TB-Profiler

Lineage	Family	RDs	Frequency
La1.7	M.bovis	None	1.0
La1.7.1	M.bovis	None	1.0
La1	M.bovis	None	0.96

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
gyrB	6406	c.1167C>T	synonymous_variant	0.83	levofloxacin	Not assoc w R - Interim
gyrB	6406	c.1167C>T	synonymous_variant	0.83	moxifloxacin	Not assoc w R - Interim
gyrB	6446	p.Ala403Ser	missense_variant	0.91	levofloxacin	Not assoc w R
gyrB	6446	p.Ala403Ser	missense_variant	0.91	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	8285	c.984C>T	synonymous_variant	1.0	levofloxacin	Not assoc w R - Interim
gyrA	8285	c.984C>T	synonymous_variant	1.0	moxifloxacin	Not assoc w R - Interim
gyrA	9143	c.1842T>C	synonymous_variant	1.0	levofloxacin	Not assoc w R
gyrA	9143	c.1842T>C	synonymous_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
rpoB	760721	c.915C>G	synonymous_variant	0.55	rifampicin
rplC	800771	c.-38C>T	upstream_gene_variant	0.3	linezolid
fbiC	1302899	c.-32A>G	upstream_gene_variant	1.0	clofazimine	Uncertain significance
					pretomanid
					delamanid	Uncertain significance
embR	1417554	c.-207C>G	upstream_gene_variant	1.0	ethambutol
rrs	1471607	n.-239G>A	upstream_gene_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1471659	n.-187C>T	upstream_gene_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrl	1473756	n.99G>A	non_coding_transcript_exon_variant	0.52	capreomycin
rrl	1473756	n.99G>A	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1473758	n.101G>T	non_coding_transcript_exon_variant	0.52	capreomycin	Uncertain significance
rrl	1473758	n.101G>T	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1474001	n.344C>T	non_coding_transcript_exon_variant	0.57	capreomycin	Not assoc w R
rrl	1474001	n.344C>T	non_coding_transcript_exon_variant	0.57	linezolid	Not assoc w R
rrl	1475483	n.1826C>T	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1475483	n.1826C>T	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1475505	n.1848G>A	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1475505	n.1848G>A	non_coding_transcript_exon_variant	0.33	linezolid
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	0.39	capreomycin	Uncertain significance
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	0.39	linezolid	Uncertain significance
rrl	1475599	n.1942A>G	non_coding_transcript_exon_variant	0.5	capreomycin
rrl	1475599	n.1942A>G	non_coding_transcript_exon_variant	0.5	linezolid	Uncertain significance
rrl	1475881	n.2224T>C	non_coding_transcript_exon_variant	0.53	capreomycin
rrl	1475881	n.2224T>C	non_coding_transcript_exon_variant	0.53	linezolid
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.39	capreomycin	Not assoc w R
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.39	linezolid	Uncertain significance
rpsA	1833667	c.126C>G	synonymous_variant	0.24	pyrazinamide
ndh	2103173	c.-132delG	upstream_gene_variant	1.0	ethionamide
					delamanid
					isoniazid
PPE35	2167926	p.Leu896Ser	missense_variant	1.0	pyrazinamide	Not assoc w R
PPE35	2168011	p.Ser868Arg	missense_variant	0.92	pyrazinamide	Uncertain significance
PPE35	2168814	c.1798dupA	frameshift_variant	1.0	pyrazinamide	Uncertain significance
Rv1979c	2222308	p.Asp286Gly	missense_variant	1.0	clofazimine	Not assoc w R
Rv1979c	2222308	p.Asp286Gly	missense_variant	1.0	bedaquiline	Not assoc w R - Interim
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
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
ald	3086728	c.-92C>T	upstream_gene_variant	1.0	cycloserine
ald	3086788	c.-32T>C	upstream_gene_variant	1.0	cycloserine
Rv3083	3448783	p.Val94Ile	missense_variant	1.0	ethionamide	Uncertain significance
lpqB	3624486	p.Asp142Gly	missense_variant	1.0	bedaquiline	Uncertain significance
lpqB	3624486	p.Asp142Gly	missense_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
fbiB	3642478	p.Asp315Ala	missense_variant	1.0	clofazimine	Uncertain significance
					pretomanid
					delamanid	Uncertain significance
embC	4242970	c.3108C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
embB	4247646	p.Glu378Ala	missense_variant	1.0	ethambutol	Not assoc w R
embB	4248073	c.1560C>T	synonymous_variant	0.92	ethambutol	Not assoc w R - Interim
ubiA	4269351	c.483C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
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

TB-Profiler result