TB-Profiler result

Run: ERR12015085
Summary

Run ID: ERR12015085

Sample name:

Date: 2024-10-05T03:58:39.332715

Number of reads: 412363

Percentage reads mapped: 99.04

Median coverage: 14.0

Strain: lineage4.8

Spoligotype:

Drug-resistance: Other

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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 rrs n.462C>T Uncertain significance Mutation from literature
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
rrs 1472307 n.462C>T non_coding_transcript_exon_variant 0.3 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
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
rpoB 761057 c.1251G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoB 761084 c.1278C>G synonymous_variant 0.33 rifampicin
rpoB 761999 c.2193G>C synonymous_variant 0.4 rifampicin
rpoB 762014 c.2208C>T synonymous_variant 0.42 rifampicin
rpoB 762017 c.2211A>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoB 762047 c.2241G>A synonymous_variant 0.52 rifampicin Not assoc w R - Interim
rpoB 762053 c.2247T>C synonymous_variant 0.62 rifampicin Not assoc w R - Interim
rpoB 762062 c.2256T>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoB 762065 c.2259T>C synonymous_variant 0.6 rifampicin Not assoc w R - Interim
rpoB 762074 c.2268C>G synonymous_variant 0.57 rifampicin
rpoB 762083 c.2277T>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoB 762086 c.2280G>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoB 762101 c.2295C>G synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoB 762114 p.Ile770Val missense_variant 0.52 rifampicin Uncertain significance
rpoB 762131 c.2325C>G synonymous_variant 0.5 rifampicin
rpoB 762143 c.2337T>C synonymous_variant 0.5 rifampicin
rpoB 762149 c.2343G>C synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 762185 c.2379G>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoB 762221 c.2415G>A synonymous_variant 0.45 rifampicin
rpoB 762233 c.2427G>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoB 762254 c.2448T>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoB 762257 c.2451C>G synonymous_variant 0.39 rifampicin
rpoB 762284 c.2478G>T synonymous_variant 0.31 rifampicin
rpoB 762293 c.2487T>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762296 c.2490G>C synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762317 c.2511A>G synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 762362 p.Glu852Asp missense_variant 0.23 rifampicin
rpoC 763486 c.117T>G synonymous_variant 0.31 rifampicin
rpoC 763528 c.159G>A synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763573 c.204G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763576 c.207C>G synonymous_variant 0.29 rifampicin
rpoC 763594 c.225C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763600 c.231C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763603 c.234C>T synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763636 c.267T>C synonymous_variant 0.33 rifampicin
rpoC 763660 c.291T>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 763675 c.306C>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764815 c.1446A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 765508 c.2139C>G synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoC 765517 c.2148C>G synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 765529 c.2160C>T synonymous_variant 0.39 rifampicin
rpoC 765541 c.2172C>G synonymous_variant 0.39 rifampicin
rpoC 765550 c.2181C>T synonymous_variant 0.37 rifampicin
rpoC 765553 c.2184C>T synonymous_variant 0.37 rifampicin Not assoc w R - Interim
rpoC 765556 c.2187G>C synonymous_variant 0.37 rifampicin
rpoC 765559 c.2190G>C synonymous_variant 0.37 rifampicin
rpoC 765574 c.2205C>T synonymous_variant 0.39 rifampicin
rpoC 765592 c.2223C>T synonymous_variant 0.4 rifampicin
rpoC 765631 p.Asp754Glu missense_variant 0.5 rifampicin
rpoC 765700 c.2331T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 765734 c.2365T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 765772 c.2403C>G synonymous_variant 0.32 rifampicin
rpoC 766426 c.3057C>T synonymous_variant 0.5 rifampicin
rpoC 766447 c.3078T>C synonymous_variant 0.55 rifampicin
rpoC 766456 c.3087C>T synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 766459 c.3090G>T synonymous_variant 0.45 rifampicin
rpoC 766480 c.3111C>A synonymous_variant 0.61 rifampicin
rpoC 766483 c.3114G>C synonymous_variant 0.72 rifampicin
rpoC 766501 c.3132G>C synonymous_variant 0.67 rifampicin
rpoC 766522 c.3153C>G synonymous_variant 0.75 rifampicin
rpoC 766528 c.3159T>C synonymous_variant 0.76 rifampicin
rpoC 766531 c.3162G>C synonymous_variant 0.76 rifampicin
rpoC 766534 c.3165C>G synonymous_variant 0.71 rifampicin
rpoC 766549 c.3180G>C synonymous_variant 0.67 rifampicin
rpoC 766573 c.3204T>C synonymous_variant 0.68 rifampicin
rpoC 766582 c.3213C>G synonymous_variant 0.65 rifampicin
rpoC 766583 p.Gly1072Ser missense_variant 0.65 rifampicin
rpoC 766591 c.3222A>G synonymous_variant 0.65 rifampicin
rpoC 766594 c.3225G>C synonymous_variant 0.62 rifampicin
rpoC 766597 c.3228C>G synonymous_variant 0.57 rifampicin Not assoc w R - Interim
rpoC 766607 p.Ile1080Leu missense_variant 0.5 rifampicin
rpoC 766630 c.3261G>T synonymous_variant 0.48 rifampicin
rpoC 766657 c.3288A>G synonymous_variant 0.52 rifampicin
rpoC 766660 c.3291G>C synonymous_variant 0.52 rifampicin
rpoC 766666 c.3297C>T synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 766672 c.3303T>C synonymous_variant 0.48 rifampicin
rpoC 766690 c.3321G>C synonymous_variant 0.42 rifampicin
rpoC 766693 c.3324C>T synonymous_variant 0.44 rifampicin
rpoC 766711 c.3342C>T synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 766726 c.3357T>C synonymous_variant 0.57 rifampicin
rpoC 766738 c.3369G>C synonymous_variant 0.54 rifampicin
rpoC 766765 c.3396A>C synonymous_variant 0.56 rifampicin Not assoc w R - Interim
rpoC 766774 c.3405T>C synonymous_variant 0.59 rifampicin
rpoC 766801 c.3432C>A synonymous_variant 0.54 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 766807 c.3438T>C synonymous_variant 0.54 rifampicin Not assoc w R - Interim
rpoC 766861 c.3492G>C synonymous_variant 0.48 rifampicin Not assoc w R - Interim
rpoC 766864 c.3495G>C synonymous_variant 0.48 rifampicin
rpoC 766894 c.3525T>C synonymous_variant 0.45 rifampicin
rpoC 766895 c.3526T>C synonymous_variant 0.45 rifampicin
rpoC 766900 c.3531T>C synonymous_variant 0.39 rifampicin
rpoC 766915 c.3546C>T synonymous_variant 0.39 rifampicin
rpoC 766921 c.3552G>C synonymous_variant 0.37 rifampicin
rpoC 766924 p.Glu1185Asp missense_variant 0.37 rifampicin
rpoC 766933 c.3564A>G synonymous_variant 0.44 rifampicin
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
rpsL 781808 c.249C>T synonymous_variant 0.29 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.37 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.38 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.38 streptomycin
rpsL 781841 c.282C>G synonymous_variant 0.45 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.44 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.44 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.44 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.5 streptomycin
rpsL 781898 c.339A>T synonymous_variant 0.52 streptomycin
rpsL 781916 c.357T>C synonymous_variant 0.5 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.41 streptomycin Uncertain significance
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.24 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.4 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.4 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.39 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.4 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.21 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin
amikacin Uncertain significance
rrs 1473123 n.1278delAinsTT non_coding_transcript_exon_variant 0.16 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.19 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.82 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.16 kanamycin Uncertain significance
capreomycin Uncertain significance
streptomycin Uncertain significance
amikacin Uncertain significance
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1473839 n.182G>T non_coding_transcript_exon_variant 0.21 capreomycin
linezolid
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.13 capreomycin
linezolid
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid 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 1474140 n.483C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474282 n.625G>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474288 n.632_634delCTT non_coding_transcript_exon_variant 0.19 capreomycin
linezolid
rrl 1474294 n.638_649delCTCTCCGGAGGA non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.22 capreomycin
linezolid
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.34 capreomycin Uncertain significance
linezolid
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474376 n.719T>C non_coding_transcript_exon_variant 0.39 capreomycin
linezolid
rrl 1474409 n.756_766delACCCACACGCG non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rrl 1474427 n.770A>C non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474429 n.772G>C non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474431 n.774_775delGCinsTTTGGG non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474435 n.780_783delGAAT non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.46 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.38 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.36 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.36 capreomycin
linezolid
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.37 capreomycin Uncertain significance
linezolid
rrl 1474904 n.1247G>A non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.31 capreomycin
linezolid
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475267 n.1610G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475369 n.1712G>C non_coding_transcript_exon_variant 0.14 capreomycin
linezolid
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.15 capreomycin Uncertain significance
linezolid
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.12 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.16 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid Uncertain significance
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.15 capreomycin
linezolid
rrl 1475758 n.2104delC non_coding_transcript_exon_variant 0.32 capreomycin
linezolid
rrl 1475765 n.2111delG non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.27 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.17 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476689 n.3032A>T non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476690 n.3033C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid
rrl 1476693 n.3036G>A non_coding_transcript_exon_variant 0.18 capreomycin
linezolid
rrl 1476695 n.3038T>A non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1476716 n.3059A>C non_coding_transcript_exon_variant 0.14 capreomycin Uncertain significance
linezolid
rpsA 1833589 c.48A>T synonymous_variant 0.25 pyrazinamide
rpsA 1833667 c.126C>G synonymous_variant 0.18 pyrazinamide
rpsA 1833724 c.183C>G synonymous_variant 0.23 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.24 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.26 pyrazinamide
rpsA 1833838 c.297G>C synonymous_variant 0.33 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.33 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.42 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.38 pyrazinamide
rpsA 1833874 c.333T>C synonymous_variant 0.28 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.29 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.21 pyrazinamide
rpsA 1833971 c.430C>T synonymous_variant 0.29 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.29 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.3 pyrazinamide
rpsA 1834012 c.471G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.21 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.34 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.32 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834261 c.720A>G synonymous_variant 0.27 pyrazinamide Not assoc w R - Interim
rpsA 1834264 c.723G>C synonymous_variant 0.27 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.39 pyrazinamide Not assoc w R - Interim
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
PPE35 2170048 p.Leu189Val missense_variant 0.24 pyrazinamide
PPE35 2170053 p.Thr187Ser missense_variant 0.21 pyrazinamide
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
alr 3840764 c.657G>C synonymous_variant 1.0 cycloserine
rpoA 3877656 c.852T>C synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.35 rifampicin
rpoA 3877677 p.Ala277Ser missense_variant 0.38 rifampicin
rpoA 3877680 c.828G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877686 c.822A>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877692 c.816G>C synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877704 c.804G>C synonymous_variant 0.32 rifampicin
rpoA 3877737 c.771G>C synonymous_variant 0.32 rifampicin
clpC1 4038530 p.Glu725Asp missense_variant 0.37 pyrazinamide
clpC1 4038587 c.2118C>T synonymous_variant 0.28 pyrazinamide
clpC1 4038596 c.2109A>G synonymous_variant 0.44 pyrazinamide
clpC1 4038602 c.2103G>C synonymous_variant 0.39 pyrazinamide
clpC1 4038623 c.2082A>G synonymous_variant 0.38 pyrazinamide
clpC1 4038640 p.Asp689Asn missense_variant 0.42 pyrazinamide
clpC1 4038653 c.2052C>T synonymous_variant 0.42 pyrazinamide
clpC1 4038656 p.Lys683Gln missense_variant 0.35 pyrazinamide
clpC1 4038661 p.Ser682Thr missense_variant 0.44 pyrazinamide
clpC1 4038662 c.2043T>C synonymous_variant 0.44 pyrazinamide
clpC1 4038671 c.2034T>C synonymous_variant 0.51 pyrazinamide
clpC1 4038683 c.2022T>C synonymous_variant 0.49 pyrazinamide Not assoc w R - Interim
clpC1 4038695 c.2010C>G synonymous_variant 0.55 pyrazinamide
clpC1 4038701 c.2004G>C synonymous_variant 0.52 pyrazinamide
clpC1 4038704 c.2001T>C synonymous_variant 0.52 pyrazinamide
clpC1 4038707 c.1998C>G synonymous_variant 0.52 pyrazinamide
clpC1 4038710 c.1995G>C synonymous_variant 0.52 pyrazinamide
clpC1 4038713 c.1992T>C synonymous_variant 0.52 pyrazinamide
clpC1 4038740 c.1965G>C synonymous_variant 0.55 pyrazinamide
clpC1 4038755 c.1950G>T synonymous_variant 0.62 pyrazinamide
clpC1 4038773 c.1932T>C synonymous_variant 0.64 pyrazinamide
clpC1 4038782 c.1923G>C synonymous_variant 0.63 pyrazinamide
clpC1 4038790 c.1915C>T synonymous_variant 0.63 pyrazinamide Not assoc w R - Interim
clpC1 4038812 c.1893T>C synonymous_variant 0.62 pyrazinamide
clpC1 4038815 c.1890G>C synonymous_variant 0.57 pyrazinamide
clpC1 4038863 c.1842G>C synonymous_variant 0.57 pyrazinamide
clpC1 4038878 c.1827A>G synonymous_variant 0.63 pyrazinamide Not assoc w R - Interim
clpC1 4038908 c.1797C>G synonymous_variant 0.6 pyrazinamide
clpC1 4038914 c.1791G>C synonymous_variant 0.6 pyrazinamide
clpC1 4038923 c.1780_1782delCTAinsTTG synonymous_variant 0.6 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.56 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.56 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.54 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.54 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.44 pyrazinamide
clpC1 4038997 c.1708T>C synonymous_variant 0.44 pyrazinamide Not assoc w R - Interim
clpC1 4039022 c.1683A>G synonymous_variant 0.46 pyrazinamide
clpC1 4039037 c.1668T>C synonymous_variant 0.32 pyrazinamide
clpC1 4039064 c.1641C>T synonymous_variant 0.29 pyrazinamide
panD 4044017 p.Ala89Thr missense_variant 1.0 pyrazinamide
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embA 4245578 c.2346G>A synonymous_variant 1.0 ethambutol Not assoc w R - Interim
ethA 4328338 c.-865G>A upstream_gene_variant 1.0 ethionamide
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R