TB-Profiler result

Run: ERR9786639
Summary

Run ID: ERR9786639

Sample name:

Date: 2024-10-04T05:39:48.949215

Number of reads: 1623198

Percentage reads mapped: 88.62

Median coverage: 77.5

Strain: lineage4.8

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.8 Euro-American (mainly T) RD219 0.99
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
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
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
dnaA 371 p.Pro124Leu missense_variant 1.0 isoniazid Not assoc w R
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7592 c.291G>C synonymous_variant 0.12 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7595 c.294C>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7607 c.306C>G synonymous_variant 0.13 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7706 c.405C>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7715 c.414G>C synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7725 c.424C>T synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7797 c.496_498delCTAinsTTG synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7802 c.501C>G synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 7814 c.513C>G synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
rpoB 761165 c.1359G>A synonymous_variant 0.13 rifampicin
rpoB 761168 c.1362C>G synonymous_variant 0.13 rifampicin
rpoB 761171 c.1365C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 761195 c.1389G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 761204 c.1398C>T synonymous_variant 0.13 rifampicin
rpoB 761207 c.1401C>T synonymous_variant 0.13 rifampicin
rpoB 761222 c.1416G>C synonymous_variant 0.13 rifampicin
rpoB 761510 c.1704T>C synonymous_variant 0.15 rifampicin
rpoB 761516 c.1710G>C synonymous_variant 0.16 rifampicin
rpoB 761537 c.1731C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762083 c.2277T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.16 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.17 rifampicin
rpoB 762134 c.2328C>T synonymous_variant 0.17 rifampicin
rpoB 762140 c.2334G>C synonymous_variant 0.17 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.17 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762158 c.2352G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762167 c.2361T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762176 c.2370T>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762212 c.2406G>C synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoB 762236 c.2430G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.12 rifampicin
rpoB 762266 c.2460T>C synonymous_variant 0.13 rifampicin
rpoB 762857 c.3051C>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762860 c.3054G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 762917 c.3111C>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762920 c.3114C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 762926 c.-444C>G upstream_gene_variant 0.17 rifampicin
rpoB 762929 c.3123G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoB 762995 c.3189G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763028 c.3222T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 763034 c.3228C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 763040 c.3234C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763050 c.-320C>T upstream_gene_variant 0.15 rifampicin
rpoB 763053 c.3247T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763058 c.-312C>G upstream_gene_variant 0.14 rifampicin
rpoC 763076 c.-294C>G upstream_gene_variant 0.13 rifampicin
rpoC 764140 c.771C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 764143 c.774G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766585 c.3216T>C synonymous_variant 0.15 rifampicin
rpoC 766607 p.Ile1080Leu missense_variant 0.17 rifampicin
rpoC 766610 p.Ser1081Pro missense_variant 0.14 rifampicin
rpoC 766618 c.3249G>T synonymous_variant 0.13 rifampicin
rpoC 766630 c.3261G>T synonymous_variant 0.13 rifampicin
rpoC 766690 c.3321G>C synonymous_variant 0.14 rifampicin
rpoC 766702 c.3333G>C synonymous_variant 0.15 rifampicin
rpoC 766708 c.3339A>G synonymous_variant 0.15 rifampicin
rpoC 766726 c.3357T>C synonymous_variant 0.15 rifampicin
rpoC 766738 c.3369G>T synonymous_variant 0.15 rifampicin
rpoC 766750 c.3381C>A synonymous_variant 0.14 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.16 rifampicin
rpoC 766775 p.Arg1136Asn missense_variant 0.16 rifampicin
rpoC 766787 p.Glu1140Gln missense_variant 0.15 rifampicin Uncertain significance
rpoC 766798 c.3429C>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 766804 c.3435A>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767002 c.3633G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 767020 c.3651C>G synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767023 c.3654C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 767041 c.3672G>C synonymous_variant 0.23 rifampicin
rpoC 767044 c.3675G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.14 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472287 n.442C>T non_coding_transcript_exon_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472292 n.447A>G non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472298 n.453G>C non_coding_transcript_exon_variant 0.13 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472311 n.466C>T non_coding_transcript_exon_variant 0.13 kanamycin
capreomycin
streptomycin Uncertain significance
amikacin
rrs 1472314 n.469A>G non_coding_transcript_exon_variant 0.13 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.13 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472327 n.482G>A non_coding_transcript_exon_variant 0.13 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.13 kanamycin
capreomycin
streptomycin Uncertain significance
amikacin
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 0.15 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.18 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472683 n.838_839insTA non_coding_transcript_exon_variant 0.24 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472848 n.1003T>G non_coding_transcript_exon_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472859 n.1014G>C non_coding_transcript_exon_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473100 n.1255G>C non_coding_transcript_exon_variant 0.22 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473109 n.1264T>G non_coding_transcript_exon_variant 0.21 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473111 n.1266A>T non_coding_transcript_exon_variant 0.22 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.25 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.2 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.17 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.14 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.17 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.15 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0 capreomycin Not assoc w R
linezolid Not assoc w R
rrl 1474083 n.426C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1474093 n.436G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474094 n.437C>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474100 n.443C>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1474110 n.453A>T non_coding_transcript_exon_variant 0.12 capreomycin
linezolid
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474452 n.795C>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.24 capreomycin
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid
rrl 1474638 n.981C>A non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.32 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid
rrl 1474708 n.1052dupG non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid
rrl 1474711 n.1054_1055insA non_coding_transcript_exon_variant 0.34 capreomycin
linezolid
rrl 1474715 n.1061delA non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475031 n.1374G>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475062 n.1405A>G non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.31 capreomycin Uncertain significance
linezolid
rrl 1475202 n.1545G>C non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475209 n.1552G>A non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475995 n.2338G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.27 capreomycin
linezolid
rrl 1476032 n.2375_2378delCTCGinsTCGC non_coding_transcript_exon_variant 0.23 capreomycin
linezolid
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476088 n.2431A>C non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.29 capreomycin
linezolid
rrl 1476103 n.2446C>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1476108 n.2451T>G non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476246 n.2589G>A non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476256 n.2599A>C non_coding_transcript_exon_variant 0.16 capreomycin
linezolid
rrl 1476262 n.2605G>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
inhA 1674416 p.Ala72Gly missense_variant 0.19 isoniazid
ethionamide
inhA 1674418 c.217_219delAGCinsTCG synonymous_variant 0.2 isoniazid
ethionamide
inhA 1674428 p.Gly76Glu missense_variant 0.2 isoniazid
ethionamide
inhA 1674435 c.234G>C synonymous_variant 0.21 isoniazid
ethionamide
inhA 1674443 p.Ala81Val missense_variant 0.21 isoniazid
ethionamide
inhA 1674450 c.249G>C synonymous_variant 0.2 isoniazid
ethionamide
inhA 1674452 p.Ala84Glu missense_variant 0.2 isoniazid
ethionamide
inhA 1674471 c.270G>C synonymous_variant 0.2 isoniazid
ethionamide
inhA 1674480 c.279T>C synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674483 c.282G>C synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674486 c.285T>C synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674489 c.288G>C synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674656 p.Ser152Thr missense_variant 0.14 isoniazid
ethionamide
inhA 1674690 c.489C>G synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674699 c.498C>T synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674702 c.501G>C synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674703 c.502T>C synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674714 c.513C>G synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674718 c.517A>C synonymous_variant 0.16 isoniazid
ethionamide
inhA 1674745 p.Tyr182Val missense_variant 0.17 isoniazid
ethionamide
inhA 1674750 c.549T>C synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674756 c.555T>G synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674765 c.564C>G synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674771 c.570C>G synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674774 c.573A>C synonymous_variant 0.2 isoniazid
ethionamide
inhA 1674777 c.576C>G synonymous_variant 0.2 isoniazid
ethionamide
inhA 1674780 c.579T>G synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674801 c.600T>C synonymous_variant 0.19 isoniazid
ethionamide
inhA 1674804 c.603G>C synonymous_variant 0.19 isoniazid
ethionamide Not assoc w R - Interim
inhA 1674810 c.609C>G synonymous_variant 0.17 isoniazid
ethionamide
inhA 1674819 c.618G>C synonymous_variant 0.18 isoniazid
ethionamide
inhA 1674825 c.624C>T synonymous_variant 0.17 isoniazid Not assoc w R - Interim
ethionamide
rpsA 1833874 c.333T>C synonymous_variant 0.13 pyrazinamide
rpsA 1833886 c.345C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833892 c.351G>A synonymous_variant 0.13 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.13 pyrazinamide
rpsA 1834051 c.510G>A synonymous_variant 0.13 pyrazinamide
rpsA 1834105 c.564C>T synonymous_variant 0.14 pyrazinamide
rpsA 1834150 c.609G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834153 c.612T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834154 p.Asn205Gln missense_variant 0.14 pyrazinamide
rpsA 1834157 c.616T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834162 c.621A>G synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834165 c.624A>G synonymous_variant 0.14 pyrazinamide
rpsA 1834169 p.Thr210Ala missense_variant 0.14 pyrazinamide Uncertain significance
rpsA 1834172 p.Ile211Val missense_variant 0.13 pyrazinamide
rpsA 1834177 c.636A>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834189 c.648G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834222 c.681T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834225 c.684C>G synonymous_variant 0.17 pyrazinamide
rpsA 1834231 c.690T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.17 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834294 c.753G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834297 c.756C>T synonymous_variant 0.14 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.13 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
rpsA 1834396 c.855G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834423 c.882G>T synonymous_variant 0.13 pyrazinamide
rpsA 1834432 c.891G>C synonymous_variant 0.12 pyrazinamide
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
Rv2680 2996288 p.Ala62Thr missense_variant 1.0 capreomycin
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0 ethionamide Uncertain significance
mtrA 3627146 c.204C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
bedaquiline
mtrB 3627149 c.-536G>C upstream_gene_variant 0.13 rifampicin
bedaquiline
mtrB 3627152 c.-539C>T upstream_gene_variant 0.13 rifampicin
bedaquiline
alr 3840764 c.657G>C synonymous_variant 1.0 cycloserine
rpoA 3877737 c.771G>C synonymous_variant 0.13 rifampicin
rpoA 3877743 c.765T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoA 3877764 c.744C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3877770 c.738A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877785 c.723C>A synonymous_variant 0.13 rifampicin
rpoA 3877803 c.705G>C synonymous_variant 0.16 rifampicin
rpoA 3877818 c.690A>G synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877856 c.652T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3877860 c.648C>T synonymous_variant 0.14 rifampicin
rpoA 3877866 c.642G>C synonymous_variant 0.12 rifampicin
rpoA 3877872 c.636C>T synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoA 3877875 c.633T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoA 3878247 c.261G>C synonymous_variant 0.13 rifampicin
rpoA 3878250 c.258C>G synonymous_variant 0.13 rifampicin
rpoA 3878264 p.Ser82Gly missense_variant 0.14 rifampicin
rpoA 3878271 c.237T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoA 3878283 p.Glu75Asp missense_variant 0.14 rifampicin Uncertain significance
rpoA 3878298 c.210A>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878304 c.204G>C synonymous_variant 0.14 rifampicin
rpoA 3878310 c.198G>C synonymous_variant 0.14 rifampicin
clpC1 4038721 c.1984C>T synonymous_variant 0.13 pyrazinamide
clpC1 4038727 p.Thr660Ser missense_variant 0.13 pyrazinamide
clpC1 4040522 c.183T>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
clpC1 4040531 c.174T>G synonymous_variant 0.13 pyrazinamide
clpC1 4040539 c.166C>T synonymous_variant 0.13 pyrazinamide
clpC1 4040540 c.165G>T synonymous_variant 0.13 pyrazinamide
clpC1 4040546 c.159G>C synonymous_variant 0.13 pyrazinamide
clpC1 4040552 c.153G>C synonymous_variant 0.13 pyrazinamide
clpC1 4040561 c.144A>G synonymous_variant 0.13 pyrazinamide
clpC1 4040573 c.132T>A synonymous_variant 0.13 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embB 4248645 p.Ala711Asp missense_variant 1.0 ethambutol
whiB6 4338427 p.Gly32Ala missense_variant 1.0 kanamycin
capreomycin
amikacin
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R