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	0.56	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	0.54	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472122	n.277G>T	non_coding_transcript_exon_variant	0.4	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472123	n.278A>T	non_coding_transcript_exon_variant	0.53	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472124	n.279C>T	non_coding_transcript_exon_variant	0.4	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin
					amikacin	Uncertain significance
rrs	1472127	n.282C>T	non_coding_transcript_exon_variant	0.44	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.44	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.44	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472135	n.290C>G	non_coding_transcript_exon_variant	0.39	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472138	n.293C>T	non_coding_transcript_exon_variant	0.39	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472147	n.302G>A	non_coding_transcript_exon_variant	0.35	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472151	n.306C>T	non_coding_transcript_exon_variant	0.39	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472153	n.308G>C	non_coding_transcript_exon_variant	0.35	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472155	n.310C>T	non_coding_transcript_exon_variant	0.55	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.52	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472549	n.704G>A	non_coding_transcript_exon_variant	0.35	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472566	n.721G>A	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472579	n.734G>C	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472580	n.735C>T	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>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	1472598	n.753A>C	non_coding_transcript_exon_variant	0.64	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472599	n.754G>T	non_coding_transcript_exon_variant	0.61	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.64	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.4	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472660	n.815T>C	non_coding_transcript_exon_variant	0.67	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472707	n.862A>T	non_coding_transcript_exon_variant	0.3	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472713	n.868T>C	non_coding_transcript_exon_variant	0.59	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472714	n.869A>G	non_coding_transcript_exon_variant	0.41	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.62	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.56	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.59	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.67	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	0.79	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	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472895	n.1050C>T	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472954	n.1109T>C	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472956	n.1111T>C	non_coding_transcript_exon_variant	0.72	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472957	n.1112C>T	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472973	n.1128A>G	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472990	n.1145A>G	non_coding_transcript_exon_variant	1.0	kanamycin	Not assoc w R
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472992	n.1147A>G	non_coding_transcript_exon_variant	0.73	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473005	n.1160C>T	non_coding_transcript_exon_variant	0.7	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473055	n.1210C>T	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473066	n.1221A>G	non_coding_transcript_exon_variant	0.79	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473080	n.1235C>T	non_coding_transcript_exon_variant	0.35	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473081	n.1236C>T	non_coding_transcript_exon_variant	0.44	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473088	n.1243A>G	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473173	n.1328C>T	non_coding_transcript_exon_variant	0.73	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473221	n.1376C>T	non_coding_transcript_exon_variant	0.71	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473252	n.1407T>C	non_coding_transcript_exon_variant	0.67	kanamycin	Not assoc w R
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473259	n.1414C>T	non_coding_transcript_exon_variant	0.75	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473262	n.1417T>C	non_coding_transcript_exon_variant	0.33	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473276	n.1431A>C	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrl	1474634	n.977T>C	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1474634	n.977T>C	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1474636	n.979A>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474636	n.979A>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474637	n.980C>T	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1474637	n.980C>T	non_coding_transcript_exon_variant	0.86	linezolid
rrl	1474638	n.981C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474638	n.981C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474640	n.983C>T	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1474640	n.983C>T	non_coding_transcript_exon_variant	0.86	linezolid
rrl	1474674	n.1017_1018delACinsG	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1474674	n.1017_1018delACinsG	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1474677	n.1020A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474677	n.1020A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.87	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.87	linezolid	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.87	capreomycin	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.87	linezolid	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.89	capreomycin	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.89	linezolid	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.92	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.92	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.88	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.88	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.89	capreomycin	Uncertain significance
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.89	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.96	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.93	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.93	linezolid	Uncertain significance
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.98	capreomycin	Not assoc w R
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.98	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.99	capreomycin	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.99	linezolid	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.96	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	0.97	capreomycin	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.93	capreomycin	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.93	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