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	0.45	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
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.91	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.82	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472137	n.292G>A	non_coding_transcript_exon_variant	0.32	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472138	n.293C>A	non_coding_transcript_exon_variant	0.32	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.57	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.9	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.84	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	0.41	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.8	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.93	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.86	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.59	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472333	n.488G>A	non_coding_transcript_exon_variant	0.36	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472338	n.493A>C	non_coding_transcript_exon_variant	0.62	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	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.85	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.65	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472405	n.560C>T	non_coding_transcript_exon_variant	0.64	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472518	n.673G>A	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472530	n.685G>A	non_coding_transcript_exon_variant	0.8	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472544	n.699C>T	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.89	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472574	n.729T>A	non_coding_transcript_exon_variant	0.45	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.76	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472583	n.738T>C	non_coding_transcript_exon_variant	0.29	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	0.8	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.72	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.37	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	1472715	n.870C>T	non_coding_transcript_exon_variant	0.62	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	0.58	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.53	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	0.4	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	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.82	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.4	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.83	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	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472824	n.979T>A	non_coding_transcript_exon_variant	0.7	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472895	n.1050C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473053	n.1208T>A	non_coding_transcript_exon_variant	0.62	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	0.81	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473062	n.1217T>A	non_coding_transcript_exon_variant	0.97	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	1473070	n.1225G>A	non_coding_transcript_exon_variant	0.33	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	0.36	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473172	n.1327T>C	non_coding_transcript_exon_variant	0.46	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473173	n.1328C>T	non_coding_transcript_exon_variant	0.33	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473205	n.1360T>C	non_coding_transcript_exon_variant	0.71	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473248	n.1403G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473249	n.1404T>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.56	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.56	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.57	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.57	linezolid
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	1.0	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	1.0	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.46	capreomycin
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.46	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.62	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.62	linezolid	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.58	capreomycin	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.58	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	0.68	capreomycin
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.68	linezolid
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.65	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.65	linezolid
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.94	linezolid	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.45	capreomycin	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.45	linezolid	Uncertain significance
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	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.98	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.6	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.6	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.62	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.62	linezolid	Uncertain significance
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.46	capreomycin
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.46	linezolid
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.95	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.95	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.49	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.49	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.44	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.44	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.42	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.42	linezolid
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.35	capreomycin	Uncertain significance
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.35	linezolid
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.58	linezolid
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.44	capreomycin
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.44	linezolid
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.43	capreomycin
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.43	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.46	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.46	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

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