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.