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	0.73	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	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	1472151	n.306C>A	non_coding_transcript_exon_variant	0.47	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.89	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472181	n.336G>A	non_coding_transcript_exon_variant	0.58	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472215	n.370A>G	non_coding_transcript_exon_variant	0.28	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.56	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.57	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472333	n.488G>A	non_coding_transcript_exon_variant	0.65	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472338	n.493A>C	non_coding_transcript_exon_variant	0.44	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472339	n.494C>T	non_coding_transcript_exon_variant	0.44	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472344	n.499C>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	1472349	n.504A>C	non_coding_transcript_exon_variant	0.29	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472378	n.533G>A	non_coding_transcript_exon_variant	0.33	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472379	n.534T>G	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.53	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.8	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472405	n.560C>T	non_coding_transcript_exon_variant	0.58	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.93	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472592	n.747C>T	non_coding_transcript_exon_variant	0.51	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472598	n.753A>C	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472599	n.754G>T	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.32	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.87	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472734	n.889C>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	1472741	n.896G>A	non_coding_transcript_exon_variant	0.35	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.69	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.55	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.82	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472786	n.941C>T	non_coding_transcript_exon_variant	0.29	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472793	n.948A>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	1472803	n.958T>A	non_coding_transcript_exon_variant	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473026	n.1181T>C	non_coding_transcript_exon_variant	0.54	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.36	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473062	n.1217T>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473068	n.1223A>G	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473192	n.1347A>G	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.5	capreomycin
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.5	linezolid
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.55	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.55	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.51	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.51	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>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1474228	n.571T>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1474249	n.592G>T	non_coding_transcript_exon_variant	0.34	capreomycin	Uncertain significance
rrl	1474249	n.592G>T	non_coding_transcript_exon_variant	0.34	linezolid	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.92	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.92	linezolid	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.57	capreomycin	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.57	linezolid	Uncertain significance
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.55	capreomycin
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.55	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.7	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.7	linezolid	Uncertain significance
rrl	1474582	n.925T>C	non_coding_transcript_exon_variant	0.46	capreomycin	Uncertain significance
rrl	1474582	n.925T>C	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.54	capreomycin	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.54	linezolid	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.62	capreomycin
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.62	linezolid
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.52	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.5	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.5	linezolid
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
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	0.46	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.43	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.43	linezolid
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.37	capreomycin	Uncertain significance
rrl	1476417	n.2760T>C	non_coding_transcript_exon_variant	0.37	linezolid
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.71	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.71	linezolid
rrl	1476455	n.2798C>G	non_coding_transcript_exon_variant	0.59	capreomycin
rrl	1476455	n.2798C>G	non_coding_transcript_exon_variant	0.59	linezolid
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