TB-Profiler

Lineage	Family	RDs	Frequency
lineage4	Euro-American	None	1.0

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
rpoC	762893	c.-477C>T	upstream_gene_variant	0.58	rifampicin
rpoB	762917	c.3111C>G	synonymous_variant	0.71	rifampicin	Not assoc w R - Interim
rpoB	762920	c.3114C>T	synonymous_variant	0.71	rifampicin	Not assoc w R - Interim
rpoB	762923	c.3117C>G	synonymous_variant	0.71	rifampicin	Not assoc w R - Interim
rpoB	762925	p.Thr1040Ile	missense_variant	0.71	rifampicin
rpoB	762929	c.3123G>T	synonymous_variant	0.73	rifampicin	Not assoc w R - Interim
rpoB	762939	c.3133_3135delATGinsCC	frameshift_variant&missense_variant	0.71	rifampicin
rpoB	762942	p.Ile1046Val	missense_variant	0.71	rifampicin	Uncertain significance
rpoC	762965	c.-405T>C	upstream_gene_variant	0.75	rifampicin
rpoC	762980	c.-390T>C	upstream_gene_variant	0.58	rifampicin
rpoC	764344	c.975C>T	synonymous_variant	0.85	rifampicin
rpoC	764348	p.Met327Leu	missense_variant	0.86	rifampicin
rpoC	764355	p.Gln329Pro	missense_variant	0.79	rifampicin
rpoC	764377	c.1008C>G	synonymous_variant	0.79	rifampicin	Not assoc w R - Interim
rpoC	764380	c.1011G>C	synonymous_variant	0.79	rifampicin	Not assoc w R - Interim
rpoC	764383	c.1014C>G	synonymous_variant	0.79	rifampicin
rpoC	764387	c.1018_1020delTTGinsCC	frameshift_variant&missense_variant	0.79	rifampicin
rpoC	764398	c.1029G>C	synonymous_variant	0.79	rifampicin
rpoC	764405	c.1036_1038delAGGinsCC	frameshift_variant&missense_variant	0.83	rifampicin
rpoC	764410	c.1041G>T	synonymous_variant	0.83	rifampicin
rpoC	764428	c.1059G>T	synonymous_variant	0.76	rifampicin
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.47	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.59	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	0.7	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472214	n.369C>G	non_coding_transcript_exon_variant	0.8	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472235	n.390G>C	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472240	n.395G>C	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472242	n.397C>T	non_coding_transcript_exon_variant	0.83	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472251	n.406G>A	non_coding_transcript_exon_variant	0.89	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472253	n.408G>T	non_coding_transcript_exon_variant	0.88	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472259	n.414C>A	non_coding_transcript_exon_variant	0.87	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472264	n.419T>C	non_coding_transcript_exon_variant	0.86	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472266	n.421C>A	non_coding_transcript_exon_variant	0.86	streptomycin	Uncertain significance
					kanamycin
					capreomycin
					amikacin
rrs	1472277	n.432C>G	non_coding_transcript_exon_variant	0.8	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1472716	n.871C>T	non_coding_transcript_exon_variant	0.62	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472734	n.889C>T	non_coding_transcript_exon_variant	0.81	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	0.78	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	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.76	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	0.78	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1472803	n.958T>C	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472812	n.967A>C	non_coding_transcript_exon_variant	0.79	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1473145	n.1300C>T	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473149	n.1304G>C	non_coding_transcript_exon_variant	0.78	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1473162	n.1317C>G	non_coding_transcript_exon_variant	0.81	streptomycin
					kanamycin
					capreomycin
					amikacin
rrs	1473166	n.1321G>A	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473173	n.1328C>T	non_coding_transcript_exon_variant	0.81	streptomycin	Not assoc w R
					kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					amikacin	Not assoc w R
rrs	1473177	n.1332G>A	non_coding_transcript_exon_variant	0.81	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	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473192	n.1347A>G	non_coding_transcript_exon_variant	0.79	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473199	n.1356delA	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473205	n.1360T>C	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1473206	n.1361G>A	non_coding_transcript_exon_variant	0.76	streptomycin	Uncertain significance
					kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					amikacin	Uncertain significance
rrl	1475791	n.2134A>G	non_coding_transcript_exon_variant	0.6	capreomycin	Uncertain significance
rrl	1475791	n.2134A>G	non_coding_transcript_exon_variant	0.6	linezolid	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1475803	n.2146T>C	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.67	capreomycin	Uncertain significance
rrl	1475804	n.2147G>C	non_coding_transcript_exon_variant	0.67	linezolid	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1475816	n.2159C>G	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1475817	n.2160A>G	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1475874	n.2217C>T	non_coding_transcript_exon_variant	0.9	capreomycin
rrl	1475874	n.2217C>T	non_coding_transcript_exon_variant	0.9	linezolid
rrl	1476336	n.2679C>G	non_coding_transcript_exon_variant	0.9	capreomycin
rrl	1476336	n.2679C>G	non_coding_transcript_exon_variant	0.9	linezolid
rrl	1476356	n.2699C>G	non_coding_transcript_exon_variant	0.89	capreomycin
rrl	1476356	n.2699C>G	non_coding_transcript_exon_variant	0.89	linezolid
rrl	1476357	n.2700T>A	non_coding_transcript_exon_variant	0.89	capreomycin
rrl	1476357	n.2700T>A	non_coding_transcript_exon_variant	0.89	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	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.89	capreomycin	Uncertain significance
rrl	1476359	n.2702C>G	non_coding_transcript_exon_variant	0.89	linezolid	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476381	n.2724G>C	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476384	n.2727G>C	non_coding_transcript_exon_variant	0.82	capreomycin
rrl	1476384	n.2727G>C	non_coding_transcript_exon_variant	0.82	linezolid
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.86	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.86	linezolid	Uncertain significance
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.86	capreomycin
rrl	1476411	n.2754G>A	non_coding_transcript_exon_variant	0.86	linezolid
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.88	capreomycin
rrl	1476428	n.2771C>A	non_coding_transcript_exon_variant	0.88	linezolid
rrl	1476443	n.2786G>C	non_coding_transcript_exon_variant	0.78	capreomycin
rrl	1476443	n.2786G>C	non_coding_transcript_exon_variant	0.78	linezolid
rrl	1476455	n.2798C>G	non_coding_transcript_exon_variant	0.73	capreomycin
rrl	1476455	n.2798C>G	non_coding_transcript_exon_variant	0.73	linezolid
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.65	capreomycin
rrl	1476463	n.2806C>T	non_coding_transcript_exon_variant	0.65	linezolid
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.68	capreomycin	Not assoc w R
rrl	1476466	n.2809C>T	non_coding_transcript_exon_variant	0.68	linezolid	Uncertain significance
rrl	1476470	n.2813C>T	non_coding_transcript_exon_variant	0.64	capreomycin	Uncertain significance
rrl	1476470	n.2813C>T	non_coding_transcript_exon_variant	0.64	linezolid	Uncertain significance
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.68	capreomycin	Not assoc w R
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.68	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.53	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.53	linezolid	Uncertain significance

Drug	Resistance	Supporting mutations	WHO confidence	Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid

TB-Profiler result