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	0.69	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
gyrA	7585	p.Ser95Thr	missense_variant	1.0	levofloxacin	Not assoc w R
gyrA	7585	p.Ser95Thr	missense_variant	1.0	moxifloxacin	Not assoc w R
rrs	1472150	n.305T>A	non_coding_transcript_exon_variant	0.98	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472172	n.327T>C	non_coding_transcript_exon_variant	0.97	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472251	n.406G>A	non_coding_transcript_exon_variant	0.95	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472282	n.437T>G	non_coding_transcript_exon_variant	0.14	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472324	n.479G>C	non_coding_transcript_exon_variant	0.2	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472325	n.480G>C	non_coding_transcript_exon_variant	0.2	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472328	n.483G>C	non_coding_transcript_exon_variant	0.2	kanamycin
					capreomycin
					streptomycin	Uncertain significance
					amikacin
rrs	1472332	n.487A>G	non_coding_transcript_exon_variant	0.22	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472333	n.488G>A	non_coding_transcript_exon_variant	0.21	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472338	n.493A>G	non_coding_transcript_exon_variant	0.3	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472344	n.499C>T	non_coding_transcript_exon_variant	0.43	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472379	n.534T>C	non_coding_transcript_exon_variant	0.65	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472400	n.555C>T	non_coding_transcript_exon_variant	0.66	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472416	n.571C>T	non_coding_transcript_exon_variant	0.62	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472422	n.577T>C	non_coding_transcript_exon_variant	0.6	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472476	n.631A>G	non_coding_transcript_exon_variant	0.63	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472494	n.649A>G	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472496	n.651T>A	non_coding_transcript_exon_variant	0.52	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin
					amikacin	Uncertain significance
rrs	1472498	n.653C>T	non_coding_transcript_exon_variant	0.87	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472569	n.724G>A	non_coding_transcript_exon_variant	0.78	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472581	n.736A>T	non_coding_transcript_exon_variant	0.88	kanamycin	Uncertain significance
					capreomycin	Not assoc w R
					streptomycin	Uncertain significance
					amikacin	Not assoc w R
rrs	1472584	n.739A>T	non_coding_transcript_exon_variant	0.18	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472597	n.752G>A	non_coding_transcript_exon_variant	0.73	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472607	n.762G>A	non_coding_transcript_exon_variant	0.75	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472647	n.802C>T	non_coding_transcript_exon_variant	0.18	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472655	n.810G>T	non_coding_transcript_exon_variant	0.87	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472660	n.815T>C	non_coding_transcript_exon_variant	0.84	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472673	n.828_842delTTTCCTTCCTTGGGAinsGGACATTCCACGTTT	non_coding_transcript_exon_variant	0.78	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472690	n.845C>T	non_coding_transcript_exon_variant	0.18	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin
rrs	1472692	n.847T>C	non_coding_transcript_exon_variant	0.77	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472707	n.862A>T	non_coding_transcript_exon_variant	0.19	kanamycin
					capreomycin
					streptomycin
					amikacin
rrs	1472714	n.869A>G	non_coding_transcript_exon_variant	0.78	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin	Uncertain significance
					amikacin	Uncertain significance
rrs	1472755	n.910G>A	non_coding_transcript_exon_variant	0.47	kanamycin	Uncertain significance
					capreomycin	Uncertain significance
					streptomycin
					amikacin	Uncertain significance
rrl	1476194	n.2537A>G	non_coding_transcript_exon_variant	0.27	capreomycin	Not assoc w R
rrl	1476194	n.2537A>G	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.23	capreomycin	Not assoc w R
rrl	1476200	n.2543A>T	non_coding_transcript_exon_variant	0.23	linezolid	Uncertain significance
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.28	capreomycin	Uncertain significance
rrl	1476214	n.2557G>T	non_coding_transcript_exon_variant	0.28	linezolid	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.29	capreomycin	Uncertain significance
rrl	1476215	n.2558C>T	non_coding_transcript_exon_variant	0.29	linezolid	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.43	capreomycin	Uncertain significance
rrl	1476224	n.2567A>G	non_coding_transcript_exon_variant	0.43	linezolid	Uncertain significance
rrl	1476245	n.2588C>T	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476245	n.2588C>T	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.38	capreomycin	Uncertain significance
rrl	1476252	n.2595T>G	non_coding_transcript_exon_variant	0.38	linezolid	Uncertain significance
rrl	1476253	n.2596A>G	non_coding_transcript_exon_variant	0.29	capreomycin
rrl	1476253	n.2596A>G	non_coding_transcript_exon_variant	0.29	linezolid
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.33	capreomycin	Uncertain significance
rrl	1476256	n.2599A>G	non_coding_transcript_exon_variant	0.33	linezolid	Uncertain significance
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.3	capreomycin	Not assoc w R
rrl	1476260	n.2603A>G	non_coding_transcript_exon_variant	0.3	linezolid	Uncertain significance
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.32	capreomycin	Uncertain significance
rrl	1476281	n.2624T>C	non_coding_transcript_exon_variant	0.32	linezolid	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476294	n.2637A>G	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.3	capreomycin	Uncertain significance
rrl	1476296	n.2639C>T	non_coding_transcript_exon_variant	0.3	linezolid	Uncertain significance
rrl	1476301	n.2644A>T	non_coding_transcript_exon_variant	0.27	capreomycin	Uncertain significance
rrl	1476301	n.2644A>T	non_coding_transcript_exon_variant	0.27	linezolid	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.31	capreomycin	Uncertain significance
rrl	1476312	n.2655T>C	non_coding_transcript_exon_variant	0.31	linezolid	Uncertain significance
tlyA	1917972	c.33A>G	synonymous_variant	1.0	capreomycin	Not assoc w R
ahpC	2726468	c.276G>A	synonymous_variant	1.0	isoniazid	Not assoc w R - Interim
embB	4247646	p.Glu378Ala	missense_variant	0.97	ethambutol	Not assoc w R
gid	4407588	c.615A>G	synonymous_variant	1.0	streptomycin	Not assoc w R
gid	4407873	c.330G>T	synonymous_variant	0.96	streptomycin	Not assoc w R

Drug	Resistance	Supporting mutations	WHO confidence	Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin	rrs	n.799C>T	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