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	0.62	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	0.64	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
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	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.83	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472151	n.306C>A	non_coding_transcript_exon_variant	0.6	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.84	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	0.33	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472223	n.378C>G	non_coding_transcript_exon_variant	0.85	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472225	n.380C>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Uncertain significance
rrs	1472228	n.383G>C	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472333	n.488G>A	non_coding_transcript_exon_variant	0.42	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472338	n.493A>C	non_coding_transcript_exon_variant	0.64	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472339	n.494C>T	non_coding_transcript_exon_variant	0.33	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	1.0	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	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472382	n.537G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472389	n.544G>A	non_coding_transcript_exon_variant	0.9	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472396	n.551A>T	non_coding_transcript_exon_variant	0.68	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472405	n.560C>T	non_coding_transcript_exon_variant	0.61	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.69	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	0.92	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472573	n.728C>T	non_coding_transcript_exon_variant	0.5	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472574	n.729T>G	non_coding_transcript_exon_variant	0.32	streptomycin
					kanamycin
					capreomycin
					amikacin
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	1472581	n.736A>T	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472592	n.747C>T	non_coding_transcript_exon_variant	0.31	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	0.8	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.73	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.59	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.55	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.52	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	0.31	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	0.65	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	0.43	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.94	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	1.0	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	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472895	n.1050C>T	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473053	n.1208T>G	non_coding_transcript_exon_variant	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473056	n.1211A>T	non_coding_transcript_exon_variant	0.89	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	1473172	n.1327T>C	non_coding_transcript_exon_variant	0.71	streptomycin	Not assoc w R
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473173	n.1328C>T	non_coding_transcript_exon_variant	0.43	streptomycin	Not assoc w R
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473192	n.1347A>G	non_coding_transcript_exon_variant	0.84	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473205	n.1360T>C	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	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	1.0	capreomycin
rrl	1473877	n.220G>A	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1473887	n.230T>A	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1473887	n.230T>A	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1473888	n.231T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1473888	n.231T>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1473895	n.238C>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1473895	n.238C>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.64	capreomycin
rrl	1474199	n.542G>C	non_coding_transcript_exon_variant	0.64	linezolid
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.62	capreomycin
rrl	1474208	n.551C>T	non_coding_transcript_exon_variant	0.62	linezolid
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.64	capreomycin
rrl	1474213	n.556G>A	non_coding_transcript_exon_variant	0.64	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	1474252	n.595T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474252	n.595T>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.41	capreomycin
rrl	1474555	n.898T>A	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.62	capreomycin	Uncertain significance
rrl	1474563	n.906G>A	non_coding_transcript_exon_variant	0.62	linezolid	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.48	capreomycin	Uncertain significance
rrl	1474583	n.926C>T	non_coding_transcript_exon_variant	0.48	linezolid	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474584	n.927C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1474586	n.929T>A	non_coding_transcript_exon_variant	1.0	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	0.62	capreomycin
rrl	1474597	n.940T>A	non_coding_transcript_exon_variant	0.62	linezolid
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.89	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.89	linezolid	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.38	capreomycin	Uncertain significance
rrl	1476369	n.2712C>T	non_coding_transcript_exon_variant	0.38	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	0.41	capreomycin
rrl	1476381	n.2724G>A	non_coding_transcript_exon_variant	0.41	linezolid
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.93	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.93	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.44	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.44	linezolid
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.46	capreomycin
rrl	1476443	n.2786G>A	non_coding_transcript_exon_variant	0.46	linezolid
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.47	capreomycin
rrl	1476455	n.2798C>T	non_coding_transcript_exon_variant	0.47	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