TB-Profiler

TB-Profiler result

Run: SRR1173380

This average coverage of the target regions is below the recommended 30x. Some mutations may not be detected due to low coverage.

Summary

Run ID: SRR1173380

Sample name:

Date: 2024-10-04T16:46:39.457505

Number of reads: 1130167

Percentage reads mapped: 32.58

Median coverage: 22.0

Strain: lineage2.2;lineage3

Spoligotype:

Drug-resistance: Pre-XDR-TB

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs

Lineage	Family	RDs	Frequency
lineage3	East-African-Indian	RD750	0.73
lineage2	East-Asian	RD105	0.28
lineage2.2	East-Asian (Beijing)	RD105;RD207	0.28

Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes

Drug	Resistance	Supporting mutations	WHO confidence	Comment
rifampicin	rpoB	p.Ser450Leu	Assoc w R
isoniazid	katG	p.Ser315Thr	Assoc w R	High-level resistance
isoniazid	katG	p.Asn138His	Uncertain significance	Mutation from literature
ethambutol	embB	p.His1002Arg	Uncertain significance	Mutation from literature
pyrazinamide	pncA	p.Leu120Pro	Assoc w R
streptomycin
fluoroquinolones
moxifloxacin	gyrA	p.Asp94Ala	Assoc w R	Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
ofloxacin
levofloxacin	gyrA	p.Asp94Ala	Assoc w R
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin	eis	c.-10G>A	Assoc w R	Can only confer resistance if genetically linked to a functional Eis
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid

Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance

Gene	Chromosome position	Mutation	Type	Estimated fraction	Drugs	Confidence	Comment
gyrA	7582	p.Asp94Ala	missense_variant	0.73	levofloxacin	Assoc w R
gyrA	7582	p.Asp94Ala	missense_variant	0.73	moxifloxacin	Assoc w R	Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance)
rpoB	761155	p.Ser450Leu	missense_variant	1.0	rifampicin	Assoc w R
katG	2155168	p.Ser315Thr	missense_variant	0.36	isoniazid	Assoc w R	High-level resistance
katG	2155700	p.Asn138His	missense_variant	0.62	isoniazid	Uncertain significance	Mutation from literature
pncA	2288883	p.Leu120Pro	missense_variant	0.42	pyrazinamide	Assoc w R
eis	2715342	c.-10G>A	upstream_gene_variant	0.35	kanamycin	Assoc w R	Can only confer resistance if genetically linked to a functional Eis
embB	4249518	p.His1002Arg	missense_variant	0.79	ethambutol	Uncertain significance	Mutation from literature

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
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	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
fgd1	491742	c.960T>C	synonymous_variant	1.0	pretomanid
					delamanid	Not assoc w R - Interim
					clofazimine	Not assoc w R
ccsA	620625	p.Ile245Met	missense_variant	0.37	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
Rv0565c	657081	c.390G>A	synonymous_variant	1.0	ethionamide	Not assoc w R - Interim
Rv0565c	657142	p.Arg110His	missense_variant	0.3	ethionamide	Uncertain significance
rpoB	759746	c.-61C>T	upstream_gene_variant	0.6	rifampicin	Not assoc w R
rpoB	761292	p.Val496Met	missense_variant	0.83	rifampicin	Uncertain significance
rpoB	762434	c.2628T>G	synonymous_variant	0.82	rifampicin	Not assoc w R
rpoB	763031	c.3225T>C	synonymous_variant	1.0	rifampicin	Not assoc w R
mmpL5	775639	p.Ile948Val	missense_variant	1.0	bedaquiline	Not assoc w R - Interim
mmpL5	775639	p.Ile948Val	missense_variant	1.0	clofazimine	Not assoc w R
mmpL5	776100	p.Thr794Ile	missense_variant	1.0	bedaquiline	Not assoc w R - Interim
mmpL5	776100	p.Thr794Ile	missense_variant	1.0	clofazimine	Not assoc w R
mmpL5	776182	p.Asp767Asn	missense_variant	0.42	bedaquiline	Not assoc w R
mmpL5	776182	p.Asp767Asn	missense_variant	0.42	clofazimine	Not assoc w R
mmpS5	779615	c.-710C>G	upstream_gene_variant	0.38	bedaquiline
mmpS5	779615	c.-710C>G	upstream_gene_variant	0.38	clofazimine
rpsL	781395	c.-165T>C	upstream_gene_variant	1.0	streptomycin	Not assoc w R
Rv1129c	1254056	p.Asp160Ala	missense_variant	0.8	levofloxacin	Uncertain significance
					moxifloxacin	Uncertain significance
					isoniazid	Uncertain significance
					rifampicin	Uncertain significance
Rv1129c	1254562	c.-28T>C	upstream_gene_variant	0.95	levofloxacin	Not assoc w R
					moxifloxacin	Not assoc w R
					isoniazid	Not assoc w R
					rifampicin	Not assoc w R
sigE	1364706	c.294G>A	synonymous_variant	0.29	pyrazinamide	Not assoc w R - Interim
rrs	1471659	n.-187C>T	upstream_gene_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472147	n.302G>A	non_coding_transcript_exon_variant	0.31	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.4	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472153	n.308G>A	non_coding_transcript_exon_variant	0.42	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472164	n.319G>A	non_coding_transcript_exon_variant	0.58	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.63	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472177	n.332C>T	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>C	non_coding_transcript_exon_variant	0.63	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472242	n.397C>T	non_coding_transcript_exon_variant	0.58	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472251	n.406G>T	non_coding_transcript_exon_variant	0.65	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472252	n.407G>A	non_coding_transcript_exon_variant	0.58	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472253	n.408G>T	non_coding_transcript_exon_variant	0.58	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472256	n.411T>A	non_coding_transcript_exon_variant	0.56	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472259	n.414C>A	non_coding_transcript_exon_variant	0.61	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472541	n.696T>G	non_coding_transcript_exon_variant	0.29	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472545	n.700A>T	non_coding_transcript_exon_variant	0.42	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472553	n.708C>T	non_coding_transcript_exon_variant	0.47	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.6	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472572	n.727T>C	non_coding_transcript_exon_variant	0.5	kanamycin	Uncertain significance
					capreomycin
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472574	n.729T>C	non_coding_transcript_exon_variant	0.5	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.52	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472582	n.737G>A	non_coding_transcript_exon_variant	0.47	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472583	n.738T>A	non_coding_transcript_exon_variant	0.46	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472584	n.739A>G	non_coding_transcript_exon_variant	0.47	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472594	n.749G>C	non_coding_transcript_exon_variant	0.48	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472598	n.753A>T	non_coding_transcript_exon_variant	0.6	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.58	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.86	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472754	n.909G>T	non_coding_transcript_exon_variant	0.82	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472793	n.948A>T	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473139	n.1294T>C	non_coding_transcript_exon_variant	0.28	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473145	n.1300C>T	non_coding_transcript_exon_variant	0.44	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473148	n.1303G>A	non_coding_transcript_exon_variant	0.52	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473163	n.1318C>T	non_coding_transcript_exon_variant	0.67	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473177	n.1332G>A	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473191	n.1346C>T	non_coding_transcript_exon_variant	0.67	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473198	n.1354delC	non_coding_transcript_exon_variant	0.67	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473202	n.1357C>T	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin
					amikacin	Uncertain significance
rrs	1473206	n.1361G>A	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	0.42	capreomycin	Uncertain significance
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	0.42	linezolid	Uncertain significance
rrl	1475538	n.1881T>C	non_coding_transcript_exon_variant	0.4	capreomycin
rrl	1475538	n.1881T>C	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1475539	n.1882A>T	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1475539	n.1882A>T	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1475540	n.1883C>T	non_coding_transcript_exon_variant	0.4	capreomycin
rrl	1475540	n.1883C>T	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1475545	n.1888T>G	non_coding_transcript_exon_variant	0.39	capreomycin	Uncertain significance
rrl	1475545	n.1888T>G	non_coding_transcript_exon_variant	0.39	linezolid	Uncertain significance
rrl	1475550	n.1893A>C	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1475550	n.1893A>C	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1475551	n.1894T>G	non_coding_transcript_exon_variant	0.4	capreomycin
rrl	1475551	n.1894T>G	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1475555	n.1898T>G	non_coding_transcript_exon_variant	0.41	capreomycin
rrl	1475555	n.1898T>G	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1475564	n.1907C>A	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1475564	n.1907C>A	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1475574	n.1917C>G	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1475574	n.1917C>G	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1475575	n.1918C>T	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1475575	n.1918C>T	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1475576	n.1919C>G	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1475576	n.1919C>G	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.69	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.69	linezolid
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.7	capreomycin
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.7	linezolid
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.7	capreomycin
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.7	linezolid
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.7	capreomycin	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.7	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.12	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.12	linezolid	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.72	capreomycin	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.72	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.85	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.85	linezolid	Uncertain significance
rrl	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.83	capreomycin
rrl	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.83	linezolid
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.77	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.77	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.87	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.87	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.84	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.84	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.13	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.13	linezolid	Uncertain significance
rrl	1476442	n.2785T>A	non_coding_transcript_exon_variant	0.7	capreomycin
rrl	1476442	n.2785T>A	non_coding_transcript_exon_variant	0.7	linezolid
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.71	capreomycin
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.71	linezolid
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476456	n.2799A>T	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1476456	n.2799A>T	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.79	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.52	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.52	linezolid	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.33	linezolid
rrl	1476517	n.2860C>T	non_coding_transcript_exon_variant	0.19	capreomycin	Uncertain significance
rrl	1476517	n.2860C>T	non_coding_transcript_exon_variant	0.19	linezolid
rpsA	1834177	c.636A>C	synonymous_variant	0.42	pyrazinamide	Not assoc w R - Interim
tsnR	1854209	p.Leu202Phe	missense_variant	0.69	linezolid	Uncertain significance
tsnR	1854300	p.Leu232Pro	missense_variant	1.0	linezolid	Not assoc w R
tlyA	1917972	c.33A>G	synonymous_variant	1.0	capreomycin	Not assoc w R
katG	2154724	p.Arg463Leu	missense_variant	1.0	isoniazid	Not assoc w R
PPE35	2167926	p.Leu896Ser	missense_variant	1.0	pyrazinamide	Not assoc w R
Rv1979c	2223293	c.-129A>G	upstream_gene_variant	1.0	bedaquiline	Not assoc w R - Interim
Rv1979c	2223293	c.-129A>G	upstream_gene_variant	1.0	clofazimine	Not assoc w R
pncA	2289365	c.-125delC	upstream_gene_variant	0.75	pyrazinamide
ahpC	2726105	c.-88G>A	upstream_gene_variant	0.69	isoniazid	Not assoc w R
ahpC	2726117	c.-76T>A	upstream_gene_variant	0.61	isoniazid	Uncertain significance
Rv2477c	2782498	c.1545C>T	synonymous_variant	0.83	kanamycin	Not assoc w R
					levofloxacin	Not assoc w R
					moxifloxacin	Not assoc w R
					streptomycin	Not assoc w R - Interim
					rifampicin	Not assoc w R
					ethambutol	Not assoc w R
					amikacin	Not assoc w R
ald	3086788	c.-32T>C	upstream_gene_variant	1.0	cycloserine
mtrB	3625065	p.Met517Leu	missense_variant	1.0	rifampicin	Not assoc w R
mtrB	3625065	p.Met517Leu	missense_variant	1.0	bedaquiline	Uncertain significance
fbiB	3642877	p.Lys448Arg	missense_variant	0.78	pretomanid
					delamanid	Uncertain significance
					clofazimine	Uncertain significance
panD	4044872	c.-591C>T	upstream_gene_variant	0.71	pyrazinamide
glpK	4138622	c.1134C>T	synonymous_variant	0.85	levofloxacin	Not assoc w R
					moxifloxacin	Not assoc w R
					isoniazid	Not assoc w R
					streptomycin	Not assoc w R - Interim
					rifampicin	Not assoc w R
					ethambutol	Not assoc w R
glpK	4139246	c.510C>T	synonymous_variant	0.79	levofloxacin	Not assoc w R
					moxifloxacin	Not assoc w R - Interim
					isoniazid	Not assoc w R - Interim
					streptomycin	Not assoc w R - Interim
					rifampicin	Not assoc w R
					ethambutol	Not assoc w R
embC	4242075	p.Arg738Gln	missense_variant	0.77	ethambutol	Not assoc w R
embC	4242643	c.2781C>T	synonymous_variant	1.0	ethambutol	Not assoc w R
whiB6	4338563	c.-42G>T	upstream_gene_variant	0.32	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
whiB6	4338595	c.-75delG	upstream_gene_variant	1.0	kanamycin	Not assoc w R
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
whiB6	4338732	c.-211C>T	upstream_gene_variant	1.0	kanamycin
					capreomycin
					amikacin
gid	4407588	c.615A>G	synonymous_variant	1.0	streptomycin	Not assoc w R
gid	4407927	p.Glu92Asp	missense_variant	0.38	streptomycin	Not assoc w R