TB-Profiler

TB-Profiler result

Run: SRR5818459

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: SRR5818459

Sample name:

Date: 2024-03-24T17:25:32.208480

Number of reads: 330454

Percentage reads mapped: 88.73

Median coverage: 0.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Other

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

Lineage	Family	RDs	Frequency
lineage4	Euro-American	None	1.0
lineage4.9	Euro-American (H37Rv-like)	None	1.0

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

Drug	Resistance	Supporting mutations	WHO confidence	Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin	rrs	n.799C>T	Uncertain significance	Mutation from literature
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine	mmpR5	p.Ala36Val	Assoc w R - Interim	Can only confer resistance if genetically linked to a functional MmpL5
clofazimine	mmpR5	c.442_444delAACinsCA	Assoc w R	Can only confer resistance if genetically linked to a functional MmpL5
para-aminosalicylic_acid
delamanid
bedaquiline	mmpR5	p.Ala36Val	Assoc w R - Interim	Includes data from one site that only submitted resistant strains, which may have inflated the PPV. Can only confer resistance if genetically linked to a functional MmpL5
bedaquiline	mmpR5	c.442_444delAACinsCA	Assoc w R	Can only confer resistance if genetically linked to a functional MmpL5
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
mmpR5	779096	p.Ala36Val	missense_variant	0.22	clofazimine	Assoc w R - Interim	Can only confer resistance if genetically linked to a functional MmpL5
mmpR5	779096	p.Ala36Val	missense_variant	0.22	bedaquiline	Assoc w R - Interim	Includes data from one site that only submitted resistant strains, which may have inflated the PPV. Can only confer resistance if genetically linked to a functional MmpL5
mmpR5	779431	c.442_444delAACinsCA	frameshift_variant&missense_variant	0.34	clofazimine	Assoc w R	Can only confer resistance if genetically linked to a functional MmpL5
mmpR5	779431	c.442_444delAACinsCA	frameshift_variant&missense_variant	0.34	bedaquiline	Assoc w R	Can only confer resistance if genetically linked to a functional MmpL5
rrs	1472644	n.799C>T	non_coding_transcript_exon_variant	0.69	streptomycin	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
gyrB	6454	c.1215C>T	synonymous_variant	0.76	levofloxacin	Not assoc w R - Interim
gyrB	6454	c.1215C>T	synonymous_variant	0.76	moxifloxacin	Not assoc w R - Interim
gyrB	6721	c.1482C>T	synonymous_variant	0.74	levofloxacin	Not assoc w R - Interim
gyrB	6721	c.1482C>T	synonymous_variant	0.74	moxifloxacin	Not assoc w R - Interim
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
rpoB	760461	p.Arg219Cys	missense_variant	0.24	rifampicin	Uncertain significance
mmpL5	779283	c.-803G>A	upstream_gene_variant	0.4	clofazimine
mmpL5	779283	c.-803G>A	upstream_gene_variant	0.4	bedaquiline
mmpL5	779295	c.-815A>G	upstream_gene_variant	0.41	clofazimine
mmpL5	779295	c.-815A>G	upstream_gene_variant	0.41	bedaquiline
mmpL5	779472	c.-992G>A	upstream_gene_variant	0.32	clofazimine
mmpL5	779472	c.-992G>A	upstream_gene_variant	0.32	bedaquiline
mmpS5	779523	c.-618T>A	upstream_gene_variant	0.35	clofazimine
mmpS5	779523	c.-618T>A	upstream_gene_variant	0.35	bedaquiline
mmpS5	779538	c.-633A>C	upstream_gene_variant	0.38	clofazimine
mmpS5	779538	c.-633A>C	upstream_gene_variant	0.38	bedaquiline
mmpS5	779539	c.-634C>A	upstream_gene_variant	0.38	clofazimine
mmpS5	779539	c.-634C>A	upstream_gene_variant	0.38	bedaquiline
rplC	801267	c.459A>G	synonymous_variant	0.51	linezolid	Not assoc w R - Interim
rrs	1472119	n.274G>A	non_coding_transcript_exon_variant	0.87	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.96	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.98	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472251	n.406G>A	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472282	n.437T>G	non_coding_transcript_exon_variant	0.19	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472285	n.440A>G	non_coding_transcript_exon_variant	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472286	n.441C>A	non_coding_transcript_exon_variant	0.87	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472289	n.444T>G	non_coding_transcript_exon_variant	0.93	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472290	n.445C>G	non_coding_transcript_exon_variant	0.93	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472297	n.453_461delGTCCGGGTT	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472309	n.464C>T	non_coding_transcript_exon_variant	0.91	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472311	n.466C>T	non_coding_transcript_exon_variant	0.88	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472312	n.468_470delGAT	non_coding_transcript_exon_variant	0.89	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472324	n.479G>C	non_coding_transcript_exon_variant	0.89	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472325	n.480G>C	non_coding_transcript_exon_variant	0.89	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472328	n.483G>C	non_coding_transcript_exon_variant	0.25	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472328	n.483G>T	non_coding_transcript_exon_variant	0.62	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472330	n.485G>T	non_coding_transcript_exon_variant	0.62	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472338	n.493A>G	non_coding_transcript_exon_variant	0.24	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472379	n.534T>C	non_coding_transcript_exon_variant	0.53	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472400	n.555C>T	non_coding_transcript_exon_variant	0.51	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472416	n.571C>T	non_coding_transcript_exon_variant	0.39	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472422	n.577T>C	non_coding_transcript_exon_variant	0.3	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
rrs	1472435	n.590T>C	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472438	n.593T>C	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472439	n.594C>T	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472447	n.602C>T	non_coding_transcript_exon_variant	0.93	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472448	n.603T>C	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472450	n.605A>G	non_coding_transcript_exon_variant	0.96	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472451	n.606C>G	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472461	n.616G>C	non_coding_transcript_exon_variant	0.93	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472462	n.617T>C	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472464	n.619A>G	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472471	n.626G>A	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472476	n.631A>G	non_coding_transcript_exon_variant	0.18	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472485	n.640delGinsTA	non_coding_transcript_exon_variant	0.6	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472489	n.644A>T	non_coding_transcript_exon_variant	0.53	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472494	n.649A>G	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472496	n.651T>A	non_coding_transcript_exon_variant	0.45	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472498	n.653C>T	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472569	n.724G>A	non_coding_transcript_exon_variant	0.65	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.84	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472597	n.752G>A	non_coding_transcript_exon_variant	0.72	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472607	n.762G>A	non_coding_transcript_exon_variant	0.71	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472655	n.810G>T	non_coding_transcript_exon_variant	0.8	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472660	n.815T>C	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472692	n.847T>C	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472714	n.869A>G	non_coding_transcript_exon_variant	0.72	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472755	n.910G>A	non_coding_transcript_exon_variant	0.42	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475937	n.2280A>T	non_coding_transcript_exon_variant	0.43	capreomycin	Uncertain significance
rrl	1475937	n.2280A>T	non_coding_transcript_exon_variant	0.43	linezolid	Uncertain significance
rrl	1475943	n.2286G>A	non_coding_transcript_exon_variant	0.77	capreomycin	Uncertain significance
rrl	1475943	n.2286G>A	non_coding_transcript_exon_variant	0.77	linezolid	Uncertain significance
rrl	1475945	n.2288C>A	non_coding_transcript_exon_variant	0.47	capreomycin
rrl	1475945	n.2288C>A	non_coding_transcript_exon_variant	0.47	linezolid
rrl	1475952	n.2295A>G	non_coding_transcript_exon_variant	0.76	capreomycin	Uncertain significance
rrl	1475952	n.2295A>G	non_coding_transcript_exon_variant	0.76	linezolid	Uncertain significance
rrl	1475963	n.2306G>T	non_coding_transcript_exon_variant	0.31	capreomycin
rrl	1475963	n.2306G>T	non_coding_transcript_exon_variant	0.31	linezolid
rrl	1475970	n.2313C>T	non_coding_transcript_exon_variant	0.72	capreomycin	Uncertain significance
rrl	1475970	n.2313C>T	non_coding_transcript_exon_variant	0.72	linezolid	Uncertain significance
rrl	1475975	n.2318C>T	non_coding_transcript_exon_variant	0.58	capreomycin	Uncertain significance
rrl	1475975	n.2318C>T	non_coding_transcript_exon_variant	0.58	linezolid	Uncertain significance
rrl	1475977	n.2320A>G	non_coding_transcript_exon_variant	0.56	capreomycin	Uncertain significance
rrl	1475977	n.2320A>G	non_coding_transcript_exon_variant	0.56	linezolid	Uncertain significance
rrl	1475978	n.2321C>T	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1475978	n.2321C>T	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.68	capreomycin	Not assoc w R
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.68	linezolid	Uncertain significance
rrl	1475993	n.2336C>T	non_coding_transcript_exon_variant	0.3	capreomycin	Uncertain significance
rrl	1475993	n.2336C>T	non_coding_transcript_exon_variant	0.3	linezolid	Uncertain significance
rrl	1475995	n.2338G>T	non_coding_transcript_exon_variant	0.21	capreomycin
rrl	1475995	n.2338G>T	non_coding_transcript_exon_variant	0.21	linezolid
rrl	1475997	n.2340A>T	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1475997	n.2340A>T	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1475998	n.2341C>T	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1475998	n.2341C>T	non_coding_transcript_exon_variant	0.58	linezolid	Uncertain significance
rrl	1476001	n.2344T>C	non_coding_transcript_exon_variant	0.55	capreomycin	Uncertain significance
rrl	1476001	n.2344T>C	non_coding_transcript_exon_variant	0.55	linezolid	Uncertain significance
rrl	1476040	n.2383C>T	non_coding_transcript_exon_variant	0.29	capreomycin
rrl	1476040	n.2383C>T	non_coding_transcript_exon_variant	0.29	linezolid
rrl	1476045	n.2388G>T	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476045	n.2388G>T	non_coding_transcript_exon_variant	0.33	linezolid
rrl	1476047	n.2390G>T	non_coding_transcript_exon_variant	0.31	capreomycin
rrl	1476047	n.2390G>T	non_coding_transcript_exon_variant	0.31	linezolid
rrl	1476049	n.2392C>T	non_coding_transcript_exon_variant	0.35	capreomycin	Uncertain significance
rrl	1476049	n.2392C>T	non_coding_transcript_exon_variant	0.35	linezolid	Uncertain significance
rrl	1476110	n.2453G>C	non_coding_transcript_exon_variant	0.39	capreomycin	Uncertain significance
rrl	1476110	n.2453G>C	non_coding_transcript_exon_variant	0.39	linezolid
rrl	1476113	n.2456T>G	non_coding_transcript_exon_variant	0.49	capreomycin
rrl	1476113	n.2456T>G	non_coding_transcript_exon_variant	0.49	linezolid
rrl	1476131	n.2474C>T	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1476131	n.2474C>T	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1476164	n.2507A>G	non_coding_transcript_exon_variant	0.22	capreomycin	Uncertain significance
rrl	1476164	n.2507A>G	non_coding_transcript_exon_variant	0.22	linezolid	Uncertain significance
rrl	1476164	n.2507A>T	non_coding_transcript_exon_variant	0.64	capreomycin
rrl	1476164	n.2507A>T	non_coding_transcript_exon_variant	0.64	linezolid
rrl	1476179	n.2522C>T	non_coding_transcript_exon_variant	0.76	capreomycin
rrl	1476179	n.2522C>T	non_coding_transcript_exon_variant	0.76	linezolid
rrl	1476194	n.2537A>G	non_coding_transcript_exon_variant	0.22	capreomycin	Not assoc w R
rrl	1476194	n.2537A>G	non_coding_transcript_exon_variant	0.22	linezolid	Uncertain significance
rrl	1476194	n.2537A>T	non_coding_transcript_exon_variant	0.62	capreomycin
rrl	1476194	n.2537A>T	non_coding_transcript_exon_variant	0.62	linezolid
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.83	capreomycin	Not assoc w R
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.83	linezolid	Uncertain significance
rrl	1476204	n.2547C>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476204	n.2547C>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476207	n.2550T>C	non_coding_transcript_exon_variant	0.59	capreomycin
rrl	1476207	n.2550T>C	non_coding_transcript_exon_variant	0.59	linezolid
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.74	capreomycin	Uncertain significance
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.74	linezolid	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.87	capreomycin	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.87	linezolid	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1476235	n.2578A>G	non_coding_transcript_exon_variant	0.45	capreomycin
rrl	1476235	n.2578A>G	non_coding_transcript_exon_variant	0.45	linezolid
rrl	1476245	n.2588C>T	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476245	n.2588C>T	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.82	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.59	capreomycin
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.59	linezolid
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.43	capreomycin
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.43	linezolid
rrl	1476279	n.2622G>A	non_coding_transcript_exon_variant	0.41	capreomycin	Uncertain significance
rrl	1476279	n.2622G>A	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.7	capreomycin	Uncertain significance
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.7	linezolid	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.36	capreomycin	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.36	linezolid	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1476301	n.2644A>T	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1476301	n.2644A>T	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1476337	n.2680C>T	non_coding_transcript_exon_variant	0.31	capreomycin	Uncertain significance
rrl	1476337	n.2680C>T	non_coding_transcript_exon_variant	0.31	linezolid	Uncertain significance
rrl	1476507	n.2850C>T	non_coding_transcript_exon_variant	0.27	capreomycin
rrl	1476507	n.2850C>T	non_coding_transcript_exon_variant	0.27	linezolid
inhA	1674816	c.615T>C	synonymous_variant	0.88	ethionamide	Not assoc w R - Interim
inhA	1674816	c.615T>C	synonymous_variant	0.88	isoniazid	Not assoc w R - Interim
tlyA	1917812	c.-128G>A	upstream_gene_variant	0.65	capreomycin
tlyA	1917972	c.33A>G	synonymous_variant	1.0	capreomycin	Not assoc w R
tlyA	1918200	c.261G>A	synonymous_variant	0.39	capreomycin	Not assoc w R - Interim
pncA	2289047	c.195C>T	synonymous_variant	0.28	pyrazinamide	Not assoc w R
pncA	2289104	c.138A>G	synonymous_variant	0.71	pyrazinamide	Not assoc w R - Interim
embB	4247590	c.1077A>G	synonymous_variant	0.98	ethambutol	Not assoc w R - Interim
embB	4247646	p.Glu378Ala	missense_variant	0.98	ethambutol	Not assoc w R
embB	4247815	c.1302C>T	synonymous_variant	0.98	ethambutol	Not assoc w R - Interim
ethA	4326463	c.1011C>T	synonymous_variant	0.99	ethionamide	Not assoc w R - Interim
ethA	4326740	p.Arg245His	missense_variant	0.92	ethionamide	Uncertain significance
ethA	4326764	p.Ala237Val	missense_variant	0.98	ethionamide
ethA	4326779	p.Thr232Ile	missense_variant	0.99	ethionamide
ethA	4327392	p.Pro28Ser	missense_variant	1.0	ethionamide
gid	4407588	c.615A>G	synonymous_variant	0.99	streptomycin	Not assoc w R
gid	4407886	p.Thr106Ile	missense_variant	0.32	streptomycin
gid	4408185	c.18C>T	synonymous_variant	0.96	streptomycin	Not assoc w R - Interim