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	1472733	n.888G>A	non_coding_transcript_exon_variant	0.61	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
rrs	1472127	n.282C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	1.0	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	1.0	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.58	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	0.42	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.92	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472181	n.336G>A	non_coding_transcript_exon_variant	0.72	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472214	n.369C>G	non_coding_transcript_exon_variant	0.38	kanamycin
					amikacin
					streptomycin	Uncertain significance
					capreomycin
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.47	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.82	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.48	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.38	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472251	n.406G>A	non_coding_transcript_exon_variant	0.64	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472544	n.699C>T	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.85	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472573	n.728C>T	non_coding_transcript_exon_variant	0.52	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472574	n.729T>A	non_coding_transcript_exon_variant	0.32	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472583	n.738T>C	non_coding_transcript_exon_variant	0.52	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472592	n.747C>T	non_coding_transcript_exon_variant	0.41	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472598	n.753A>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472599	n.754G>T	non_coding_transcript_exon_variant	0.92	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472612	n.767G>T	non_coding_transcript_exon_variant	0.48	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.6	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472715	n.870C>T	non_coding_transcript_exon_variant	0.71	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.76	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.41	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.3	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.79	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.78	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472793	n.948A>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Not assoc w R
rrs	1472803	n.958T>A	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473145	n.1300C>T	non_coding_transcript_exon_variant	0.5	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473148	n.1303G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473158	n.1313T>C	non_coding_transcript_exon_variant	0.65	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1473163	n.1318C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473172	n.1327T>C	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Not assoc w R
					capreomycin	Not assoc w R
rrs	1473173	n.1328C>T	non_coding_transcript_exon_variant	0.92	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Not assoc w R
					capreomycin	Not assoc w R
rrs	1473177	n.1332G>T	non_coding_transcript_exon_variant	1.0	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1473192	n.1347A>G	non_coding_transcript_exon_variant	0.98	kanamycin	Uncertain significance
					amikacin	Not assoc w R
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrs	1473193	n.1348G>C	non_coding_transcript_exon_variant	0.85	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1473204	n.1359C>G	non_coding_transcript_exon_variant	0.85	kanamycin
					amikacin
					streptomycin
					capreomycin
rrs	1473205	n.1360T>C	non_coding_transcript_exon_variant	0.98	kanamycin	Uncertain significance
					amikacin	Uncertain significance
					streptomycin	Uncertain significance
					capreomycin	Uncertain significance
rrl	1474812	n.1155G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474812	n.1155G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474825	n.1168G>A	non_coding_transcript_exon_variant	0.67	capreomycin
rrl	1474825	n.1168G>A	non_coding_transcript_exon_variant	0.67	linezolid
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474830	n.1173A>G	non_coding_transcript_exon_variant	0.3	capreomycin	Uncertain significance
rrl	1474830	n.1173A>G	non_coding_transcript_exon_variant	0.3	linezolid	Uncertain significance
rrl	1474831	n.1174A>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474831	n.1174A>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474866	n.1209C>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474866	n.1209C>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474869	n.1212G>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474869	n.1212G>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.94	linezolid	Uncertain significance
rrl	1474896	n.1239A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474896	n.1239A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475858	n.2201T>C	non_coding_transcript_exon_variant	0.64	capreomycin	Uncertain significance
rrl	1475858	n.2201T>C	non_coding_transcript_exon_variant	0.64	linezolid	Uncertain significance
rrl	1475866	n.2209T>A	non_coding_transcript_exon_variant	0.7	capreomycin	Uncertain significance
rrl	1475866	n.2209T>A	non_coding_transcript_exon_variant	0.7	linezolid	Uncertain significance
rrl	1476322	n.2665C>A	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1476322	n.2665C>A	non_coding_transcript_exon_variant	0.58	linezolid
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.41	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.41	linezolid	Uncertain significance
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.58	linezolid
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.69	capreomycin
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.69	linezolid
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476359	n.2702C>T	non_coding_transcript_exon_variant	0.74	capreomycin
rrl	1476359	n.2702C>T	non_coding_transcript_exon_variant	0.74	linezolid
rrl	1476368	n.2711T>C	non_coding_transcript_exon_variant	0.49	capreomycin	Uncertain significance
rrl	1476368	n.2711T>C	non_coding_transcript_exon_variant	0.49	linezolid
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.69	capreomycin
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.69	linezolid
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.98	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.33	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.5	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.5	linezolid
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.43	capreomycin	Uncertain significance
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.43	linezolid
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.31	capreomycin	Uncertain significance
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.31	linezolid	Uncertain significance
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.52	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.38	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.38	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.46	capreomycin
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.46	linezolid
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.45	capreomycin
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.45	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.47	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.47	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.37	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.37	linezolid	Uncertain significance
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	1.0	capreomycin	Not assoc w R
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.69	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.69	linezolid	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476536	n.2879G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476536	n.2879G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance

Drug	Resistance	Supporting mutations	WHO confidence	Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin	rrs	n.888G>A	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