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	0.84	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	1472106	n.261G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472113	n.268T>C	non_coding_transcript_exon_variant	0.59	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472127	n.282C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.97	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.85	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.53	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	0.47	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.68	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.96	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.92	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472181	n.336G>A	non_coding_transcript_exon_variant	0.64	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472210	n.365A>C	non_coding_transcript_exon_variant	0.27	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472213	n.368G>C	non_coding_transcript_exon_variant	0.29	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.63	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.89	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.61	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472236	n.391C>G	non_coding_transcript_exon_variant	0.29	kanamycin
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472338	n.493A>C	non_coding_transcript_exon_variant	0.77	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472379	n.534T>G	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.87	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472405	n.560C>T	non_coding_transcript_exon_variant	0.8	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472518	n.673G>A	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472530	n.685G>A	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472544	n.699C>T	non_coding_transcript_exon_variant	0.59	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.74	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.98	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472573	n.728C>T	non_coding_transcript_exon_variant	0.79	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472574	n.729T>G	non_coding_transcript_exon_variant	0.56	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.96	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472592	n.747C>T	non_coding_transcript_exon_variant	0.53	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472598	n.753A>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472599	n.754G>T	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.65	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.44	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472655	n.810G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472658	n.813G>A	non_coding_transcript_exon_variant	0.68	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472659	n.814G>T	non_coding_transcript_exon_variant	0.92	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472715	n.870C>T	non_coding_transcript_exon_variant	0.46	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.6	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472741	n.896G>A	non_coding_transcript_exon_variant	0.37	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.9	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.96	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.56	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.98	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	0.98	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472803	n.958T>A	non_coding_transcript_exon_variant	0.93	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472827	n.982G>T	non_coding_transcript_exon_variant	0.5	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472828	n.983T>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472895	n.1050C>T	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473000	n.1155G>C	non_coding_transcript_exon_variant	0.55	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473004	n.1159T>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473005	n.1160C>T	non_coding_transcript_exon_variant	0.55	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473010	n.1165C>G	non_coding_transcript_exon_variant	0.32	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473020	n.1175T>C	non_coding_transcript_exon_variant	0.37	kanamycin
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.6	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473053	n.1208T>A	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473062	n.1217T>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473068	n.1223A>G	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473080	n.1235C>A	non_coding_transcript_exon_variant	0.38	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.68	capreomycin
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.68	linezolid
rrl	1474200	n.545delT	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474200	n.545delT	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.67	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.67	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.64	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.64	linezolid
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1474228	n.571T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474228	n.571T>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.47	capreomycin	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.47	linezolid	Uncertain significance
rrl	1474557	n.900G>C	non_coding_transcript_exon_variant	0.38	capreomycin
rrl	1474557	n.900G>C	non_coding_transcript_exon_variant	0.38	linezolid
rrl	1474558	n.901G>A	non_coding_transcript_exon_variant	0.41	capreomycin	Uncertain significance
rrl	1474558	n.901G>A	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.46	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1474565	n.908T>A	non_coding_transcript_exon_variant	0.34	capreomycin	Uncertain significance
rrl	1474565	n.908T>A	non_coding_transcript_exon_variant	0.34	linezolid
rrl	1474570	n.913G>T	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1474570	n.913G>T	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1474571	n.914G>T	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1474571	n.914G>T	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1474578	n.921A>G	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1474578	n.921A>G	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.56	capreomycin
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.56	linezolid
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.53	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.53	linezolid
rrl	1474777	n.1120T>C	non_coding_transcript_exon_variant	0.62	capreomycin	Not assoc w R
rrl	1474777	n.1120T>C	non_coding_transcript_exon_variant	0.62	linezolid	Uncertain significance
rrl	1474798	n.1141C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474798	n.1141C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474804	n.1147C>T	non_coding_transcript_exon_variant	0.62	capreomycin	Uncertain significance
rrl	1474804	n.1147C>T	non_coding_transcript_exon_variant	0.62	linezolid	Uncertain significance
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	0.94	linezolid	Uncertain significance
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1474830	n.1173A>G	non_coding_transcript_exon_variant	0.59	capreomycin	Uncertain significance
rrl	1474830	n.1173A>G	non_coding_transcript_exon_variant	0.59	linezolid	Uncertain significance
rrl	1474831	n.1174A>T	non_coding_transcript_exon_variant	0.65	capreomycin	Uncertain significance
rrl	1474831	n.1174A>T	non_coding_transcript_exon_variant	0.65	linezolid	Uncertain significance
rrl	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1474852	n.1195T>C	non_coding_transcript_exon_variant	0.3	capreomycin
rrl	1474852	n.1195T>C	non_coding_transcript_exon_variant	0.3	linezolid
rrl	1474866	n.1209_1212delCTTGinsATTT	non_coding_transcript_exon_variant	0.95	capreomycin
rrl	1474866	n.1209_1212delCTTGinsATTT	non_coding_transcript_exon_variant	0.95	linezolid
rrl	1474896	n.1239A>G	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1474896	n.1239A>G	non_coding_transcript_exon_variant	0.94	linezolid	Uncertain significance
rrl	1475129	n.1472G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475129	n.1472G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.53	capreomycin	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.53	linezolid	Uncertain significance
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	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	0.78	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.78	linezolid	Uncertain significance
rrl	1476382	n.2725_2726delATinsGA	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1476382	n.2725_2726delATinsGA	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.57	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.57	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.71	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.71	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.37	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.37	linezolid	Uncertain significance
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.46	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.46	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

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