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	0.6	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	1472135	n.290C>T	non_coding_transcript_exon_variant	0.5	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472138	n.293C>T	non_coding_transcript_exon_variant	0.64	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472147	n.302G>A	non_coding_transcript_exon_variant	0.71	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472153	n.308G>A	non_coding_transcript_exon_variant	0.72	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472164	n.319G>A	non_coding_transcript_exon_variant	0.8	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472177	n.332C>T	non_coding_transcript_exon_variant	0.85	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>C	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472242	n.397C>T	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472251	n.406G>T	non_coding_transcript_exon_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472253	n.408G>T	non_coding_transcript_exon_variant	0.96	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472256	n.411T>A	non_coding_transcript_exon_variant	0.96	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472259	n.414C>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472507	n.662C>G	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472517	n.672T>A	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472530	n.685G>A	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472541	n.696T>G	non_coding_transcript_exon_variant	0.53	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472544	n.699C>A	non_coding_transcript_exon_variant	0.43	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472545	n.700A>T	non_coding_transcript_exon_variant	0.96	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472553	n.708C>T	non_coding_transcript_exon_variant	0.51	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472566	n.721G>A	non_coding_transcript_exon_variant	0.49	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.98	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472572	n.727T>C	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin
					amikacin	Uncertain significance
rrs	1472574	n.729T>C	non_coding_transcript_exon_variant	0.47	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472579	n.734G>T	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.55	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472582	n.738_739delTA	non_coding_transcript_exon_variant	0.44	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472594	n.749G>C	non_coding_transcript_exon_variant	0.47	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472598	n.753A>C	non_coding_transcript_exon_variant	0.98	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472599	n.754G>T	non_coding_transcript_exon_variant	0.51	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.89	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.5	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472655	n.810G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472658	n.813G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472661	n.816A>G	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472690	n.845C>A	non_coding_transcript_exon_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472697	n.852T>G	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472713	n.868T>C	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.5	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472754	n.909G>T	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.96	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472793	n.948A>T	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472803	n.958T>A	non_coding_transcript_exon_variant	0.53	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472824	n.979T>A	non_coding_transcript_exon_variant	0.64	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472827	n.982G>T	non_coding_transcript_exon_variant	0.88	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472828	n.983T>C	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472836	n.991G>C	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472838	n.993A>T	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472840	n.995A>C	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472841	n.996G>T	non_coding_transcript_exon_variant	0.92	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472845	n.1000G>C	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472846	n.1001C>G	non_coding_transcript_exon_variant	0.92	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472861	n.1016G>T	non_coding_transcript_exon_variant	0.92	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472869	n.1024_1025delGTinsCGG	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472874	n.1029C>A	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472875	n.1030T>G	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472877	n.1032T>A	non_coding_transcript_exon_variant	0.92	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472880	n.1035_1036insA	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472887	n.1042G>C	non_coding_transcript_exon_variant	0.41	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472895	n.1050C>T	non_coding_transcript_exon_variant	0.56	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472912	n.1067C>T	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472917	n.1072G>A	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473163	n.1318C>T	non_coding_transcript_exon_variant	0.92	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473177	n.1332G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473191	n.1346C>T	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473198	n.1354delC	non_coding_transcript_exon_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1473202	n.1357C>T	non_coding_transcript_exon_variant	0.88	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473206	n.1361G>A	non_coding_transcript_exon_variant	0.88	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.75	linezolid	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.84	capreomycin	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.84	linezolid	Uncertain significance
rrl	1475874	n.2217C>T	non_coding_transcript_exon_variant	0.63	capreomycin
rrl	1475874	n.2217C>T	non_coding_transcript_exon_variant	0.63	linezolid
rrl	1476225	n.2568T>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476225	n.2568T>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476227	n.2570C>T	non_coding_transcript_exon_variant	0.93	capreomycin
rrl	1476227	n.2570C>T	non_coding_transcript_exon_variant	0.93	linezolid	Uncertain significance
rrl	1476229	n.2572C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476229	n.2572C>T	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1476250	n.2593C>G	non_coding_transcript_exon_variant	0.83	capreomycin	Uncertain significance
rrl	1476250	n.2593C>G	non_coding_transcript_exon_variant	0.83	linezolid	Uncertain significance
rrl	1476251	n.2594T>C	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476251	n.2594T>C	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476257	n.2600G>C	non_coding_transcript_exon_variant	0.83	capreomycin	Uncertain significance
rrl	1476257	n.2600G>C	non_coding_transcript_exon_variant	0.83	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.99	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.99	linezolid	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.72	capreomycin	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.72	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.98	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.74	capreomycin	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.74	linezolid	Uncertain significance
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	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.97	capreomycin
rrl	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.97	linezolid
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.71	capreomycin
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.71	linezolid
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.73	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.73	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.99	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	0.99	linezolid	Uncertain significance
rrl	1476442	n.2785T>A	non_coding_transcript_exon_variant	0.74	capreomycin
rrl	1476442	n.2785T>A	non_coding_transcript_exon_variant	0.74	linezolid
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.74	capreomycin
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.74	linezolid
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.78	capreomycin
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.78	linezolid
rrl	1476456	n.2799A>T	non_coding_transcript_exon_variant	0.77	capreomycin
rrl	1476456	n.2799A>T	non_coding_transcript_exon_variant	0.77	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.77	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.77	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.97	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.36	capreomycin	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.36	linezolid

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