TB-Profiler

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

Gene	Chromosome position	Mutation	Type	Estimated fraction	Drugs	Confidence	Comment
rrs	1472644	n.799C>T	non_coding_transcript_exon_variant	0.47	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
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
rrs	1472119	n.274G>A	non_coding_transcript_exon_variant	0.78	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>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	1472172	n.327T>C	non_coding_transcript_exon_variant	0.99	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	0.44	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472284	n.439C>T	non_coding_transcript_exon_variant	0.25	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472285	n.440A>G	non_coding_transcript_exon_variant	0.4	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472286	n.441C>G	non_coding_transcript_exon_variant	0.54	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472289	n.444T>G	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472290	n.445C>G	non_coding_transcript_exon_variant	0.72	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472293	n.448C>A	non_coding_transcript_exon_variant	0.42	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472297	n.453_461delGTCCGGGTT	non_coding_transcript_exon_variant	0.61	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472309	n.464C>T	non_coding_transcript_exon_variant	0.59	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472311	n.466C>T	non_coding_transcript_exon_variant	0.56	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472312	n.468_470delGAT	non_coding_transcript_exon_variant	0.58	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472324	n.479G>C	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472325	n.480G>C	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472328	n.483G>C	non_coding_transcript_exon_variant	0.64	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472330	n.485G>T	non_coding_transcript_exon_variant	0.26	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472338	n.493A>G	non_coding_transcript_exon_variant	0.62	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	0.91	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	0.88	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472400	n.555C>T	non_coding_transcript_exon_variant	0.82	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	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472422	n.577T>C	non_coding_transcript_exon_variant	0.68	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
rrs	1472435	n.590T>C	non_coding_transcript_exon_variant	0.84	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472438	n.593T>C	non_coding_transcript_exon_variant	0.84	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472439	n.594C>T	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472447	n.602C>T	non_coding_transcript_exon_variant	0.8	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472448	n.603T>C	non_coding_transcript_exon_variant	0.87	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472450	n.605A>G	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472451	n.606C>G	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472461	n.616G>C	non_coding_transcript_exon_variant	0.81	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472462	n.617T>C	non_coding_transcript_exon_variant	0.87	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472464	n.619A>G	non_coding_transcript_exon_variant	0.9	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472471	n.626G>A	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472476	n.631A>G	non_coding_transcript_exon_variant	0.4	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472489	n.644A>T	non_coding_transcript_exon_variant	0.19	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	0.8	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	0.29	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>C	non_coding_transcript_exon_variant	0.42	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472584	n.739A>T	non_coding_transcript_exon_variant	0.25	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472597	n.752G>A	non_coding_transcript_exon_variant	0.38	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472607	n.762G>A	non_coding_transcript_exon_variant	0.41	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472655	n.810G>T	non_coding_transcript_exon_variant	0.64	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472660	n.815T>C	non_coding_transcript_exon_variant	0.61	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472692	n.847T>C	non_coding_transcript_exon_variant	0.55	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472714	n.869A>G	non_coding_transcript_exon_variant	0.54	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472755	n.910G>A	non_coding_transcript_exon_variant	0.2	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473368	n.1523G>A	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475937	n.2280A>T	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1475937	n.2280A>T	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1475943	n.2286G>A	non_coding_transcript_exon_variant	0.65	capreomycin	Uncertain significance
rrl	1475943	n.2286G>A	non_coding_transcript_exon_variant	0.65	linezolid	Uncertain significance
rrl	1475945	n.2288C>A	non_coding_transcript_exon_variant	0.57	capreomycin
rrl	1475945	n.2288C>A	non_coding_transcript_exon_variant	0.57	linezolid
rrl	1475952	n.2295A>G	non_coding_transcript_exon_variant	0.6	capreomycin	Uncertain significance
rrl	1475952	n.2295A>G	non_coding_transcript_exon_variant	0.6	linezolid	Uncertain significance
rrl	1475970	n.2313C>T	non_coding_transcript_exon_variant	0.46	capreomycin	Uncertain significance
rrl	1475970	n.2313C>T	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1475975	n.2318C>T	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1475975	n.2318C>T	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1475977	n.2320A>G	non_coding_transcript_exon_variant	0.25	capreomycin	Uncertain significance
rrl	1475977	n.2320A>G	non_coding_transcript_exon_variant	0.25	linezolid	Uncertain significance
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.3	capreomycin	Not assoc w R
rrl	1475988	n.2331A>G	non_coding_transcript_exon_variant	0.3	linezolid	Uncertain significance
rrl	1475995	n.2338G>C	non_coding_transcript_exon_variant	0.19	capreomycin
rrl	1475995	n.2338G>C	non_coding_transcript_exon_variant	0.19	linezolid
rrl	1475997	n.2340A>G	non_coding_transcript_exon_variant	0.17	capreomycin
rrl	1475997	n.2340A>G	non_coding_transcript_exon_variant	0.17	linezolid
rrl	1475998	n.2341C>T	non_coding_transcript_exon_variant	0.26	capreomycin
rrl	1475998	n.2341C>T	non_coding_transcript_exon_variant	0.26	linezolid	Uncertain significance
rrl	1476001	n.2344T>C	non_coding_transcript_exon_variant	0.25	capreomycin	Uncertain significance
rrl	1476001	n.2344T>C	non_coding_transcript_exon_variant	0.25	linezolid	Uncertain significance
rrl	1476113	n.2456T>G	non_coding_transcript_exon_variant	0.16	capreomycin
rrl	1476113	n.2456T>G	non_coding_transcript_exon_variant	0.16	linezolid
rrl	1476131	n.2474C>T	non_coding_transcript_exon_variant	0.43	capreomycin	Uncertain significance
rrl	1476131	n.2474C>T	non_coding_transcript_exon_variant	0.43	linezolid	Uncertain significance
rrl	1476164	n.2507A>T	non_coding_transcript_exon_variant	0.55	capreomycin
rrl	1476164	n.2507A>T	non_coding_transcript_exon_variant	0.55	linezolid
rrl	1476179	n.2522C>T	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1476179	n.2522C>T	non_coding_transcript_exon_variant	0.58	linezolid
rrl	1476194	n.2537A>T	non_coding_transcript_exon_variant	0.52	capreomycin
rrl	1476194	n.2537A>T	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.59	capreomycin	Not assoc w R
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.59	linezolid	Uncertain significance
rrl	1476204	n.2547C>T	non_coding_transcript_exon_variant	0.55	capreomycin
rrl	1476204	n.2547C>T	non_coding_transcript_exon_variant	0.55	linezolid
rrl	1476207	n.2550T>C	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1476207	n.2550T>C	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.47	capreomycin	Uncertain significance
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.47	linezolid	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.59	capreomycin	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.59	linezolid	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.58	capreomycin	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.58	linezolid	Uncertain significance
rrl	1476235	n.2578A>G	non_coding_transcript_exon_variant	0.41	capreomycin
rrl	1476235	n.2578A>G	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.57	capreomycin	Uncertain significance
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.57	linezolid	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.56	capreomycin	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.56	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.55	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.55	linezolid	Uncertain significance
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.45	capreomycin
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.45	linezolid
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.3	capreomycin
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.3	linezolid
rrl	1476279	n.2622G>A	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476279	n.2622G>A	non_coding_transcript_exon_variant	0.27	linezolid
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.36	capreomycin	Uncertain significance
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.36	linezolid	Uncertain significance
inhA	1674712	p.Val171Ile	missense_variant	0.2	ethionamide	Uncertain significance
inhA	1674712	p.Val171Ile	missense_variant	0.2	isoniazid	Uncertain significance
tlyA	1917972	c.33A>G	synonymous_variant	1.0	capreomycin	Not assoc w R
pncA	2289224	c.18C>T	synonymous_variant	0.23	pyrazinamide

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
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid

TB-Profiler result