TB-Profiler result

Run: SRR1915481
Summary

Run ID: SRR1915481

Sample name:

Date: 2024-10-04T02:30:22.663905

Number of reads: 2747769

Percentage reads mapped: 92.52

Median coverage: 28.0

Strain: La1.2.BCG;lineage4.9

Spoligotype:

Drug-resistance: Other

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
La1.2.BCG M.bovis None 1.0
lineage4.9 Euro-American (H37Rv-like) None 0.18
La1.2 M.bovis None 0.39
La1 M.bovis None 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 pncA p.His57Asp Assoc w R
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide Assoc w R
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 467 p.His156Arg missense_variant 1.0 isoniazid Not assoc w R
gyrB 5752 c.513G>A synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6406 c.1167C>T synonymous_variant 0.98 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrB 6446 p.Ala403Ser missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Uncertain significance
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 8285 c.984C>T synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8624 c.1323G>T synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8741 c.1440C>T synonymous_variant 1.0 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9143 c.1842T>C synonymous_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
Rv0010c 13197 p.Thr121Ser missense_variant 1.0 isoniazid Not assoc w R
Rv0010c 13460 c.99T>C synonymous_variant 1.0 isoniazid Not assoc w R
fgd1 491742 c.960T>C synonymous_variant 1.0 pretomanid
delamanid Not assoc w R - Interim
clofazimine Not assoc w R
rpoB 762857 c.3051C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 762879 p.Met1025Leu missense_variant 0.17 rifampicin Uncertain significance
rpoB 762899 c.3093G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762959 c.3153G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoC 762983 c.-387C>T upstream_gene_variant 0.14 rifampicin
rpoC 762989 c.-381G>C upstream_gene_variant 0.13 rifampicin
rpoB 762995 c.3189G>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 763031 c.3225T>C synonymous_variant 0.89 rifampicin Not assoc w R
rpoB 763053 c.3247T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoB 763070 c.3264T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763076 c.-294C>G upstream_gene_variant 0.13 rifampicin
rpoC 763079 c.-291C>G upstream_gene_variant 0.14 rifampicin
rpoB 763115 c.3309T>C synonymous_variant 0.12 rifampicin Not assoc w R - Interim
rpoB 763166 c.3360A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763169 c.-201A>G upstream_gene_variant 0.13 rifampicin
rpoC 763468 c.99G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 763492 c.123G>C synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoC 763528 c.159G>A synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763546 c.177A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>T synonymous_variant 0.19 rifampicin
rpoC 763573 c.204G>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 763575 p.Arg69Pro missense_variant 0.79 rifampicin Not assoc w R
rpoC 763594 c.225C>T synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 763606 c.237C>T synonymous_variant 0.2 rifampicin
rpoC 763633 c.264T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 763921 c.552G>C synonymous_variant 0.13 rifampicin
rpoC 763933 c.564C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 763940 p.Ala191Ser missense_variant 0.13 rifampicin Uncertain significance
rpoC 763945 c.576T>C synonymous_variant 0.15 rifampicin
rpoC 764044 c.675T>C synonymous_variant 0.13 rifampicin
rpoC 764131 c.762T>C synonymous_variant 0.13 rifampicin
rpoC 764215 c.846A>C synonymous_variant 0.12 rifampicin
rpoC 764227 c.858G>C synonymous_variant 0.16 rifampicin
rpoC 764239 c.870T>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764242 c.873C>T synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764245 c.876C>G synonymous_variant 0.15 rifampicin
rpoC 764254 c.885G>C synonymous_variant 0.13 rifampicin
rpoC 764266 c.897T>C synonymous_variant 0.14 rifampicin
rpoC 764272 c.903G>C synonymous_variant 0.14 rifampicin
rpoC 764278 c.909A>G synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 764296 c.927G>C synonymous_variant 0.13 rifampicin
rpoC 764435 c.1066_1068delAGGinsCGA synonymous_variant 0.12 rifampicin
rpoC 764446 c.1077T>C synonymous_variant 0.13 rifampicin
rpoC 764449 c.1080G>C synonymous_variant 0.13 rifampicin
rpoC 765404 p.Leu679Lys missense_variant 0.13 rifampicin
rpoC 765407 p.Gly680Ser missense_variant 0.12 rifampicin
rpoC 765425 p.Lys686Glu missense_variant 0.14 rifampicin
rpoC 765445 c.2076G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoC 765452 p.Ala695Arg missense_variant 0.14 rifampicin
rpoC 765478 c.2109T>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoC 765480 p.Tyr704Phe missense_variant 0.2 rifampicin Uncertain significance
rpoC 765496 c.2127C>G synonymous_variant 0.18 rifampicin
rpoC 765499 c.2130C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765875 p.Val836Ile missense_variant 0.13 rifampicin Uncertain significance
rpoC 765886 c.2517C>G synonymous_variant 0.13 rifampicin
rpoC 765904 c.2535C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765937 c.2568T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765946 c.2577C>T synonymous_variant 0.13 rifampicin
rpoC 765947 c.2578T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765952 c.2583G>C synonymous_variant 0.12 rifampicin
rpoC 765961 c.2592G>T synonymous_variant 0.14 rifampicin
rpoC 765962 c.2593_2595delTTGinsCTT synonymous_variant 0.14 rifampicin
rpoC 765979 c.2610C>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
mmpL5 775639 p.Ile948Val missense_variant 0.99 bedaquiline Not assoc w R - Interim
clofazimine Not assoc w R
mmpL5 776100 p.Thr794Ile 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 781568 c.9C>T synonymous_variant 0.94 streptomycin Not assoc w R
rpsL 781609 p.Ser17Thr missense_variant 0.12 streptomycin
rpsL 781628 c.69T>C synonymous_variant 0.12 streptomycin Not assoc w R - Interim
rpsL 781652 c.93T>C synonymous_variant 0.14 streptomycin
rpsL 781655 c.96T>C synonymous_variant 0.13 streptomycin
rpsL 781658 c.99A>G synonymous_variant 0.13 streptomycin
rpsL 781664 c.105C>G synonymous_variant 0.12 streptomycin
rpsL 781706 c.147T>C synonymous_variant 0.12 streptomycin
rpsL 781715 c.156T>C synonymous_variant 0.13 streptomycin
rpsL 781718 c.159C>G synonymous_variant 0.13 streptomycin
rpsL 781733 c.174G>C synonymous_variant 0.12 streptomycin
rpsL 781808 c.249C>T synonymous_variant 0.16 streptomycin
rpsL 781814 c.255C>T synonymous_variant 0.14 streptomycin
rpsL 781817 c.258G>T synonymous_variant 0.15 streptomycin
rpsL 781832 c.273T>C synonymous_variant 0.15 streptomycin
rpsL 781838 c.279G>C synonymous_variant 0.17 streptomycin
rpsL 781841 c.282C>T synonymous_variant 0.18 streptomycin
rpsL 781865 c.306G>C synonymous_variant 0.22 streptomycin
rpsL 781868 c.309T>C synonymous_variant 0.22 streptomycin
rpsL 781871 c.312G>C synonymous_variant 0.25 streptomycin
rpsL 781880 c.321C>G synonymous_variant 0.26 streptomycin
rpsL 781892 c.333A>G synonymous_variant 0.27 streptomycin
rpsL 781898 c.339A>C synonymous_variant 0.25 streptomycin
rpsL 781907 c.348T>C synonymous_variant 0.25 streptomycin
rpsL 781910 c.351C>T synonymous_variant 0.25 streptomycin
rpsL 781916 c.357T>G synonymous_variant 0.26 streptomycin
rpsL 781929 p.Gly124Ser missense_variant 0.2 streptomycin Uncertain significance
rpsL 781933 c.374G>A splice_region_variant&stop_retained_variant 0.18 streptomycin
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0 pretomanid
delamanid Uncertain significance
clofazimine Uncertain significance
sigE 1364961 c.549A>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 kanamycin
capreomycin
streptomycin
amikacin
rrs 1473336 n.1491T>G non_coding_transcript_exon_variant 0.33 kanamycin
capreomycin
streptomycin
amikacin
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.13 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.21 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.26 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.18 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17 capreomycin Not assoc w R
linezolid Uncertain significance
rpsA 1833537 c.-5_-1delACAATinsCCAC upstream_gene_variant 0.23 pyrazinamide
rpsA 1833547 c.6G>A synonymous_variant 0.27 pyrazinamide
rpsA 1833554 p.Thr5Ser missense_variant 0.28 pyrazinamide
rpsA 1833589 c.48A>C synonymous_variant 0.31 pyrazinamide
rpsA 1833595 c.54T>G synonymous_variant 0.29 pyrazinamide
rpsA 1833596 p.Ser19Ala missense_variant 0.29 pyrazinamide
rpsA 1833616 c.75A>C synonymous_variant 0.26 pyrazinamide
rpsA 1833619 c.78A>C synonymous_variant 0.26 pyrazinamide
rpsA 1833625 c.84A>G synonymous_variant 0.25 pyrazinamide
rpsA 1833628 c.87G>C synonymous_variant 0.24 pyrazinamide
rpsA 1833634 c.93G>A synonymous_variant 0.26 pyrazinamide
rpsA 1833658 c.117C>G synonymous_variant 0.28 pyrazinamide Not assoc w R - Interim
rpsA 1833664 c.123C>G synonymous_variant 0.28 pyrazinamide
rpsA 1833676 c.135A>G synonymous_variant 0.27 pyrazinamide
rpsA 1833679 c.138G>C synonymous_variant 0.26 pyrazinamide
rpsA 1833685 c.144G>C synonymous_variant 0.24 pyrazinamide
rpsA 1833694 c.153G>T synonymous_variant 0.2 pyrazinamide
rpsA 1833697 c.156C>G synonymous_variant 0.2 pyrazinamide
rpsA 1833709 c.168C>T synonymous_variant 0.21 pyrazinamide
rpsA 1833727 c.186G>C synonymous_variant 0.17 pyrazinamide
rpsA 1833730 c.189C>T synonymous_variant 0.17 pyrazinamide
rpsA 1833733 c.192C>T synonymous_variant 0.16 pyrazinamide
rpsA 1833734 p.Ala65Ser missense_variant 0.16 pyrazinamide
rpsA 1833739 c.198C>T synonymous_variant 0.16 pyrazinamide
rpsA 1833742 c.201A>G synonymous_variant 0.16 pyrazinamide
rpsA 1833745 c.204G>C synonymous_variant 0.19 pyrazinamide
rpsA 1833778 c.237C>T synonymous_variant 0.35 pyrazinamide
rpsA 1833781 c.240T>G synonymous_variant 0.33 pyrazinamide
rpsA 1833790 c.249T>C synonymous_variant 0.33 pyrazinamide
rpsA 1833805 c.264C>T synonymous_variant 0.35 pyrazinamide
rpsA 1833811 c.270G>C synonymous_variant 0.36 pyrazinamide
rpsA 1833829 c.288A>G synonymous_variant 0.36 pyrazinamide
rpsA 1833832 c.291G>A synonymous_variant 0.38 pyrazinamide
rpsA 1833838 c.297G>A synonymous_variant 0.36 pyrazinamide
rpsA 1833841 c.300C>G synonymous_variant 0.35 pyrazinamide
rpsA 1833847 c.306C>G synonymous_variant 0.36 pyrazinamide
rpsA 1833856 c.315A>G synonymous_variant 0.36 pyrazinamide
rpsA 1833862 c.321G>T synonymous_variant 0.37 pyrazinamide
rpsA 1833892 c.351G>A synonymous_variant 0.45 pyrazinamide
rpsA 1833894 p.Ala118Glu missense_variant 0.43 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.4 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.44 pyrazinamide
rpsA 1833970 c.429G>C synonymous_variant 0.4 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.39 pyrazinamide
rpsA 1833988 c.447C>T synonymous_variant 0.41 pyrazinamide
rpsA 1833991 c.450C>G synonymous_variant 0.43 pyrazinamide
rpsA 1834000 c.459G>C synonymous_variant 0.44 pyrazinamide
rpsA 1834009 c.468C>T synonymous_variant 0.43 pyrazinamide
rpsA 1834012 c.471G>C synonymous_variant 0.43 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.43 pyrazinamide
rpsA 1834021 c.480C>T synonymous_variant 0.41 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.39 pyrazinamide
rpsA 1834069 c.528G>C synonymous_variant 0.5 pyrazinamide
rpsA 1834096 c.555G>C synonymous_variant 0.39 pyrazinamide
rpsA 1834099 c.558C>G synonymous_variant 0.37 pyrazinamide
rpsA 1834102 c.561T>C synonymous_variant 0.36 pyrazinamide
rpsA 1834150 c.609G>C synonymous_variant 0.4 pyrazinamide
rpsA 1834153 c.612T>C synonymous_variant 0.4 pyrazinamide
rpsA 1834154 p.Asn205Gln missense_variant 0.39 pyrazinamide
rpsA 1834157 c.616T>C synonymous_variant 0.4 pyrazinamide
rpsA 1834162 c.621A>G synonymous_variant 0.38 pyrazinamide Not assoc w R - Interim
rpsA 1834165 c.624A>G synonymous_variant 0.39 pyrazinamide
rpsA 1834169 p.Thr210Ala missense_variant 0.39 pyrazinamide Uncertain significance
rpsA 1834177 c.636A>C synonymous_variant 0.4 pyrazinamide Not assoc w R - Interim
rpsA 1834213 c.672G>C synonymous_variant 0.33 pyrazinamide
rpsA 1834231 c.690T>C synonymous_variant 0.31 pyrazinamide
rpsA 1834234 c.693G>C synonymous_variant 0.31 pyrazinamide
rpsA 1834240 c.699T>C synonymous_variant 0.29 pyrazinamide
rpsA 1834249 c.708T>C synonymous_variant 0.27 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 1834294 c.753G>T synonymous_variant 0.23 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.23 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.23 pyrazinamide Not assoc w R - Interim
rpsA 1834357 c.816T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834361 c.820T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.23 pyrazinamide Not assoc w R - Interim
rpsA 1834378 c.837T>C synonymous_variant 0.22 pyrazinamide Not assoc w R - Interim
rpsA 1834387 c.846C>T synonymous_variant 0.22 pyrazinamide
rpsA 1834396 c.855G>C synonymous_variant 0.2 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.14 pyrazinamide
rpsA 1834423 c.882G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834432 c.891G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.17 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.18 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834513 c.972C>G synonymous_variant 0.21 pyrazinamide
rpsA 1834520 p.Ala327Ser missense_variant 0.22 pyrazinamide
rpsA 1834528 c.987T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834540 c.999G>C synonymous_variant 0.23 pyrazinamide
rpsA 1834543 c.1002C>G synonymous_variant 0.23 pyrazinamide
rpsA 1834546 c.1005T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834554 c.1014_1015delTG frameshift_variant 0.21 pyrazinamide Uncertain significance
rpsA 1834558 c.1017_1018insAG frameshift_variant 0.21 pyrazinamide Uncertain significance
rpsA 1834606 c.1065C>T synonymous_variant 0.21 pyrazinamide
rpsA 1834609 c.1068T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834619 c.1078T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834622 c.1081_1083delTCGinsAGC synonymous_variant 0.21 pyrazinamide
rpsA 1834633 c.1092A>G synonymous_variant 0.26 pyrazinamide
rpsA 1834639 c.1098T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834667 p.Ala376Ser missense_variant 0.23 pyrazinamide
rpsA 1834690 c.1149T>C synonymous_variant 0.28 pyrazinamide
rpsA 1834733 p.Ala398Pro missense_variant 0.25 pyrazinamide
rpsA 1834738 c.1197A>G synonymous_variant 0.24 pyrazinamide
rpsA 1834753 c.1212T>C synonymous_variant 0.22 pyrazinamide
rpsA 1834759 c.1218A>C synonymous_variant 0.22 pyrazinamide
rpsA 1834765 p.Glu408Asp missense_variant 0.22 pyrazinamide
rpsA 1834774 c.1233C>T synonymous_variant 0.18 pyrazinamide
rpsA 1834776 p.Ala412Glu missense_variant 0.16 pyrazinamide
rpsA 1834780 c.1239A>G synonymous_variant 0.16 pyrazinamide
rpsA 1834786 c.1245A>G synonymous_variant 0.15 pyrazinamide
rpsA 1834789 c.1248T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834792 c.1251G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834810 c.1269C>T synonymous_variant 0.15 pyrazinamide
rpsA 1834813 c.1272G>C synonymous_variant 0.14 pyrazinamide
rpsA 1834859 p.Ala440Thr missense_variant 0.98 pyrazinamide Uncertain significance
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
ndh 2102106 p.Gly313Arg missense_variant 1.0 isoniazid Not assoc w R - Interim
delamanid Uncertain significance
ethionamide Uncertain significance
ndh 2103173 c.-132delG upstream_gene_variant 1.0 isoniazid
delamanid
ethionamide
katG 2154724 p.Arg463Leu missense_variant 1.0 isoniazid Not assoc w R
katG 2155503 c.609C>T synonymous_variant 1.0 isoniazid Not assoc w R
katG 2156025 c.87C>A synonymous_variant 1.0 isoniazid Not assoc w R
katG 2156465 c.-354C>T upstream_gene_variant 1.0 isoniazid Not assoc w R - Interim
PPE35 2168920 p.Val565Phe missense_variant 1.0 pyrazinamide Uncertain significance
kasA 2517941 c.-174C>G upstream_gene_variant 0.22 isoniazid
kasA 2517950 c.-165C>G upstream_gene_variant 0.24 isoniazid
kasA 2517959 c.-156C>T upstream_gene_variant 0.24 isoniazid
kasA 2517962 c.-153C>G upstream_gene_variant 0.25 isoniazid
kasA 2517974 c.-141T>C upstream_gene_variant 0.15 isoniazid
kasA 2517980 c.-135C>G upstream_gene_variant 0.14 isoniazid
kasA 2517983 c.-132T>C upstream_gene_variant 0.14 isoniazid
kasA 2517989 c.-126T>G upstream_gene_variant 0.14 isoniazid
kasA 2517992 c.-123C>T upstream_gene_variant 0.14 isoniazid
kasA 2518132 c.18C>T synonymous_variant 1.0 isoniazid
Rv2477c 2782928 p.Thr372Lys missense_variant 1.0 kanamycin Uncertain significance
levofloxacin Uncertain significance
moxifloxacin Uncertain significance
streptomycin Not assoc w R
rifampicin Not assoc w R
ethambutol Uncertain significance
amikacin Uncertain significance
Rv2681 2997325 p.Ala196Val missense_variant 1.0 capreomycin Uncertain significance
ald 3086728 c.-92C>T upstream_gene_variant 1.0 cycloserine
ald 3087084 c.266delA frameshift_variant 1.0 cycloserine
lpqB 3623730 p.Ser394Leu missense_variant 0.99 rifampicin Not assoc w R
bedaquiline Uncertain significance
lpqB 3624350 c.561G>T synonymous_variant 1.0 rifampicin Not assoc w R
bedaquiline Not assoc w R - Interim
lpqB 3624486 p.Asp142Gly missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
lpqB 3624593 c.318G>A synonymous_variant 1.0 rifampicin Not assoc w R
bedaquiline Not assoc w R - Interim
lpqB 3624710 c.201G>A synonymous_variant 1.0 rifampicin Not assoc w R
bedaquiline Not assoc w R - Interim
mtrB 3625065 p.Met517Leu missense_variant 1.0 rifampicin Not assoc w R
bedaquiline Uncertain significance
rpoA 3877638 c.870T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877647 c.861C>T synonymous_variant 0.29 rifampicin
rpoA 3877656 c.852T>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3877668 c.840A>G synonymous_variant 0.29 rifampicin
rpoA 3877671 c.837C>G synonymous_variant 0.28 rifampicin
rpoA 3877677 c.831G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877680 c.828G>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877683 c.825G>C synonymous_variant 0.32 rifampicin
rpoA 3877686 c.822A>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoA 3877695 c.813C>G synonymous_variant 0.3 rifampicin Not assoc w R - Interim
rpoA 3877704 c.804G>T synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoA 3877728 c.780C>G synonymous_variant 0.32 rifampicin
rpoA 3877740 c.768G>C synonymous_variant 0.31 rifampicin
rpoA 3877743 c.765T>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoA 3877758 c.750G>C synonymous_variant 0.3 rifampicin
rpoA 3877764 c.744C>A synonymous_variant 0.29 rifampicin
rpoA 3877770 c.738A>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877776 c.732T>C synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoA 3877782 c.726T>C synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoA 3877794 c.714G>T synonymous_variant 0.23 rifampicin
rpoA 3877803 c.705G>C synonymous_variant 0.27 rifampicin
rpoA 3877816 p.Gly231His missense_variant 0.26 rifampicin
rpoA 3877818 c.690A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877823 p.Ala229Ser missense_variant 0.32 rifampicin
rpoA 3877824 p.Glu228Asp missense_variant 0.33 rifampicin
rpoA 3877828 p.Val227Ala missense_variant 0.36 rifampicin
rpoA 3877839 c.669G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoA 3878630 c.-124delC upstream_gene_variant 1.0 rifampicin Not assoc w R
clpC1 4038403 c.2302T>C synonymous_variant 1.0 pyrazinamide Not assoc w R - Interim
glpK 4138377 p.Val460Ala missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
isoniazid Not assoc w R
streptomycin Not assoc w R
rifampicin Not assoc w R
ethambutol Not assoc w R
embC 4242029 c.2167C>T synonymous_variant 1.0 ethambutol Not assoc w R - Interim
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embC 4242970 c.3108C>T synonymous_variant 1.0 ethambutol Not assoc w R
aftB 4267858 p.Ile327Val missense_variant 1.0 ethambutol Not assoc w R
ubiA 4269689 p.Val49Ile missense_variant 1.0 ethambutol Not assoc w R - Interim
gid 4407588 c.615A>G synonymous_variant 1.0 streptomycin Not assoc w R