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	0.75	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	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.75	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	0.94	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.88	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.83	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	0.57	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472214	n.369C>G	non_coding_transcript_exon_variant	0.32	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.57	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.71	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.61	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472338	n.493A>C	non_coding_transcript_exon_variant	0.58	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	0.91	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472379	n.534T>G	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.61	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.85	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472405	n.560C>T	non_coding_transcript_exon_variant	0.68	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	0.62	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472592	n.747C>T	non_coding_transcript_exon_variant	0.54	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	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.86	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.69	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	0.33	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	0.71	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.47	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	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	0.64	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473026	n.1181T>C	non_coding_transcript_exon_variant	0.43	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.45	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	0.72	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473062	n.1217T>A	non_coding_transcript_exon_variant	0.88	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
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.76	capreomycin
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.76	linezolid
rrl	1474200	n.545delT	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474200	n.545delT	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.59	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.59	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.54	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.54	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	0.53	capreomycin	Uncertain significance
rrl	1474228	n.571T>A	non_coding_transcript_exon_variant	0.53	linezolid	Uncertain significance
rrl	1474228	n.571T>G	non_coding_transcript_exon_variant	0.47	capreomycin
rrl	1474228	n.571T>G	non_coding_transcript_exon_variant	0.47	linezolid
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.69	capreomycin	Uncertain significance
rrl	1474551	n.894G>C	non_coding_transcript_exon_variant	0.69	linezolid	Uncertain significance
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.63	capreomycin
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.63	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.78	capreomycin	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.78	linezolid	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.87	capreomycin
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.87	linezolid
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.87	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.87	linezolid
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.93	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	0.93	linezolid	Uncertain significance
rrl	1476141	n.2484A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476141	n.2484A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476153	n.2496T>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476153	n.2496T>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476164	n.2507A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476164	n.2507A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.85	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.85	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.59	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.59	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>C	non_coding_transcript_exon_variant	0.28	capreomycin	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.28	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.79	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.79	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.48	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.48	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.36	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.36	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.29	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.29	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.73	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.73	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