAGGGTTTCCCCCATTGAGCAATATTCCCTACTGCTGCCTCCCGTAGGAGTCTGGACCGTGTCTCAGTTCCAGTGTGTCCGTTCACCCTCTCAGGCCGGATACCCGTCATAGCCTTGGTAAGCCATTACCTTACCAACAAGCTGATAGGACATAGGCTGATCTCTTAGCGATAAATCTTTCCCCCGTAGGAGTATCTGGTATTAATCATCGTTTCCAATGGCTATCCCAAACTAAGAGGCACATAACCTATGCGTTACTCACCCGTGCGCCACTAATCAGCACTCTAGCAAGCTAGAAGCTTCATCGTTCGACTTGCATGTATTAGGCACGCCGCCAGCGTTCACTCTGAGCCAGGATCAAACTCTCCATAAAA
UPDATED NCBI_taxonomy_name with Helicobacter pylori 26695
UPDATED NCBI_taxonomy_id with 85962
UPDATED NCBI_taxonomy_cvterm_id with 36758
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
UPDATED param_description with A set of nucleotide or amino acid substitutions that are each required to confer resistance to an antibiotic drug or drug class by co-mutation. Compare to single resistance variant, where only one substitution is required. Multiple resistance variants parameters are indicated on appropriate models using the following notation: [wild-type 1][position 1][mutation 1],[wild-type 2][position 2][mutation 2],...,[wild-type n][position n][mutation n]. When each included substitution is detected in a protein sequence, resistance is conferred. This parameter is not currently included in any detection algorithms.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
115	UPDATE	TEM-87	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
252	UPDATE	APH(9)-Ia	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1790	UPDATE	vanHF	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
116	UPDATE	QnrB18	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
111	UPDATE	Escherichia coli gyrB conferring resistance to aminocoumarin	 determinant of aminocoumarin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
110	UPDATE	AAC(6')-Iu	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
113	UPDATE	VEB-5	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
112	UPDATE	FosA5	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
119	UPDATE	VIM-12	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
118	UPDATE	LRA-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1797	UPDATE	ErmY	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2079	UPDATE	sgm	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2078	UPDATE	Mycobacterium chelonae 16S rRNA mutation conferring resistance to kanamycin A	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2500
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2073	UPDATE	Escherichia coli 16S rRNA (rrsB) mutation conferring resistance to G418	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2072	UPDATE	NmcR	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance;  gene modulating beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2071	UPDATE	AAC(6')-Ib8	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2070	UPDATE	Mycobacterium tuberculosis 16S rRNA mutation conferring resistance to amikacin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2077	UPDATE	Mycobacterium smegmatis 16S rRNA (rrsA) mutation conferring resistance to neomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 3825143
UPDATED strand with -
UPDATED accession with NC_008596.1
UPDATED fmin with 3823614
UPDATED sequence with AGAAAGGAGGTGATCCAGCCGCACCTTCCGGTACGGCTACCTTGTTACGACTTCGTCCCAATCGCCGATCCCACCTTCGACGGCTCCCTCCACAAGGGTTAGGCCACCGGCTTCGGGTGTTACCGACTTTCATGACGTGACGGGCGGTGTGTACAAGGCCCGGGAACGTATTCACCGCAGCGTTGCTGATCTGCGATTACTAGCGACTCCGACTTCACGGGGTCGAGTTGCAGACCCCGATCCGAACTGAGACCGGCTTTGAAAGGATTCGCTCCACCTCACGGCATCGCAGCCCTTTGTACCGGCCATTGTAGCATGTGTGAAGCCCTGGACATAAGGGGCATGATGACTTGACGTCATCCCCACCTTCCTCCGAGTTGACCCCGGCAGTCTCTCACGAGTCCCCACCATAACGTGCTGGCAACATGAGACAAGGGTTGCGCTCGTTGCGGGACTTAACCCAACATCTCACGACACGAGCTGACGACAGCCATGCACCACCTGCACACAGGCCACAAGGGAACCGACATCTCTGCCGGCGTCCTGTGCATGTCAAACCCAGGTAAGGTTCTTCGCGTTGCATCGAATTAATCCACATGCTCCGCCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTTAGCCTTGCGGCCGTACTCCCCAGGCGGGGTACTTAATGCGTTAGCTACGGCACGGATCCCAAGGAAGGAAACCCACACCTAGTACCCACCGTTTACGGCGTGGACTACCAGGGTATCTAATCCTGTTCGCTCCCCACGCTTTCGCTCCTCAGCGTCAGTTACTGCCCAGAGACCCGCCTTCGCCACCGGTGTTCCTCCTGATATCTGCGCATTCCACCGCTACACCAGGAATTCCAGTCTCCCCTGCAGTACTCTAGTCTGCCCGTATCGCCCGCACGCCCACAGTTAAGCTGTGAGTTTTCACGAACAACGCGACAAACCACCTACGAGCTCTTTACGCCCAGTAATTCCGGACAACGCTCGGACCCTACGTATTACCGCGGCTGCTGGCACGTAGTTGGCCGGTCCTTCTTCTGCACATACCGTCACTTGCGCTTCGTCTGTGCTGAAAGAGGTTTACAACCCGAAGGCCGTCATCCCTCACGCGGCGTCGCTGCATCAGGCTTGCGCCCATTGTGCAATATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTATCTCAGTCCCAGTGTGGCCGGTCACCCTCTCAGGCCGGCTACCCGTCGTCGCCTTGGTAGGCCATCACCCCACCAACAAGCTGATAGGCCGCGGGCCCATCCCACACCGCAAAAGCTTTCCCCTACCAGGCCATGCGACCAGCAGGGTGTATTCGGTATTAGACCCAGTTTCCCAGGCTTATCCCAAAGTGCAGGGCAGATCACCCACGTGTTACTCACCCGTTCGCCACTCGAGTACCCCCGAAAGGGCCTTTCCGTTCGACTTGCATGTGTTAAGCACGCCGCCAGCGTTCGTCCTGAGCCAGGATCAAACTCTCCAAACAAAAAC
UPDATED NCBI_taxonomy_name with Mycobacterium smegmatis str. MC2 155
UPDATED NCBI_taxonomy_id with 246196
UPDATED NCBI_taxonomy_cvterm_id with 36769
UPDATED accession with 
UPDATED sequence with 
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2076	UPDATE	Neisseria gonorrhoeae 16S rRNA mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED fmax with 385288
UPDATED strand with +
UPDATED accession with CP020418
UPDATED fmin with 383737
UPDATED sequence with AGAGATTGAACATAAGAGTTTGATCCTGGCTCAGATTGAACGCTGGCGGCATGCTTTACACATGCAAGTCGGACGGCAGCACAGGGAAGCTTGCTTCTCGGGTGGCGAGTGGCGAACGGGTGAGTAACATATCGGAACGTACCGGGTAGCGGGGGATAACTGATCGAAAGATCAGCTAATACCGCATACGTCTTGAGAGGGAAAGCAGGGGACCTTCGGGCCTTGCGCTATCCGAGCGGCCGATATCTGATTAGCTGGTTGGCGGGGTAAAGGCCCACCAAGGCGACGATCAGTAGCGGGTCTGAGAGGATGATCCGCCACACTGGGACTGAGACACGGCCCAGACTCCTACGGGAGGCAGCAGTGGGGAATTTTGGACAATGGGCGCAAGCCTGATCCAGCCATGCCGCGTGTCTGAAGAAGGCCTTCGGGTTGTAAAGGACTTTTGTCAGGGAAGAAAAGGCCGTTGCCAATATCGGCGGCCGATGACGGTACCTGAAGAATAAGCACCGGCTAACTACGTGCCAGCAGCCGCGGTAATACGTAGGGTGCGAGCGTTAATCGGAATTACTGGGCGTAAAGCGGGCGCAGACGGTTACTTAAGCAGGATGTGAAATCCCCGGGCTCAACCCGGGAACTGCGTTCTGAACTGGGTGACTCGAGTGTGTCAGAGGGAGGTGGAATTCCACGTGTAGCAGTGAAATGCGTAGAGATGTGGAGGAATACCGATGGCGAAGGCAGCCTCCTGGGATAACACTGACGTTCATGTCCGAAAGCGTGGGTAGCAAACAGGATTAGATACCCTGGTAGTCCACGCCCTAAACGATGTCAATTAGCTGTTGGGCAACTTGATTGCTTGGTAGCGTAGCTAACGCGTGAAATTGACCGCCTGGGGAGTACGGTCGCAAGATTAAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGATGATGTGGATTAATTCGATGCAACGCGAAGAACCTTACCTGGTTTTGACATGTGCGGAATCCTCCGGAGACGGAGGAGTGCCTTCGGGAGCCGTAACACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTGTCATTAGTTGCCATCATTCGGTTGGGCACTCTAATGAGACTGCCGGTGACAAGCCGGAGGAAGGTGGGGATGACGTCAAGTCCTCATGGCCCTTATGACCAGGGCTTCACACGTCATACAATGGTCGGTACAGAGGGTAGCCAAGCCGCGAGGCGGAGCCAATCTCACAAAACCGATCGTAGTCCGGATTGCACTCTGCAACTCGAGTGCATGAAGTCGGAATCGCTAGTAATCGCAGGTCAGCATACTGCGGTGAATACGTTCCCGGGTCTTGTACACACCGCCCGTCACACCATGGGAGTGGGGGATACCAGAAGTAGGTAGGGTAACCGCAAGGAGTCCGCTTACCACGGTATGCTTCATGACTGGGGTGAAGTCGTAACAAGGTAGCCGTAGGGGAACCTGCGGCTGGATCACCTCCTTTCTA
UPDATED NCBI_taxonomy_name with Neisseria gonorrhoeae
UPDATED NCBI_taxonomy_id with 485
UPDATED NCBI_taxonomy_cvterm_id with 36806
UPDATED accession with 
UPDATED sequence with 
UPDATED 7828 with C1198U
UPDATED 7828 with C1198U
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
2075	UPDATE	Salmonella enterica soxR with mutation conferring antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
2074	UPDATE	Salmonella enterica 16S rRNA (rrsD) mutation conferring resistance to spectinomycin	 antibiotic resistant gene variant or mutant;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with An AMR detection model used to identify ribosomal RNA (rRNA) genes with mutations shown to confer elevated resistance to antibiotic(s) relative to the wild-type rRNA sequence. rRNA mutation models include a reference rRNA sequence, a BLASTN bitscore cutoff and mapped potential resistance variants. A submitted sequence must include a known resistance variant to be detected.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED 41093
UPDATED param_value with 2700
UPDATED param_type_id with 41093
UPDATED param_type with BLASTN bit-score
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix.
"
1388	UPDATE	oleB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1796	UPDATE	CMY-119	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1035	UPDATE	Streptococcus pneumoniae PBP2b conferring resistance to amoxicillin	 antibiotic resistant gene variant or mutant;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1389	UPDATE	KPC-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2679	UPDATE	MexAB-OprM with MexR mutations confers resistance to multiple antibiotics	 efflux pump complex or subunit conferring antibiotic resistance; 	model_type; model_description; model_param	"UPDATED model_type with efflux pump system meta-model
UPDATED model_description with A meta-model used to detect an efflux pump (and its subunits) along with its regulators and any determinants of overexpression (e.g., mutations in efflux pump subunits, mutations in local and global regulators, mutations in two component regulatory systems)
UPDATED param_description with This parameter describes efflux pump components that are to be detected together (e.g., efflux pump subunits and regulators) using sequential model IDs, separated by commas. For example: 2685,440,1925,1305.
"
1986	UPDATE	OXA-309	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1987	UPDATE	QnrA1	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1984	UPDATE	SHV-144	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1985	UPDATE	SHV-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1982	UPDATE	IMP-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1983	UPDATE	vanTN	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1980	UPDATE	OXA-247	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1981	UPDATE	vanA	 determinant of resistance to glycopeptide antibiotics;  protein(s) conferring antibiotic resistance via molecular bypass;  antibiotic resistance gene cluster, cassette, or operon; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1638	UPDATE	CMY-111	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1639	UPDATE	SHV-84	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1988	UPDATE	CMY-7	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1989	UPDATE	Klebsiella pneumoniae acrR with mutation conferring multidrug antibiotic resistance	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
568	UPDATE	CTX-M-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
569	UPDATE	OXA-228	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
560	UPDATE	OXA-77	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
561	UPDATE	OKP-B-8	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
562	UPDATE	TEM-187	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
563	UPDATE	OKP-B-6	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
564	UPDATE	IMP-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
565	UPDATE	SHV-82	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
566	UPDATE	OXA-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
567	UPDATE	CTX-M-41	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1188	UPDATE	ErmV	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1189	UPDATE	vatB	 antibiotic inactivation enzyme;  determinant of streptogramin resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1186	UPDATE	OXA-327	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1187	UPDATE	OXA-248	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1184	UPDATE	OXA-182	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1185	UPDATE	OXA-176	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1182	UPDATE	CTX-M-105	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1183	UPDATE	tetQ	 antibiotic target protection protein;  determinant of tetracycline resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1180	UPDATE	mdsC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1181	UPDATE	cmeA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
726	UPDATE	PC1 beta-lactamase (blaZ)	 antibiotic resistance gene cluster, cassette, or operon;  determinant of beta-lactam resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
727	UPDATE	ErmS	 antibiotic target modifying enzyme;  determinant of lincosamide resistance;  determinant of streptogramin resistance;  determinant of macrolide resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
724	UPDATE	AAC(6')-Ij	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
725	UPDATE	GES-11	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1748	UPDATE	lsaC	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1749	UPDATE	IMP-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
720	UPDATE	BcI	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
721	UPDATE	OXA-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1745	UPDATE	KPC-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1746	UPDATE	IMP-24	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1747	UPDATE	CMY-103	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1740	UPDATE	TEM-53	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1741	UPDATE	OXA-359	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1742	UPDATE	SHV-28	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1743	UPDATE	OXA-338	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1164	UPDATE	MIR-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1165	UPDATE	OKP-A-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1166	UPDATE	Staphylococcus aureus gyrA conferring resistance to fluoroquinolones	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1167	UPDATE	norB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1160	UPDATE	QnrB34	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1161	UPDATE	lsaB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1162	UPDATE	aadA15	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1163	UPDATE	CMY-94	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1168	UPDATE	NDM-9	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1169	UPDATE	OXA-360	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
48	UPDATE	OXA-90	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
49	UPDATE	tsnr	 antibiotic target modifying enzyme;  determinant of resistance to peptide antibiotics; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
46	UPDATE	CMY-114	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
47	UPDATE	OXA-60	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
44	UPDATE	golS	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
45	UPDATE	mdtP	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
42	UPDATE	OXY-6-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2034	UPDATE	TEM-108	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
40	UPDATE	QnrB58	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
41	UPDATE	rmtH	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1568	UPDATE	OXA-183	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1569	UPDATE	catD	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1298	UPDATE	lsaA	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1299	UPDATE	AAC(6')-Ic	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1560	UPDATE	OKP-B-20	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1561	UPDATE	vanTG	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1562	UPDATE	aad(6)	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1563	UPDATE	CTX-M-63	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1564	UPDATE	QnrB16	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1565	UPDATE	ACT-18	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1566	UPDATE	vanXD	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1567	UPDATE	FosB	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
DELETED 3612
UPDATED param_value with 225
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1713	UPDATE	vanYM	 determinant of resistance to glycopeptide antibiotics;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) conferring antibiotic resistance via molecular bypass; 	model_description; ARO_category; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED category_aro_name with protein(s) conferring antibiotic resistance via molecular bypass
UPDATED category_aro_description with Proteins involved in restructuring of the cell wall, causing antibiotic resistance.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
474	UPDATE	dfrD	 antibiotic target replacement protein;  determinant of diaminopyrimidine resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
796	UPDATE	iri	 determinant of rifamycin resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2033	UPDATE	mtrR	 protein(s) and two-component regulatory system modulating antibiotic efflux; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1711	UPDATE	AQU-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1381	UPDATE	CcrA beta-lactamase	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1710	UPDATE	Mycobacterium leprae gyrB conferring resistance to fluoroquinolone	 antibiotic resistant gene variant or mutant;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
1717	UPDATE	OXA-230	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1716	UPDATE	OXA-398	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1715	UPDATE	OXA-73	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2032	UPDATE	CTX-M-62	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1201	UPDATE	CARB-22	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
790	UPDATE	CMY-32	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
472	UPDATE	TEM-128	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
473	UPDATE	mphE	 determinant of macrolide resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
470	UPDATE	OXA-4	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
471	UPDATE	TEM-151	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
476	UPDATE	amrB	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_sequences; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED fmax with 2150949
UPDATED strand with -
UPDATED accession with NC_006350.1
UPDATED fmin with 2147817
UPDATED sequence with TCACTTGGCCTCCAGTGCCGCTTGCGCGCCGCCTCGGCGGCGCGGAACGACGTCGAACACGCGCCCGACGCAGACGAAAAAGAGCGGGACGAGGAAGATCGCGAACAGCGTCGCGCTGATCACGCCGCCGAGCACCCCCGTGCCGATCGCGATCTGCGCGCCGGATGCGGCGCCCGTCGCGAACGCGAGCGGCAGCACGCCGACGCCGAACGCGAGCGAGGTCATCACGATCGGCCGCAGCCGCAGCCGCGCGGCCTCGAGCGCCGCGTCGGCGAGCGACATGCGCTGCGCGACCAGATCCTTCGCGACCTCGACGATCAGGATCGCGTTCTTCGCGGACAAACCGATCGTCGCGATCAGCCCCACCTTGAAATAGATGTCGTTCGGCATCCCGCGCAGCGTGACGCCCGCGACCGCGCCGATCACGCCGAGCGGCACGACGAGCATCACCGCGAACGGAATCGACCAGCTCTCGTACAGCGCCGCGAGCGCGAGGAACACGACGAGCACCGACAGCGCGAACAGCATCGGCGCCTGCGCGCCCGACAGCCGCTCCTCGTACGACTGGCCGGACCACGCGTAGCCGGTGCCGGCGGGCAGCGTCGACGCGATCCGCTCGATCGCCGCCATCGCCTCGCCGCTGCTGTGCCCGGCCGACGCCGCGCCGTTGATCGTAAACGACGGAAAGCCGTTGTAGCGCGTCAACTGCGGCGGGCCCATCGTCCAGTGCAGCGTCGCGAACGCCGCGAGCGGCACCATCTCGCCCTTCGCGTTGCGCACGCGCAGCTTCGTCACGTCGGCGGCGTCGAGCCGGTGCCGCCCGTCCGCCTGCACGATCACGCGGCGCACCTGCGAGCCGTGCATGAAATCGCCGATGTAGTCCGAGCCGAACATCACAGCGAGCGTCGCGTTGATTTCCTCCATCGATACGCCGAGCGCCGACGCCTTCGCGCGATCGATGTCGAGCTTCAGCTGCGGCGCGTCCTGCGTGCCGGCGAACATCAAATCGGTCAGGACGGGGTCCTTGCGCCCCTCGGCGAGCAGCTTCTCGCGCGCGGCGACGAACGCGCCGTAGCCGAGCCCGCCGCGGTCCTGCAGCCGGAAGTCGAAGCCGCCCGTCAGGCCGAGGTCCGGCAGCGCCGGCATGTTGATCGCGAACACCATCGTGTTCGGCGTGCCGGCGAAATGCGCGTTGATCTCCGCGATGATCGCCTGCACCTGGTCCCGCGCCCGCTTGCGCTCCTTCCAGTCCTTCATCGTGACGAAGATCATCCCGCCGTTCGGCCCTTCGCCGTACAGGTTGTAGCCGCCGAGCGCGAACGTGTACGCGCTCGGCGAATGCGTGCGCACGTATTCCTCGACGCGCCGCACGCTCTGCATCGTCTCGGCGAGCGGCGTGCCCTGCGGGCGAATCACCATCACCATGAAGTTGCCCTGATCCTCGTCGGGCAGGAACGCGGCCGGCAGCTTCGTGATCAGCAGCGCGGCGGCGGCCGTCAGCGCGCCGTAGACGACGAGCCAGCGCAGCGGGCGCTCGAGCACCCGCCCGACGCGCCGCGTGTAGCGGTGCGTCGAGCGCGCGACGAAACGGTTGAACCAGCCGAAGAAGCCGTCCTTCTCGTGATGGTCGTCGGCGACGGGCTTGAGCAGCGTCGCGCAGAGCGCCGGCGTGAGCGACAGCGCGAGAAACGCCGAGAAGCCGATCGACACCGCCAGCGCGAACGCGAACTGCCGGTAGATGTTGCCGACCGCGCCGCCGAAGAACGCCATCGGCACGAACACCGACGTGAGCACGACGGTGATCCCGACGATCGCGCCGCTGATCTGCTTCATCGCCTTCACGGTGGCCTCGTACGGCGGCAGCTTCTCCTCGACCATCAGCCGCTCGACGTTCTCGACGACGACGATCGCGTCGTCGACGAGGATGCCGATCGCGAGCACCATCCCGAACATCGTCAGCACGTTGATCGAGAAGCCCGCGGCGAGCATCGCGCCGAACGTGCCGAGCAGCGCGACGGGCACGACGAGCGTCGGAATCAGCGTCGCGCGGAAGTTCTGCATGAAGAGGAACATCACCGCGAACACGAGCACGCCCGCCTCGACGAGCGTCGTGACGACCTTGCTCATCGACACGCGCACGAACGACGCCGTCTCGTACGGAATCTGGTACTTGACGCCCGGCGGAAAGAACTTCGCGAGCTCCTCCATCGTCGCGCGCACGCGCTTTTCGGTGGCGACCGCATTCGAACCGGGCGCGAGCTTGATGCCCATGCCCGTCGCCGTCTTGCCGTTCACGAACGACGGGTAGTTGTAATCGTTGCCGCCGAACTCGATTCTCGCGACGTCGCGCAGGTACAGCGTCGAGCCGTCGGCGCGCGCGCGCAGCGCGATCGCGCCGAACGCGTCGGGCGTCGTGAGCGGCGCGTCGGCGAGCACGGTCGCCGCGATCGGCGCGCTGTCGGGCACCGCGCTGCGGCCGACGTCGCCGATCGTCACGCGCGCGTTGTGCGCGCGCACGGCCGACGCGATATCGGACGCCGTCAGGCCGAGCGCCGCCATCTTCACGGGGTCCGGCCAGATCCGCATCGCATACTCGGCGCCCCAGAACTGCACCTTGCCGACGCCCTCGACGCGCCGCAGCGCCTGCAACACGTTCGCCGACGCGTATTCGCCGAGCTCCACGCCCGATAACCGTCCGTCCTCCGACGTGAGCGACACGATGATCTGCGCGTTGTCGGCCGCCTTCTCGATCGAGATGCCGTCGCGCCGCACGGGCTCGGGCAGCCGCGCCTCGACGATTTTCAGGCGGTTCTGCACGTCGACGGCCGCGAGATCGGCGCTCACGCCCTGCTTGAACGTGAGCGACAGCGACGCCTGGCCGGCGCTGCTCGTCGCCGACGTGTACAGCAGGCCGGGCACGCCGTTCATCTCGCGCTCGATCACGGCGGTGACCGATTCCTCGACGACCTGCGCGGACGCGCCCGGATACGTCGCATAGAGGCTGACGACGGGCGGCGCGATGTCCGGATACTGCGCGACGGGCAGCGCGCGGATCGCGAAGATGCCGCCCAGCATGATGAACAAGGAGATCACCCATGCGAACACCGGGCGATCGATGAAGAAACGAGCCAT
UPDATED NCBI_taxonomy_name with Burkholderia pseudomallei K96243
UPDATED NCBI_taxonomy_id with 272560
UPDATED NCBI_taxonomy_cvterm_id with 41211
UPDATED accession with YP_108402.1
UPDATED sequence with MARFFIDRPVFAWVISLFIMLGGIFAIRALPVAQYPDIAPPVVSLYATYPGASAQVVEESVTAVIEREMNGVPGLLYTSATSSAGQASLSLTFKQGVSADLAAVDVQNRLKIVEARLPEPVRRDGISIEKAADNAQIIVSLTSEDGRLSGVELGEYASANVLQALRRVEGVGKVQFWGAEYAMRIWPDPVKMAALGLTASDIASAVRAHNARVTIGDVGRSAVPDSAPIAATVLADAPLTTPDAFGAIALRARADGSTLYLRDVARIEFGGNDYNYPSFVNGKTATGMGIKLAPGSNAVATEKRVRATMEELAKFFPPGVKYQIPYETASFVRVSMSKVVTTLVEAGVLVFAVMFLFMQNFRATLIPTLVVPVALLGTFGAMLAAGFSINVLTMFGMVLAIGILVDDAIVVVENVERLMVEEKLPPYEATVKAMKQISGAIVGITVVLTSVFVPMAFFGGAVGNIYRQFAFALAVSIGFSAFLALSLTPALCATLLKPVADDHHEKDGFFGWFNRFVARSTHRYTRRVGRVLERPLRWLVVYGALTAAAALLITKLPAAFLPDEDQGNFMVMVIRPQGTPLAETMQSVRRVEEYVRTHSPSAYTFALGGYNLYGEGPNGGMIFVTMKDWKERKRARDQVQAIIAEINAHFAGTPNTMVFAINMPALPDLGLTGGFDFRLQDRGGLGYGAFVAAREKLLAEGRKDPVLTDLMFAGTQDAPQLKLDIDRAKASALGVSMEEINATLAVMFGSDYIGDFMHGSQVRRVIVQADGRHRLDAADVTKLRVRNAKGEMVPLAAFATLHWTMGPPQLTRYNGFPSFTINGAASAGHSSGEAMAAIERIASTLPAGTGYAWSGQSYEERLSGAQAPMLFALSVLVVFLALAALYESWSIPFAVMLVVPLGVIGAVAGVTLRGMPNDIYFKVGLIATIGLSAKNAILIVEVAKDLVAQRMSLADAALEAARLRLRPIVMTSLAFGVGVLPLAFATGAASGAQIAIGTGVLGGVISATLFAIFLVPLFFVCVGRVFDVVPRRRGGAQAALEAK
UPDATED param_value with 1800
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
477	UPDATE	catP	 determinant of phenicol resistance;  antibiotic inactivation enzyme; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1360	UPDATE	Bartonella bacilliformis gyrB conferring resistance to aminocoumarin	 determinant of aminocoumarin resistance;  antibiotic resistant gene variant or mutant; 	model_description; model_param	"UPDATED model_description with Protein variant models perform a similar search to protein homolog models, but secondarily screen query sequences for curated sets of mutations to differentiate between wild type. This model includes a protein reference sequence, a curated BLASTP cut-off, and mapped resistance variants. For example, a protein that confers elevated resistance to antibiotic(s) relative to wild type. Mapped resistance variants may include any or all of: single resistance variants, insertions, deletions, co-dependent resistance variants, nonsense SNPs, and/or frameshift mutations
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
UPDATED param_description with A nucleotide or amino acid substitution that confers elevated resistance to antibiotic(s) relative to wild type. The most common type encoded in the CARD is an amino acid substitution gleaned from the literature with format [wild-type][position][mutation], e.g. R184Q. When present in the associated gene or protein, a single resistance variant confers resistance to an antibiotic drug or drug class. Single resistance variants are used by the protein variant and rRNA mutation models to detect antibiotic resistance from submitted sequences.
DELETED blastp_evalue
"
475	UPDATE	OXA-106	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
478	UPDATE	AAC(3)-IIa	 antibiotic inactivation enzyme;  determinant of aminoglycoside resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
479	UPDATE	IMP-29	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1368	UPDATE	abeM	 efflux pump complex or subunit conferring antibiotic resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
1369	UPDATE	QnrB69	 antibiotic target protection protein;  determinant of fluoroquinolone resistance; 	model_description; model_param	"UPDATED model_description with Protein homolog models detect protein sequences based on their similarity to curated reference sequence, using curated BLASTP cut-offs. CARD cut-offs are currently based on BLAST bitscore cutoffs as they are independent of database size and query length.
UPDATED param_description with A score is a numerical value that describes the overall quality of an alignment. Higher numbers correspond to higher similarity. The bit-score (S) is determined by the following formula: S = (λ × S − lnK)/ ln2 where λ is the Gumble distribution constant, S is the raw alignment score, and K is a constant associated with the scoring matrix. Many AMR detection models use this parameter, including the protein homolog and protein variant models. The BLASTP bitscore parameter is a curated value determined from BLASTP analysis of the canonical reference sequence of a specific AMR-associated protein against the database of CARD reference sequence. This value establishes a threshold for computational prediction of a specific protein amongst a batch of submitted sequences.
DELETED blastp_evalue
"
2275	DELETE	desR	 gene involved in self-resistance to antibiotic;  determinant of macrolide resistance; 	N/A	N/A
1465	DELETE	SHV-181	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	N/A	N/A
930	DELETE	mdtD	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2273	DELETE	oleR	 gene involved in self-resistance to antibiotic; 	N/A	N/A
2322	DELETE	gadE	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistance gene cluster, cassette, or operon;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	N/A	N/A
2778	ADD	MCR-2	 determinant of polymyxin resistance;  gene altering cell wall charge; 	N/A	N/A
2779	ADD	FosA6	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	N/A	N/A
2770	ADD	kamB	 antibiotic target modifying enzyme;  determinant of aminoglycoside resistance; 	N/A	N/A
2771	ADD	QepA2	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2773	ADD	TMB-1	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	N/A	N/A
2774	ADD	TMB-2	 antibiotic inactivation enzyme;  determinant of beta-lactam resistance; 	N/A	N/A
2775	ADD	Pseudomonas aeruginosa soxR	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	N/A	N/A
2776	ADD	Escherichia coli rob	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	N/A	N/A
250	ADD	cmr	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
138	ADD	Streptomyces lividans cml	 determinant of phenicol resistance; 	N/A	N/A
2800	ADD	cfrC	 determinant of linezolid resistance;  determinant of lincosamide resistance;  determinant of macrolide resistance;  antibiotic target modifying enzyme;  determinant of phenicol resistance;  determinant of streptogramin resistance; 	N/A	N/A
2785	ADD	Klebsiella pneumoniae OmpK37	 protein modulating permeability to antibiotic; 	N/A	N/A
2787	ADD	Moraxella catarrhalis M35	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	N/A	N/A
2786	ADD	Burkholderia pseudomallei Omp38	 protein modulating permeability to antibiotic; 	N/A	N/A
2781	ADD	porin OmpC	 protein modulating permeability to antibiotic; 	N/A	N/A
2780	ADD	FosA7	 antibiotic inactivation enzyme;  determinant of fosfomycin resistance; 	N/A	N/A
971	ADD	cmlA4	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2782	ADD	Vibrio cholerae OmpU	 protein modulating permeability to antibiotic; 	N/A	N/A
2303	ADD	bcr-1	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2789	ADD	Escherichia coli MipA	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	N/A	N/A
2788	ADD	Escherichia coli LamB	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	N/A	N/A
1038	ADD	cmlB1	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2795	ADD	MCR-3	 determinant of polymyxin resistance;  gene altering cell wall charge; 	N/A	N/A
328	ADD	cmlA	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
1037	ADD	cmlA1	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2769	ADD	MdtNOP	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2768	ADD	MdtEF-TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2763	ADD	MdtABC-TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2762	ADD	MexMN-OprM	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2761	ADD	MexPQ-OpmE	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2760	ADD	MexGHI-OpmD	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2766	ADD	EmrKY-TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2765	ADD	EmrAB-TolC	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2764	ADD	Escherichia coli CpxR	 efflux pump complex or subunit conferring antibiotic resistance;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	N/A	N/A
245	ADD	cmlA5	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
1744	ADD	cmrA	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
486	ADD	cmlB	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
1435	ADD	cmlA6	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
907	ADD	fexA	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2783	ADD	Vibrio cholerae OmpT	 protein modulating permeability to antibiotic; 	N/A	N/A
1366	ADD	cmx	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2798	ADD	AxyZ	 efflux pump complex or subunit conferring antibiotic resistance;  antibiotic resistant gene variant or mutant;  protein(s) and two-component regulatory system modulating antibiotic efflux; 	N/A	N/A
2799	ADD	AxyY	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2758	ADD	LpeA	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2792	ADD	Moraxella catarrhalis 23S rRNA with mutation conferring resistance to macrolide antibiotics	 antibiotic resistant gene variant or mutant; 	N/A	N/A
2793	ADD	Chlamydomonas reinhardtii 23S rRNA with mutation conferring resistance to Erythromycin	 antibiotic resistant gene variant or mutant; 	N/A	N/A
2790	ADD	Serratia marcescens Omp1	 gene conferring resistance via absence;  protein modulating permeability to antibiotic; 	N/A	N/A
2791	ADD	Streptococcus mitis CdsA with mutation conferring daptomycin resistance	 determinant of resistance to peptide antibiotics;  antibiotic resistant gene variant or mutant; 	N/A	N/A
2796	ADD	OprZ	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2797	ADD	AxyX	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A
2794	ADD	Helicobacter pylori 23S rRNA with mutation conferring resistance to clarithromycin	 antibiotic resistant gene variant or mutant; 	N/A	N/A
2759	ADD	LpeB	 efflux pump complex or subunit conferring antibiotic resistance; 	N/A	N/A