TB-Profiler result

Run: ERR9786597
Summary

Run ID: ERR9786597

Sample name:

Date: 2024-04-15T21:52:49.781708

Number of reads: 4028381

Percentage reads mapped: 84.49

Median coverage: 179.0

Strain: lineage4.6.2.2

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.6 Euro-American None 1.0
lineage4.6.2 Euro-American RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) RD726 1.0
lineage4 Euro-American None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
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 fbiC c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN Assoc w R - Interim
c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT Assoc w R - Interim
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0 delamanid Assoc w R - Interim
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.28 delamanid Assoc w R - Interim
pretomanid Assoc w R - Interim Confers DLM-PMD cross-resistance
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 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7565 c.264C>T synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7569 p.Ala90Ser missense_variant 0.13 levofloxacin
moxifloxacin
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
rpoB 760457 c.651C>T synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 760463 c.657C>T synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 760611 c.805T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760646 c.840C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760655 c.849A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 760661 c.855A>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760670 c.864G>C synonymous_variant 0.13 rifampicin
rpoB 760674 c.868T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 760683 c.877T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 761217 p.Pro471Ser missense_variant 0.12 rifampicin
rpoB 762167 c.2361T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 762233 c.2427G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762245 c.2439G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762284 c.2478G>T synonymous_variant 0.13 rifampicin
rpoC 763570 c.201G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763594 c.225C>T synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763615 c.246G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763618 c.249C>T synonymous_variant 0.13 rifampicin
rpoC 763633 c.264T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>A synonymous_variant 0.16 rifampicin
rpoC 763675 c.306C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763702 c.333C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763709 c.340C>T synonymous_variant 0.17 rifampicin
rpoC 763714 c.345G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 763723 c.354G>C synonymous_variant 0.18 rifampicin
rpoC 763732 c.363C>T synonymous_variant 0.2 rifampicin
rpoC 763741 c.372C>T synonymous_variant 0.18 rifampicin
rpoC 763747 c.378G>A synonymous_variant 0.19 rifampicin
rpoC 763765 c.396T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763792 p.Glu141Asp missense_variant 0.16 rifampicin
rpoC 763807 c.438T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763813 c.444C>G synonymous_variant 0.17 rifampicin
rpoC 763831 c.462A>G synonymous_variant 0.16 rifampicin
rpoC 763837 c.468G>C synonymous_variant 0.16 rifampicin
rpoC 763840 c.471G>C synonymous_variant 0.16 rifampicin
rpoC 763858 c.489A>G synonymous_variant 0.13 rifampicin
rpoC 763861 c.492C>T synonymous_variant 0.13 rifampicin
rpoC 763872 p.Gly168Ala missense_variant 0.14 rifampicin
rpoC 763876 p.Glu169Asp missense_variant 0.13 rifampicin
rpoC 763879 c.510A>G synonymous_variant 0.12 rifampicin
rpoC 763882 c.513G>A synonymous_variant 0.12 rifampicin
rpoC 763891 c.522G>C synonymous_variant 0.15 rifampicin
rpoC 763894 c.525A>G synonymous_variant 0.15 rifampicin
rpoC 763900 c.531G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763921 c.552G>C synonymous_variant 0.13 rifampicin
rpoC 763924 c.555G>A synonymous_variant 0.13 rifampicin
rpoC 763930 c.561G>A synonymous_variant 0.13 rifampicin
rpoC 763933 c.564C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764485 c.1116G>C synonymous_variant 0.13 rifampicin
rpoC 764491 c.1122G>T synonymous_variant 0.13 rifampicin
rpoC 764500 c.1131C>G synonymous_variant 0.13 rifampicin
rpoC 764521 c.1152T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764524 c.1155C>T synonymous_variant 0.13 rifampicin
rpoC 764527 c.1158C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764530 c.1161C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764539 c.1170C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764605 c.1236G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764611 c.1242G>T synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764623 c.1254C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764626 c.1257C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764632 c.1263T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764650 c.1281G>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764686 c.1317C>T synonymous_variant 0.13 rifampicin
rpoC 764701 c.1332C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764707 c.1338G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764713 c.1344G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764716 c.1347G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764746 c.1377G>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764752 c.1383G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764758 c.1389C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 764803 c.1434C>T synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 764809 c.1440C>T synonymous_variant 0.17 rifampicin Not assoc w R
rpoC 764815 c.1446A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764824 c.1455T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764827 c.1458G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 764851 c.1482C>T synonymous_variant 0.14 rifampicin
rpoC 764858 c.1489T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764869 c.1500C>T synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 764878 c.1509C>G synonymous_variant 0.12 rifampicin
rpoC 764948 c.1579T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
mmpL5 778298 c.183G>A synonymous_variant 1.0 clofazimine Not assoc w R - Interim
bedaquiline Not assoc w R - Interim
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rpsL 781929 p.Gly124Ser missense_variant 0.13 streptomycin Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.16 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.15 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.17 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.17 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.15 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.14 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.14 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472846 n.1001C>A non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.13 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.13 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.13 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472861 n.1016G>T non_coding_transcript_exon_variant 0.13 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.24 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.25 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.22 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.22 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTC non_coding_transcript_exon_variant 0.2 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.15 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473788 n.131A>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473807 n.150T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474629 n.972G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474639 n.982G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474710 n.1053T>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474711 n.1054G>C non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474712 n.1055G>A non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475531 n.1874C>T non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476105 n.2448G>A non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476106 n.2449A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.23 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.23 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.14 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.13 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1834240 c.699T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834252 c.711C>G synonymous_variant 0.13 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834279 c.738C>T synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
rpsA 1834297 c.756C>T synonymous_variant 0.17 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.17 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834345 c.804C>T synonymous_variant 0.16 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
rpsA 1834361 c.820T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
rpsA 1834396 c.855G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834423 c.882G>T synonymous_variant 0.14 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.12 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.12 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.16 pyrazinamide
rpsA 1834513 c.972C>G synonymous_variant 0.15 pyrazinamide
rpsA 1834520 p.Ala327Ser missense_variant 0.13 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834606 c.1065C>T synonymous_variant 0.13 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834619 c.1078T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834622 c.1081_1083delTCGinsAC frameshift_variant&missense_variant 0.13 pyrazinamide Uncertain significance
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 0.99 capreomycin Not assoc w R
bacA 2063187 c.1542C>T synonymous_variant 1.0 streptomycin Not assoc w R - Interim
kanamycin Not assoc w R
capreomycin Not assoc w R - Interim
amikacin Not assoc w R - Interim
katG 2155389 c.723C>G synonymous_variant 1.0 isoniazid Not assoc w R
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0 clofazimine Uncertain significance
bedaquiline Uncertain significance
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
Rv2680 2996208 p.Ala35Asp missense_variant 1.0 capreomycin Uncertain significance
thyX 3067474 p.Pro158Ala missense_variant 1.0 para-aminosalicylic_acid
Rv3083 3448567 p.His22Asp missense_variant 1.0 ethionamide Uncertain significance
Rv3236c 3612571 c.546C>T synonymous_variant 1.0 pyrazinamide Not assoc w R
lpqB 3624739 p.Ala58Ser missense_variant 0.99 bedaquiline Uncertain significance
rifampicin Uncertain significance
rpoA 3878187 c.321C>A synonymous_variant 0.14 rifampicin
rpoA 3878193 c.315T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878197 p.Glu104Ala missense_variant 0.14 rifampicin Uncertain significance
rpoA 3878205 c.303T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878238 c.270C>T synonymous_variant 0.14 rifampicin
rpoA 3878244 c.264G>A synonymous_variant 0.14 rifampicin
rpoA 3878247 c.261G>C synonymous_variant 0.14 rifampicin
rpoA 3878256 c.252G>C synonymous_variant 0.14 rifampicin
rpoA 3878264 p.Ser82Gly missense_variant 0.14 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878283 p.Glu75Asp missense_variant 0.13 rifampicin Uncertain significance
rpoA 3878292 c.216T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878301 c.207C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878331 c.177A>G synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoA 3878337 c.171T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.14 pyrazinamide
clpC1 4039046 c.1659C>T synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4039064 c.1641C>T synonymous_variant 0.15 pyrazinamide
clpC1 4039067 c.1638G>C synonymous_variant 0.15 pyrazinamide
clpC1 4039079 c.1626C>G synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
clpC1 4039091 c.1614G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039097 c.1608G>T synonymous_variant 0.13 pyrazinamide
clpC1 4039100 c.1605C>T synonymous_variant 0.12 pyrazinamide Not assoc w R - Interim
clpC1 4039103 c.1602T>C synonymous_variant 0.12 pyrazinamide
clpC1 4039106 c.1599G>C synonymous_variant 0.12 pyrazinamide
clpC1 4039313 c.1392C>G synonymous_variant 0.13 pyrazinamide
clpC1 4039320 p.Ala462Gly missense_variant 0.13 pyrazinamide
clpC1 4039322 c.1383T>C synonymous_variant 0.13 pyrazinamide
clpC1 4039556 c.1149G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039559 c.1146C>G synonymous_variant 0.14 pyrazinamide
clpC1 4039570 p.Met379Leu missense_variant 0.13 pyrazinamide Uncertain significance
clpC1 4039574 p.Ala377Gly missense_variant 0.13 pyrazinamide
clpC1 4039577 c.1128T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4039589 c.1116G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039592 c.1113G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039610 c.1095G>C synonymous_variant 0.15 pyrazinamide
clpC1 4039616 c.1089G>C synonymous_variant 0.16 pyrazinamide
clpC1 4039622 c.1083C>T synonymous_variant 0.16 pyrazinamide
clpC1 4039649 c.1056G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039652 c.1053G>C synonymous_variant 0.14 pyrazinamide
clpC1 4039670 c.1035G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039682 c.1023C>G synonymous_variant 0.14 pyrazinamide
clpC1 4039694 c.1011G>C synonymous_variant 0.15 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.13 pyrazinamide
embC 4242550 c.2688C>G synonymous_variant 1.0 ethambutol Not assoc w R
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4245745 p.Pro838Leu missense_variant 1.0 ethambutol Uncertain significance
aftB 4267272 p.Lys522Arg missense_variant 1.0 ethambutol Not assoc w R
ethA 4326739 c.735C>G synonymous_variant 1.0 ethionamide Not assoc w R - Interim
ethR 4328004 c.456G>A synonymous_variant 1.0 ethionamide Not assoc w R - Interim
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338673 c.-152G>A upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin