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	0.79	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	1472113	n.268T>C	non_coding_transcript_exon_variant	0.69	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	0.76	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.81	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	0.65	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.84	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	0.42	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.85	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.57	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	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472573	n.728C>T	non_coding_transcript_exon_variant	0.68	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472574	n.729T>G	non_coding_transcript_exon_variant	0.46	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.78	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	0.41	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	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472697	n.852T>C	non_coding_transcript_exon_variant	0.93	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472708	n.863T>A	non_coding_transcript_exon_variant	0.36	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472713	n.868T>C	non_coding_transcript_exon_variant	0.32	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
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	0.74	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.52	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.44	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	0.33	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	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.9	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.37	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.87	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	0.78	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472813	n.968A>G	non_coding_transcript_exon_variant	0.25	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473145	n.1300C>T	non_coding_transcript_exon_variant	0.72	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473148	n.1303G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473163	n.1318C>T	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473172	n.1327T>C	non_coding_transcript_exon_variant	0.86	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	0.92	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473177	n.1332G>T	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473192	n.1347A>G	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473193	n.1348G>C	non_coding_transcript_exon_variant	0.83	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473200	n.1355A>C	non_coding_transcript_exon_variant	0.97	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473204	n.1359C>G	non_coding_transcript_exon_variant	0.83	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1473205	n.1360T>C	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473248	n.1403G>A	non_coding_transcript_exon_variant	0.71	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	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1474839	n.1182C>T	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1474892	n.1235G>A	non_coding_transcript_exon_variant	0.82	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	1475783	n.2126T>G	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1475783	n.2126T>G	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475804	n.2147G>C	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	1475869	n.2212C>T	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1475869	n.2212C>T	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476322	n.2665C>A	non_coding_transcript_exon_variant	0.4	capreomycin
rrl	1476322	n.2665C>A	non_coding_transcript_exon_variant	0.4	linezolid
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.65	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.65	linezolid	Uncertain significance
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.35	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.35	linezolid
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.59	capreomycin	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.59	linezolid	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.46	capreomycin	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.37	capreomycin
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.37	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	0.46	capreomycin
rrl	1476359	n.2702C>T	non_coding_transcript_exon_variant	0.46	linezolid
rrl	1476368	n.2711T>C	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476368	n.2711T>C	non_coding_transcript_exon_variant	0.27	linezolid
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.64	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.64	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.68	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.68	linezolid	Uncertain significance
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.52	capreomycin
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.4	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.4	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.47	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.47	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.37	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.37	linezolid
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.3	capreomycin	Uncertain significance
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.3	linezolid
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.52	capreomycin	Uncertain significance
rrl	1476425	n.2768G>T	non_coding_transcript_exon_variant	0.52	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.52	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.52	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.33	linezolid	Uncertain significance
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.32	capreomycin
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.32	linezolid
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.36	capreomycin
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.36	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.37	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.37	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.49	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.49	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	0.8	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.94	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>T	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1476524	n.2867C>T	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	0.93	capreomycin	Uncertain significance
rrl	1476525	n.2868A>G	non_coding_transcript_exon_variant	0.93	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	0.92	capreomycin	Uncertain significance
rrl	1476536	n.2879G>A	non_coding_transcript_exon_variant	0.92	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	1476540	n.2883C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476540	n.2883C>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
rrl	1476567	n.2910C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476567	n.2910C>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