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	0.94	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	1472100	n.255T>C	non_coding_transcript_exon_variant	0.7	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472106	n.261G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472113	n.268T>C	non_coding_transcript_exon_variant	0.86	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472120	n.275G>T	non_coding_transcript_exon_variant	0.8	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472127	n.282C>T	non_coding_transcript_exon_variant	0.93	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472128	n.283G>C	non_coding_transcript_exon_variant	0.93	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472129	n.284G>A	non_coding_transcript_exon_variant	0.88	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472138	n.293C>A	non_coding_transcript_exon_variant	0.83	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472147	n.302G>T	non_coding_transcript_exon_variant	0.81	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472150	n.305T>G	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472160	n.315C>T	non_coding_transcript_exon_variant	0.82	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472214	n.369C>G	non_coding_transcript_exon_variant	0.79	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472215	n.370A>G	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472234	n.389T>C	non_coding_transcript_exon_variant	0.86	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472235	n.390G>C	non_coding_transcript_exon_variant	0.81	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472240	n.395G>A	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472251	n.406G>A	non_coding_transcript_exon_variant	0.89	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472252	n.407G>A	non_coding_transcript_exon_variant	0.68	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472256	n.411T>A	non_coding_transcript_exon_variant	0.76	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472259	n.414C>A	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472263	n.418C>T	non_coding_transcript_exon_variant	0.79	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472278	n.433C>T	non_coding_transcript_exon_variant	0.9	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin
					amikacin	Uncertain significance
rrs	1472284	n.439C>T	non_coding_transcript_exon_variant	0.64	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472530	n.685G>A	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472537	n.692C>T	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472544	n.699C>A	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472545	n.700A>C	non_coding_transcript_exon_variant	0.91	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472557	n.712G>A	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472571	n.726G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472573	n.728C>T	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472574	n.729T>G	non_coding_transcript_exon_variant	0.91	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472579	n.734G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>G	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472582	n.737G>A	non_coding_transcript_exon_variant	0.91	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
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	1472616	n.771G>A	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472655	n.810G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472659	n.814G>A	non_coding_transcript_exon_variant	0.98	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472672	n.828_838delTTTCCTTCCTT	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472687	n.842delAinsTCTGACCCCC	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472697	n.852T>C	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472708	n.863T>A	non_coding_transcript_exon_variant	1.0	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472715	n.870C>T	non_coding_transcript_exon_variant	0.96	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472719	n.874G>A	non_coding_transcript_exon_variant	0.94	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472734	n.889C>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	1472742	n.897C>T	non_coding_transcript_exon_variant	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472744	n.899A>G	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472781	n.936C>T	non_coding_transcript_exon_variant	0.97	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	0.96	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472793	n.948A>T	non_coding_transcript_exon_variant	0.95	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	0.94	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472824	n.979T>A	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472828	n.983T>C	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1473035	n.1190G>A	non_coding_transcript_exon_variant	1.0	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476225	n.2568T>G	non_coding_transcript_exon_variant	0.76	capreomycin	Uncertain significance
rrl	1476225	n.2568T>G	non_coding_transcript_exon_variant	0.76	linezolid	Uncertain significance
rrl	1476229	n.2572C>A	non_coding_transcript_exon_variant	0.76	capreomycin
rrl	1476229	n.2572C>A	non_coding_transcript_exon_variant	0.76	linezolid
rrl	1476242	n.2585C>T	non_coding_transcript_exon_variant	0.6	capreomycin
rrl	1476242	n.2585C>T	non_coding_transcript_exon_variant	0.6	linezolid
rrl	1476251	n.2594T>A	non_coding_transcript_exon_variant	0.71	capreomycin	Uncertain significance
rrl	1476251	n.2594T>A	non_coding_transcript_exon_variant	0.71	linezolid	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.85	capreomycin	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.85	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	1.0	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476265	n.2608G>A	non_coding_transcript_exon_variant	0.62	capreomycin
rrl	1476265	n.2608G>A	non_coding_transcript_exon_variant	0.62	linezolid
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.36	capreomycin
rrl	1476267	n.2610G>T	non_coding_transcript_exon_variant	0.36	linezolid
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.39	capreomycin
rrl	1476276	n.2619C>A	non_coding_transcript_exon_variant	0.39	linezolid
rrl	1476280	n.2623A>C	non_coding_transcript_exon_variant	0.83	capreomycin	Uncertain significance
rrl	1476280	n.2623A>C	non_coding_transcript_exon_variant	0.83	linezolid	Uncertain significance
rrl	1476293	n.2636C>T	non_coding_transcript_exon_variant	0.54	capreomycin	Uncertain significance
rrl	1476293	n.2636C>T	non_coding_transcript_exon_variant	0.54	linezolid	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476295	n.2638C>G	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476295	n.2638C>G	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476297	n.2640C>G	non_coding_transcript_exon_variant	0.46	capreomycin	Uncertain significance
rrl	1476297	n.2640C>G	non_coding_transcript_exon_variant	0.46	linezolid	Uncertain significance
rrl	1476297	n.2640C>T	non_coding_transcript_exon_variant	0.54	capreomycin	Uncertain significance
rrl	1476297	n.2640C>T	non_coding_transcript_exon_variant	0.54	linezolid	Uncertain significance
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	0.81	capreomycin	Uncertain significance
rrl	1476311	n.2654G>C	non_coding_transcript_exon_variant	0.81	linezolid	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.82	capreomycin	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.82	linezolid	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.38	capreomycin	Uncertain significance
rrl	1476313	n.2656G>A	non_coding_transcript_exon_variant	0.38	linezolid	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476332	n.2675G>C	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.45	capreomycin	Uncertain significance
rrl	1476338	n.2681C>T	non_coding_transcript_exon_variant	0.45	linezolid	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.38	capreomycin	Uncertain significance
rrl	1476353	n.2696G>T	non_coding_transcript_exon_variant	0.38	linezolid	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.95	capreomycin	Uncertain significance
rrl	1476358	n.2701T>C	non_coding_transcript_exon_variant	0.95	linezolid	Uncertain significance
rrl	1476366	n.2709A>C	non_coding_transcript_exon_variant	0.63	capreomycin
rrl	1476366	n.2709A>C	non_coding_transcript_exon_variant	0.63	linezolid
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1476372	n.2715T>C	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1476374	n.2717T>G	non_coding_transcript_exon_variant	0.65	capreomycin
rrl	1476374	n.2717T>G	non_coding_transcript_exon_variant	0.65	linezolid
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1476382	n.2725A>G	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.96	capreomycin	Uncertain significance
rrl	1476383	n.2726T>A	non_coding_transcript_exon_variant	0.96	linezolid	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476408	n.2751G>A	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.95	capreomycin	Uncertain significance
rrl	1476425	n.2768G>A	non_coding_transcript_exon_variant	0.95	linezolid	Uncertain significance
rrl	1476427	n.2770G>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476427	n.2770G>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Not assoc w R
rrl	1476428	n.2771C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.72	capreomycin	Uncertain significance
rrl	1476429	n.2772A>C	non_coding_transcript_exon_variant	0.72	linezolid	Uncertain significance
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.72	capreomycin
rrl	1476443	n.2786G>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.74	capreomycin
rrl	1476455	n.2798C>A	non_coding_transcript_exon_variant	0.74	linezolid
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.98	capreomycin	Not assoc w R
rrl	1476481	n.2824T>C	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.98	capreomycin	Not assoc w R
rrl	1476506	n.2849T>C	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.72	capreomycin	Uncertain significance
rrl	1476512	n.2855C>T	non_coding_transcript_exon_variant	0.72	linezolid
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.98	capreomycin	Uncertain significance
rrl	1476514	n.2857C>T	non_coding_transcript_exon_variant	0.98	linezolid	Uncertain significance
rrl	1476515	n.2858C>T	non_coding_transcript_exon_variant	0.7	capreomycin	Uncertain significance
rrl	1476515	n.2858C>T	non_coding_transcript_exon_variant	0.7	linezolid
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476519	n.2862C>G	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476524	n.2867C>A	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476528	n.2871A>G	non_coding_transcript_exon_variant	0.75	capreomycin	Uncertain significance
rrl	1476528	n.2871A>G	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476530	n.2873C>T	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476535	n.2878G>A	non_coding_transcript_exon_variant	0.75	capreomycin
rrl	1476535	n.2878G>A	non_coding_transcript_exon_variant	0.75	linezolid
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476537	n.2880A>G	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	0.97	capreomycin	Uncertain significance
rrl	1476538	n.2881A>G	non_coding_transcript_exon_variant	0.97	linezolid	Uncertain significance
rrl	1476540	n.2883C>G	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476540	n.2883C>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	0.9	capreomycin	Uncertain significance
rrl	1476547	n.2890C>T	non_coding_transcript_exon_variant	0.9	linezolid	Uncertain significance
rrl	1476567	n.2910C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476567	n.2910C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476572	n.2915G>A	non_coding_transcript_exon_variant	0.92	capreomycin	Uncertain significance
rrl	1476572	n.2915G>A	non_coding_transcript_exon_variant	0.92	linezolid
rrl	1476573	n.2916A>G	non_coding_transcript_exon_variant	1.0	capreomycin
rrl	1476573	n.2916A>G	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476596	n.2939C>T	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476596	n.2939C>T	non_coding_transcript_exon_variant	1.0	linezolid	Uncertain significance
rrl	1476601	n.2944G>A	non_coding_transcript_exon_variant	1.0	capreomycin	Uncertain significance
rrl	1476601	n.2944G>A	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