TB-Profiler

Lineage	Family	RDs	Frequency
La1.8	M.bovis	None	1.0
La1.8.1	M.bovis	None	1.0
La1	M.bovis	None	1.0

Gene	Chromosome position	Mutation	Type	Estimated fraction	Drugs	Confidence	Comment
pncA	2289073	p.His57Asp	missense_variant	1.0	pyrazinamide	Assoc w R

Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance

Gene	Chromosome position	Mutation	Type	Estimated fraction	Drugs	Confidence
dnaA	467	p.His156Arg	missense_variant	1.0	isoniazid	Not assoc w R
gyrB	6406	c.1167C>T	synonymous_variant	1.0	levofloxacin	Not assoc w R - Interim
gyrB	6406	c.1167C>T	synonymous_variant	1.0	moxifloxacin	Not assoc w R - Interim
gyrB	6446	p.Ala403Ser	missense_variant	1.0	levofloxacin	Not assoc w R
gyrB	6446	p.Ala403Ser	missense_variant	1.0	moxifloxacin	Uncertain significance
gyrA	7362	p.Glu21Gln	missense_variant	1.0	levofloxacin	Not assoc w R
gyrA	7362	p.Glu21Gln	missense_variant	1.0	moxifloxacin	Not assoc w R
gyrA	7585	p.Ser95Thr	missense_variant	1.0	levofloxacin	Not assoc w R
gyrA	7585	p.Ser95Thr	missense_variant	1.0	moxifloxacin	Not assoc w R
gyrA	9217	p.Asp639Ala	missense_variant	1.0	levofloxacin	Uncertain significance
gyrA	9217	p.Asp639Ala	missense_variant	1.0	moxifloxacin	Uncertain significance
gyrA	9304	p.Gly668Asp	missense_variant	1.0	levofloxacin	Not assoc w R
gyrA	9304	p.Gly668Asp	missense_variant	1.0	moxifloxacin	Not assoc w R
Rv0010c	13197	p.Thr121Ser	missense_variant	1.0	isoniazid	Not assoc w R
Rv0010c	13228	c.330delG	frameshift_variant	1.0	isoniazid	Uncertain significance
Rv0010c	13460	c.99T>C	synonymous_variant	1.0	isoniazid	Not assoc w R
fgd1	491742	c.960T>C	synonymous_variant	1.0	clofazimine	Not assoc w R
					pretomanid
					delamanid	Not assoc w R - Interim
Rv0565c	657578	c.-108T>C	upstream_gene_variant	1.0	ethionamide
rpoB	763031	c.3225T>C	synonymous_variant	1.0	rifampicin	Not assoc w R
mmpL5	775639	p.Ile948Val	missense_variant	1.0	clofazimine	Not assoc w R
mmpL5	775639	p.Ile948Val	missense_variant	1.0	bedaquiline	Not assoc w R - Interim
rpsL	781395	c.-165T>C	upstream_gene_variant	1.0	streptomycin	Not assoc w R
Rv1129c	1254562	c.-28T>C	upstream_gene_variant	1.0	moxifloxacin	Not assoc w R
					levofloxacin	Not assoc w R
					rifampicin	Not assoc w R
					isoniazid	Not assoc w R
Rv1129c	1254582	c.-48A>G	upstream_gene_variant	1.0	moxifloxacin	Uncertain significance
					levofloxacin	Uncertain significance
					rifampicin	Not assoc w R
					isoniazid	Not assoc w R
fbiC	1302899	c.-32A>G	upstream_gene_variant	1.0	clofazimine	Uncertain significance
					pretomanid
					delamanid	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.6	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472655	n.810G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472658	n.813G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472659	n.814G>A	non_coding_transcript_exon_variant	0.62	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472661	n.816A>G	non_coding_transcript_exon_variant	0.62	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472669	n.824_825insCAG	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472677	n.832C>G	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472678	n.833T>A	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472679	n.834_835insAC	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472684	n.841_846delGATCCG	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472697	n.852T>A	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472700	n.855C>T	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472705	n.860G>A	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472713	n.868T>C	non_coding_transcript_exon_variant	0.59	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472715	n.870C>T	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.59	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472741	n.896G>A	non_coding_transcript_exon_variant	0.65	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.65	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1476251	n.2594T>G	non_coding_transcript_exon_variant	0.69	capreomycin	Uncertain significance
rrl	1476251	n.2594T>G	non_coding_transcript_exon_variant	0.69	linezolid
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.71	capreomycin	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.71	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.75	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.75	linezolid	Uncertain significance
rrl	1476280	n.2623A>C	non_coding_transcript_exon_variant	0.76	capreomycin	Uncertain significance
rrl	1476280	n.2623A>C	non_coding_transcript_exon_variant	0.76	linezolid	Uncertain significance
rrl	1476293	n.2636C>T	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476293	n.2636C>T	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476295	n.2638C>G	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476295	n.2638C>G	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476297	n.2640C>T	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476297	n.2640C>T	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476301	n.2644A>C	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1476301	n.2644A>C	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1476302	n.2645G>A	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1476302	n.2645G>A	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.85	capreomycin	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.85	linezolid	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.85	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.85	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.83	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.83	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.82	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.88	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.88	linezolid	Uncertain significance
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.88	capreomycin	Not assoc w R
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.88	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.73	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.67	linezolid
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	0.69	capreomycin	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	0.69	linezolid	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	0.69	capreomycin	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	0.69	linezolid	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.69	capreomycin	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.69	linezolid	Uncertain significance
rrl	1476536	n.2879G>A	non_coding_transcript_exon_variant	0.61	capreomycin	Uncertain significance
rrl	1476536	n.2879G>A	non_coding_transcript_exon_variant	0.61	linezolid	Uncertain significance
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	0.61	capreomycin	Uncertain significance
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	0.61	linezolid	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	0.61	capreomycin	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	0.61	linezolid	Uncertain significance
rrl	1476540	n.2883C>G	non_coding_transcript_exon_variant	0.58	capreomycin	Uncertain significance
rrl	1476540	n.2883C>G	non_coding_transcript_exon_variant	0.58	linezolid	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	0.61	capreomycin	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	0.61	linezolid	Uncertain significance
rrl	1476567	n.2910C>T	non_coding_transcript_exon_variant	0.59	capreomycin	Uncertain significance
rrl	1476567	n.2910C>T	non_coding_transcript_exon_variant	0.59	linezolid	Uncertain significance
rrl	1476573	n.2916A>T	non_coding_transcript_exon_variant	0.53	capreomycin	Uncertain significance
rrl	1476573	n.2916A>T	non_coding_transcript_exon_variant	0.53	linezolid
tsnR	1854300	p.Leu232Pro	missense_variant	1.0	linezolid	Not assoc w R
tlyA	1917972	c.33A>G	synonymous_variant	0.95	capreomycin	Not assoc w R
bacA	2062922	p.Ile603Val	missense_variant	1.0	streptomycin	Not assoc w R
					kanamycin	Not assoc w R
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
ndh	2102193	p.Arg284Trp	missense_variant	1.0	ethionamide	Uncertain significance
					delamanid	Uncertain significance
					isoniazid	Uncertain significance
katG	2154724	p.Arg463Leu	missense_variant	1.0	isoniazid	Not assoc w R
katG	2155503	c.609C>T	synonymous_variant	1.0	isoniazid	Not assoc w R
katG	2156025	c.87C>A	synonymous_variant	1.0	isoniazid	Not assoc w R
Rv1979c	2223293	c.-129A>G	upstream_gene_variant	1.0	clofazimine	Not assoc w R
Rv1979c	2223293	c.-129A>G	upstream_gene_variant	1.0	bedaquiline	Not assoc w R - Interim
eis	2715125	p.Thr70Ala	missense_variant	1.0	amikacin	Uncertain significance
eis	2715125	p.Thr70Ala	missense_variant	1.0	kanamycin	Uncertain significance
Rv2477c	2782927	c.1116A>G	synonymous_variant	1.0	ethambutol	Not assoc w R
					moxifloxacin	Not assoc w R - Interim
					streptomycin	Not assoc w R
					levofloxacin	Not assoc w R - Interim
					kanamycin	Not assoc w R - Interim
					rifampicin	Not assoc w R
					amikacin	Not assoc w R - Interim
Rv2681	2997325	p.Ala196Val	missense_variant	1.0	capreomycin	Uncertain significance
thyA	3073755	c.717C>T	synonymous_variant	1.0	para-aminosalicylic_acid
ald	3087084	c.266delA	frameshift_variant	1.0	cycloserine
Rv3083	3448783	p.Val94Ile	missense_variant	1.0	ethionamide	Uncertain significance
lpqB	3623372	c.1539G>C	synonymous_variant	1.0	bedaquiline	Not assoc w R - Interim
lpqB	3623372	c.1539G>C	synonymous_variant	1.0	rifampicin	Not assoc w R
lpqB	3623730	p.Ser394Leu	missense_variant	1.0	bedaquiline	Uncertain significance
lpqB	3623730	p.Ser394Leu	missense_variant	1.0	rifampicin	Not assoc w R
lpqB	3624350	c.561G>T	synonymous_variant	1.0	bedaquiline	Not assoc w R - Interim
lpqB	3624350	c.561G>T	synonymous_variant	1.0	rifampicin	Not assoc w R
lpqB	3624486	p.Asp142Gly	missense_variant	1.0	bedaquiline	Uncertain significance
lpqB	3624486	p.Asp142Gly	missense_variant	1.0	rifampicin	Not assoc w R
lpqB	3624593	c.318G>A	synonymous_variant	1.0	bedaquiline	Not assoc w R - Interim
lpqB	3624593	c.318G>A	synonymous_variant	1.0	rifampicin	Not assoc w R
lpqB	3624710	c.201G>A	synonymous_variant	1.0	bedaquiline	Not assoc w R - Interim
lpqB	3624710	c.201G>A	synonymous_variant	1.0	rifampicin	Not assoc w R
mtrB	3625065	p.Met517Leu	missense_variant	1.0	bedaquiline	Uncertain significance
mtrB	3625065	p.Met517Leu	missense_variant	1.0	rifampicin	Not assoc w R
clpC1	4038403	c.2302T>C	synonymous_variant	1.0	pyrazinamide	Not assoc w R - Interim
glpK	4138377	p.Val460Ala	missense_variant	1.0	ethambutol	Not assoc w R
					moxifloxacin	Not assoc w R
					streptomycin	Not assoc w R
					levofloxacin	Not assoc w R
					rifampicin	Not assoc w R
					isoniazid	Not assoc w R
glpK	4138977	p.Gly260Ala	missense_variant	1.0	ethambutol	Not assoc w R
					moxifloxacin	Uncertain significance
					streptomycin	Uncertain significance
					levofloxacin	Uncertain significance
					rifampicin	Not assoc w R
					isoniazid	Uncertain significance
embC	4240671	p.Thr270Ile	missense_variant	1.0	ethambutol	Not assoc w R
embC	4242643	c.2781C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
embC	4242680	p.Ala940Ser	missense_variant	1.0	ethambutol	Uncertain significance
embC	4242970	c.3108C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
embA	4244220	c.988C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
embB	4246551	p.Asn13Ser	missense_variant	1.0	ethambutol	Not assoc w R
embB	4246864	c.351C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
embB	4247646	p.Glu378Ala	missense_variant	1.0	ethambutol	Not assoc w R
aftB	4267858	p.Ile327Val	missense_variant	1.0	ethambutol	Not assoc w R
ubiA	4269387	p.Glu149Asp	missense_variant	1.0	ethambutol	Not assoc w R
ubiA	4269606	c.228T>C	synonymous_variant	1.0	ethambutol	Not assoc w R
ethR	4327530	c.-19C>T	upstream_gene_variant	1.0	ethionamide	Uncertain significance
whiB6	4338595	c.-75delG	upstream_gene_variant	1.0	capreomycin	Not assoc w R
					amikacin	Not assoc w R
					kanamycin	Not assoc w R
whiB6	4338732	c.-211C>T	upstream_gene_variant	1.0	capreomycin
					amikacin
					kanamycin
gid	4407588	c.615A>G	synonymous_variant	1.0	streptomycin	Not assoc w R

TB-Profiler result