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	1472644	n.799C>T	non_coding_transcript_exon_variant	0.38	streptomycin	Uncertain significance	Mutation from literature
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	1472127	n.282C>T	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.67	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.75	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.83	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.67	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.94	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	0.48	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472214	n.369C>G	non_coding_transcript_exon_variant	0.27	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.53	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	0.92	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.57	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472333	n.488G>A	non_coding_transcript_exon_variant	0.65	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472339	n.494C>T	non_coding_transcript_exon_variant	0.4	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472349	n.504A>C	non_coding_transcript_exon_variant	0.27	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472378	n.533G>A	non_coding_transcript_exon_variant	0.32	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472379	n.534T>G	non_coding_transcript_exon_variant	0.68	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.62	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.62	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472400	n.555C>T	non_coding_transcript_exon_variant	0.5	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
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	1472581	n.736A>T	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
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	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472607	n.762G>A	non_coding_transcript_exon_variant	0.4	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472612	n.767G>T	non_coding_transcript_exon_variant	0.43	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.47	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.82	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.3	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	0.82	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.36	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.86	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472786	n.941C>T	non_coding_transcript_exon_variant	0.42	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472793	n.948A>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	1472803	n.958T>A	non_coding_transcript_exon_variant	0.55	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.44	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473053	n.1208T>A	non_coding_transcript_exon_variant	0.88	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	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473068	n.1223A>G	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473080	n.1235C>A	non_coding_transcript_exon_variant	0.58	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1473871	n.214T>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1473871	n.214T>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1473876	n.219G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1473876	n.219G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1473877	n.220G>A	non_coding_transcript_exon_variant	0.9	capreomycin
rrl	1473877	n.220G>A	non_coding_transcript_exon_variant	0.9	linezolid
rrl	1473895	n.238C>G	non_coding_transcript_exon_variant	0.91	capreomycin
rrl	1473895	n.238C>G	non_coding_transcript_exon_variant	0.91	linezolid
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.69	capreomycin
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.69	linezolid
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	0.91	capreomycin	Uncertain significance
rrl	1474218	n.561T>A	non_coding_transcript_exon_variant	0.91	linezolid	Uncertain significance
rrl	1474228	n.571T>A	non_coding_transcript_exon_variant	0.94	capreomycin	Uncertain significance
rrl	1474228	n.571T>A	non_coding_transcript_exon_variant	0.94	linezolid	Uncertain significance
rrl	1474249	n.592G>T	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1474249	n.592G>T	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1474263	n.606G>C	non_coding_transcript_exon_variant	0.58	capreomycin
rrl	1474263	n.606G>C	non_coding_transcript_exon_variant	0.58	linezolid
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.45	capreomycin
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.45	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1474582	n.925T>C	non_coding_transcript_exon_variant	0.47	capreomycin	Uncertain significance
rrl	1474582	n.925T>C	non_coding_transcript_exon_variant	0.47	linezolid	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.45	capreomycin	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.45	linezolid	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.67	capreomycin
rrl	1474594	n.937G>C	non_coding_transcript_exon_variant	0.67	linezolid
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.63	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.63	linezolid
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474823	n.1166C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1474827	n.1170C>T	non_coding_transcript_exon_variant	0.8	linezolid	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474844	n.1187G>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.33	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.87	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.87	linezolid	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.44	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.44	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	0.52	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.52	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.31	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.31	linezolid	Uncertain significance
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.97	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.97	linezolid
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.31	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.31	linezolid	Uncertain significance
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.54	capreomycin
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.54	linezolid
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.59	capreomycin
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.59	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.5	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.5	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.799C>T	Uncertain significance	Mutation from literature
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