TB-Profiler

Lineage	Family	RDs	Frequency
lineage4	Euro-American	None	1.0
lineage4.9	Euro-American (H37Rv-like)	None	0.99

Gene	Chromosome position	Mutation	Type	Estimated fraction	Drugs	Confidence	Comment
rrs	1472733	n.888G>A	non_coding_transcript_exon_variant	0.21	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	1472147	n.302G>A	non_coding_transcript_exon_variant	0.7	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.97	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	0.73	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472164	n.319G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	1.0	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	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472210	n.365A>C	non_coding_transcript_exon_variant	0.17	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472213	n.368G>C	non_coding_transcript_exon_variant	0.17	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472215	n.370A>G	non_coding_transcript_exon_variant	0.17	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472240	n.395G>C	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472242	n.397C>T	non_coding_transcript_exon_variant	0.87	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472251	n.406G>T	non_coding_transcript_exon_variant	1.0	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472252	n.407G>A	non_coding_transcript_exon_variant	0.85	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472253	n.408G>T	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472256	n.411T>A	non_coding_transcript_exon_variant	0.85	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472259	n.414C>A	non_coding_transcript_exon_variant	0.95	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472530	n.685G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472541	n.696T>G	non_coding_transcript_exon_variant	0.94	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472545	n.700A>T	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472553	n.708C>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	0.31	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472570	n.725G>A	non_coding_transcript_exon_variant	0.33	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>C	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472572	n.727T>C	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin
					amikacin	Uncertain significance
rrs	1472574	n.729T>C	non_coding_transcript_exon_variant	0.67	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	1472579	n.734G>T	non_coding_transcript_exon_variant	0.33	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.33	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472582	n.737G>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472583	n.738T>A	non_coding_transcript_exon_variant	0.67	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472584	n.739A>G	non_coding_transcript_exon_variant	0.67	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472594	n.749G>C	non_coding_transcript_exon_variant	0.68	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472598	n.753A>T	non_coding_transcript_exon_variant	0.87	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472616	n.771G>A	non_coding_transcript_exon_variant	0.9	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472707	n.862A>G	non_coding_transcript_exon_variant	0.57	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472713	n.868T>C	non_coding_transcript_exon_variant	0.48	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472714	n.869A>C	non_coding_transcript_exon_variant	0.5	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472715	n.870C>G	non_coding_transcript_exon_variant	0.48	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472716	n.871C>A	non_coding_transcript_exon_variant	0.48	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.52	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472742	n.897C>T	non_coding_transcript_exon_variant	0.99	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	0.22	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472754	n.909G>T	non_coding_transcript_exon_variant	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472767	n.922G>A	non_coding_transcript_exon_variant	0.21	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>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	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	0.21	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473139	n.1294T>C	non_coding_transcript_exon_variant	0.95	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1473145	n.1300C>T	non_coding_transcript_exon_variant	0.97	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473148	n.1303G>A	non_coding_transcript_exon_variant	0.98	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473163	n.1318C>T	non_coding_transcript_exon_variant	0.99	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	1.0	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	1.0	streptomycin
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473206	n.1361G>A	non_coding_transcript_exon_variant	1.0	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475526	n.1869C>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475538	n.1881T>C	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475538	n.1881T>C	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475539	n.1882A>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475539	n.1882A>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475540	n.1883C>T	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475540	n.1883C>T	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475545	n.1888T>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475545	n.1888T>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1475550	n.1893A>C	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1475550	n.1893A>C	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475551	n.1894T>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475551	n.1894T>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475555	n.1898T>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475555	n.1898T>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475564	n.1907C>A	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475564	n.1907C>A	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475574	n.1917C>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475574	n.1917C>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475575	n.1918C>T	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475575	n.1918C>T	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475576	n.1919C>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1475576	n.1919C>G	non_coding_transcript_exon_variant	1.0	linezolid
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.73	capreomycin	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.73	linezolid	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.75	linezolid	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.75	linezolid	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.15	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.15	linezolid	Uncertain significance
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.86	capreomycin
rrl	1476336	n.2679C>T	non_coding_transcript_exon_variant	0.86	linezolid
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.81	capreomycin
rrl	1476356	n.2699C>A	non_coding_transcript_exon_variant	0.81	linezolid
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.81	capreomycin
rrl	1476357	n.2700T>C	non_coding_transcript_exon_variant	0.81	linezolid
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	0.81	capreomycin	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.81	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	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.22	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.22	linezolid	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.75	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	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.25	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.25	linezolid	Uncertain significance
rrl	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1476383	n.2726T>G	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1476384	n.2727G>T	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.78	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.78	linezolid
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.99	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.99	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	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.21	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.21	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	0.78	capreomycin
rrl	1476456	n.2799A>T	non_coding_transcript_exon_variant	0.78	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.79	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.79	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.98	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.96	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.71	capreomycin	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.71	linezolid
rrl	1476517	n.2860C>T	non_coding_transcript_exon_variant	0.8	capreomycin	Uncertain significance
rrl	1476517	n.2860C>T	non_coding_transcript_exon_variant	0.8	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