TB-Profiler result

Run: ERR11466062
Summary

Run ID: ERR11466062

Sample name:

Date: 2024-04-16T06:36:14.703549

Number of reads: 2790719

Percentage reads mapped: 98.57

Median coverage: 57.0

Strain: lineage4.9.1

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.9.1 Euro-American (H37Rv-like) None 0.98
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) 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
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
gyrB 6286 c.1047T>C synonymous_variant 0.18 levofloxacin
moxifloxacin
gyrB 6295 c.1056A>G synonymous_variant 0.19 levofloxacin
moxifloxacin
gyrB 6299 c.1060C>T synonymous_variant 0.2 levofloxacin
moxifloxacin
gyrB 6307 c.1068T>G synonymous_variant 0.24 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 6310 c.-992G>C upstream_gene_variant 0.2 levofloxacin
moxifloxacin
gyrB 6319 c.1080G>A synonymous_variant 0.18 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7394 c.93T>C synonymous_variant 0.12 levofloxacin Not assoc w R - Interim
moxifloxacin
gyrA 7397 c.96G>C synonymous_variant 0.12 levofloxacin
moxifloxacin
gyrA 7631 c.330G>C synonymous_variant 0.17 levofloxacin
moxifloxacin
gyrA 7652 c.351C>T synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 7745 c.444G>A synonymous_variant 0.25 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 7748 c.447A>G synonymous_variant 0.26 levofloxacin
moxifloxacin
gyrA 7758 p.Ile153Val missense_variant 0.32 levofloxacin Uncertain significance
moxifloxacin
gyrA 7763 c.462T>G synonymous_variant 0.33 levofloxacin
moxifloxacin
gyrA 7814 c.513C>G synonymous_variant 0.17 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8366 c.1065G>T synonymous_variant 0.13 levofloxacin
moxifloxacin
gyrA 8378 c.1077C>T synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8382 p.Leu361Met missense_variant 0.18 levofloxacin
moxifloxacin
gyrA 8903 c.1602T>C synonymous_variant 0.2 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8915 c.1614A>G synonymous_variant 0.16 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8924 c.1623C>T synonymous_variant 0.16 levofloxacin
moxifloxacin
gyrA 8930 c.1629C>T synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8933 c.1632G>A synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 8939 c.1638T>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8942 c.1641G>C synonymous_variant 0.14 levofloxacin
moxifloxacin
gyrA 8945 c.1644G>C synonymous_variant 0.15 levofloxacin
moxifloxacin
gyrA 8946 c.1645_1647delTTGinsCC frameshift_variant&missense_variant 0.15 levofloxacin
moxifloxacin
gyrA 8978 c.1677C>T synonymous_variant 0.89 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9365 p.Glu688Asp missense_variant 0.2 levofloxacin
moxifloxacin
gyrA 9377 c.2076A>G synonymous_variant 0.14 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
gyrA 9653 c.2352C>T synonymous_variant 0.15 levofloxacin Not assoc w R - Interim
moxifloxacin Not assoc w R - Interim
ccsA 620676 c.786C>T synonymous_variant 0.17 capreomycin
amikacin
kanamycin
nusG 734472 c.219T>C synonymous_variant 0.14 rifampicin
nusG 734475 c.222T>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
nusG 734502 c.249G>A synonymous_variant 0.21 rifampicin
nusG 734559 c.306T>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
nusG 734571 c.318C>G synonymous_variant 0.15 rifampicin
rpoB 760283 c.477G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 760496 c.690G>C synonymous_variant 0.12 rifampicin
rpoB 761222 c.1416G>C synonymous_variant 0.25 rifampicin
rpoB 761240 c.1434C>T synonymous_variant 0.33 rifampicin
rpoB 761249 c.1443A>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 761255 c.1449T>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoB 761258 c.1452G>A synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>C synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoB 761282 c.1476C>A synonymous_variant 0.26 rifampicin
rpoB 761300 c.1494G>A synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoB 761579 c.1773G>T synonymous_variant 0.16 rifampicin
rpoB 761675 c.1869G>C synonymous_variant 0.13 rifampicin
rpoB 761969 c.2163G>A synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761972 c.2166C>G synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoB 762212 c.2406G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 762293 c.2487T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 762338 c.2532T>C synonymous_variant 0.12 rifampicin
rpoB 762347 c.2541T>C synonymous_variant 0.16 rifampicin
rpoB 762362 p.Glu852Asp missense_variant 0.18 rifampicin
rpoB 762369 c.2563T>C synonymous_variant 0.15 rifampicin
rpoC 762374 c.-996G>C upstream_gene_variant 0.21 rifampicin
rpoC 762380 c.-990T>G upstream_gene_variant 0.15 rifampicin
rpoB 762470 c.2664G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 762917 c.3111C>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoB 762920 c.3114C>T synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoB 763136 c.3330C>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763142 c.-228C>G upstream_gene_variant 0.14 rifampicin
rpoC 763148 c.-222G>C upstream_gene_variant 0.16 rifampicin
rpoC 763169 c.-201A>G upstream_gene_variant 0.16 rifampicin
rpoC 763486 c.117T>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 763492 c.123G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 763633 c.264T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 764611 c.1242G>T synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 765370 c.2001G>C synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 765383 p.Met672Leu missense_variant 0.17 rifampicin Uncertain significance
rpoC 765562 c.2193G>C synonymous_variant 0.22 rifampicin
rpoC 765611 p.His748Ser missense_variant 0.15 rifampicin Uncertain significance
rpoC 765625 c.2256C>T synonymous_variant 0.15 rifampicin
rpoC 765628 c.2259G>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoC 765635 c.2266_2268delGTCinsCG frameshift_variant&missense_variant 0.12 rifampicin
rpoC 765640 c.2271A>G synonymous_variant 0.13 rifampicin
rpoC 765835 c.2466C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 765871 c.2502T>C synonymous_variant 0.16 rifampicin
rpoC 765875 p.Val836Ile missense_variant 0.16 rifampicin Uncertain significance
rpoC 765908 c.2539C>T synonymous_variant 0.16 rifampicin
rpoC 765937 c.2568T>C synonymous_variant 0.21 rifampicin Not assoc w R - Interim
rpoC 765946 c.2577C>A synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 766009 c.2640G>T synonymous_variant 0.31 rifampicin
rpoC 766012 c.2643C>G synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 766061 p.Val898Ile missense_variant 0.17 rifampicin
rpoC 766381 c.3012C>T synonymous_variant 0.29 rifampicin
rpoC 766384 c.3015A>G synonymous_variant 0.32 rifampicin
rpoC 766390 c.3021C>T synonymous_variant 0.39 rifampicin
rpoC 766408 c.3039C>T synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 766435 p.Glu1022Asp missense_variant 0.21 rifampicin Uncertain significance
rpoC 766456 c.3087C>G synonymous_variant 0.18 rifampicin
rpoC 766459 c.3090G>T synonymous_variant 0.18 rifampicin
rpoC 766484 c.3115_3117delGTAinsAT frameshift_variant&missense_variant 0.2 rifampicin
rpoC 766702 c.3333G>C synonymous_variant 0.12 rifampicin
rpoC 766708 c.3339A>G synonymous_variant 0.13 rifampicin
rpoC 766711 c.3342C>T synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766726 c.3357T>C synonymous_variant 0.17 rifampicin
rpoC 766738 c.3369G>T synonymous_variant 0.26 rifampicin
rpoC 766750 c.3381C>G synonymous_variant 0.16 rifampicin
rpoC 766753 c.3384C>T synonymous_variant 0.16 rifampicin
rpoC 766804 c.3435A>G synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 766843 c.3474T>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 766846 c.3477C>G synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 766996 c.3627C>T synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 767002 c.3633G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoC 767152 c.3783T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 767158 c.3789T>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoC 767167 c.3798C>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoC 767182 c.3813G>C synonymous_variant 0.24 rifampicin
rpoC 767197 c.3828G>A synonymous_variant 0.24 rifampicin Not assoc w R - Interim
rpoC 767221 c.3852C>G synonymous_variant 0.17 rifampicin Not assoc w R - Interim
rpoC 767230 c.3861G>C synonymous_variant 0.13 rifampicin Not assoc w R - Interim
rpoC 767233 c.3864T>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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rplC 800654 c.-155T>C upstream_gene_variant 0.15 linezolid
rplC 800715 c.-94A>C upstream_gene_variant 0.15 linezolid
fbiC 1303512 c.582T>G synonymous_variant 0.14 clofazimine
pretomanid
delamanid
fbiC 1303575 c.645G>C synonymous_variant 0.25 clofazimine
pretomanid
delamanid
fbiC 1303581 c.651G>C synonymous_variant 0.17 clofazimine
pretomanid
delamanid
fbiC 1304559 p.Glu543Asp missense_variant 0.12 clofazimine
pretomanid
delamanid
fbiC 1304567 p.Phe546Tyr missense_variant 0.2 clofazimine
pretomanid
delamanid
fbiC 1304580 c.1650T>C synonymous_variant 0.19 clofazimine
pretomanid
delamanid
fbiC 1304608 p.Thr560Ala missense_variant 0.12 clofazimine
pretomanid
delamanid
atpE 1461104 c.60C>T synonymous_variant 0.14 bedaquiline
atpE 1461132 p.Val30Ile missense_variant 0.14 bedaquiline
rrs 1471659 n.-187C>T upstream_gene_variant 0.99 streptomycin
kanamycin
capreomycin
amikacin
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.3 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.13 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.29 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.28 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472489 n.644A>G non_coding_transcript_exon_variant 0.23 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.18 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.68 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.84 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.85 capreomycin
linezolid
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.41 capreomycin
linezolid
rrl 1474708 n.1052dupG non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid
rrl 1474711 n.1054_1055insA non_coding_transcript_exon_variant 0.17 capreomycin
linezolid
rrl 1474715 n.1061delA non_coding_transcript_exon_variant 0.22 capreomycin Uncertain significance
linezolid
rrl 1474753 n.1096A>G non_coding_transcript_exon_variant 0.57 capreomycin Uncertain significance
linezolid
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.54 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.53 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.58 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.63 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid
rrl 1475202 n.1545G>C non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.19 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.18 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475480 n.1823A>T non_coding_transcript_exon_variant 0.24 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.28 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475544 n.1887A>T non_coding_transcript_exon_variant 0.26 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475573 n.1916G>A non_coding_transcript_exon_variant 0.27 capreomycin Uncertain significance
linezolid
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.39 capreomycin Uncertain significance
linezolid Uncertain significance
fabG1 1673941 p.Ala168Ser missense_variant 0.13 ethionamide
isoniazid
inhA 1673955 c.-247G>C upstream_gene_variant 0.14 ethionamide
isoniazid
inhA 1674507 c.306G>C synonymous_variant 0.15 ethionamide
isoniazid
inhA 1674690 c.489C>G synonymous_variant 0.23 ethionamide
isoniazid
inhA 1674702 c.501G>C synonymous_variant 0.12 ethionamide
isoniazid
inhA 1674714 c.513C>G synonymous_variant 0.14 ethionamide
isoniazid
inhA 1674718 c.517A>C synonymous_variant 0.15 ethionamide
isoniazid
inhA 1674745 p.Tyr182Val missense_variant 0.18 ethionamide
isoniazid
inhA 1674750 c.549T>A synonymous_variant 0.22 ethionamide Not assoc w R - Interim
isoniazid Not assoc w R - Interim
inhA 1674756 c.555T>A synonymous_variant 0.21 ethionamide
isoniazid
inhA 1674765 c.564C>G synonymous_variant 0.23 ethionamide
isoniazid
inhA 1674771 c.570C>G synonymous_variant 0.22 ethionamide
isoniazid
inhA 1674774 c.573A>C synonymous_variant 0.16 ethionamide
isoniazid
inhA 1674777 c.576C>G synonymous_variant 0.14 ethionamide
isoniazid
inhA 1674780 c.579T>G synonymous_variant 0.18 ethionamide
isoniazid
rpsA 1833589 c.48A>C synonymous_variant 0.12 pyrazinamide
rpsA 1833661 c.120A>G synonymous_variant 0.14 pyrazinamide
rpsA 1833664 c.123C>G synonymous_variant 0.14 pyrazinamide
rpsA 1833928 c.387G>C synonymous_variant 0.14 pyrazinamide
rpsA 1833949 c.408T>C synonymous_variant 0.26 pyrazinamide
rpsA 1833970 c.429G>C synonymous_variant 0.21 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.13 pyrazinamide
rpsA 1834105 c.564C>T synonymous_variant 0.24 pyrazinamide
rpsA 1834189 c.648G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834294 c.753G>T synonymous_variant 0.13 pyrazinamide
rpsA 1834297 c.756C>T synonymous_variant 0.14 pyrazinamide
rpsA 1834303 c.762T>G synonymous_variant 0.14 pyrazinamide
rpsA 1834306 c.765T>C synonymous_variant 0.15 pyrazinamide
rpsA 1834348 c.807T>C synonymous_variant 0.21 pyrazinamide Not assoc w R - Interim
rpsA 1834361 c.820T>C synonymous_variant 0.16 pyrazinamide
rpsA 1834366 c.825A>G synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
rpsA 1834375 c.834G>C synonymous_variant 0.16 pyrazinamide
rpsA 1834396 c.855G>C synonymous_variant 0.17 pyrazinamide
rpsA 1834411 c.870T>C synonymous_variant 0.2 pyrazinamide
rpsA 1834423 c.882G>T synonymous_variant 0.19 pyrazinamide
rpsA 1834432 c.891G>C synonymous_variant 0.23 pyrazinamide
rpsA 1834451 c.910T>C synonymous_variant 0.26 pyrazinamide
rpsA 1834456 c.915T>G synonymous_variant 0.24 pyrazinamide
rpsA 1834468 c.927A>G synonymous_variant 0.2 pyrazinamide
rpsA 1834489 c.948T>C synonymous_variant 0.23 pyrazinamide
rpsA 1834498 c.957C>T synonymous_variant 0.28 pyrazinamide
rpsA 1834573 c.1032G>C synonymous_variant 0.15 pyrazinamide
rpsA 1834732 c.1191T>C synonymous_variant 0.24 pyrazinamide
rpsA 1834738 c.1197A>G synonymous_variant 0.19 pyrazinamide
rpsA 1834747 c.1206A>G synonymous_variant 0.16 pyrazinamide
rpsA 1834751 c.1210_1212delCTTinsAC frameshift_variant&missense_variant 0.14 pyrazinamide Uncertain significance
rpsA 1834756 c.1215G>A synonymous_variant 0.14 pyrazinamide
rpsA 1834759 c.1218A>T synonymous_variant 0.15 pyrazinamide
rpsA 1834765 p.Glu408Asp missense_variant 0.14 pyrazinamide
rpsA 1834775 p.Ala412Thr missense_variant 0.19 pyrazinamide
rpsA 1834780 c.1239A>G synonymous_variant 0.18 pyrazinamide
rpsA 1834786 c.1245A>G synonymous_variant 0.18 pyrazinamide
rpsA 1834789 c.1248T>C synonymous_variant 0.19 pyrazinamide
rpsA 1834792 c.1251G>C synonymous_variant 0.19 pyrazinamide
rpsA 1834810 c.1269C>T synonymous_variant 0.2 pyrazinamide
rpsA 1834813 c.1272G>T synonymous_variant 0.17 pyrazinamide
rpsA 1834852 c.1311C>T synonymous_variant 0.14 pyrazinamide
tsnR 1853361 c.-245T>C upstream_gene_variant 0.16 linezolid
tsnR 1853370 c.-236_-234delGCAinsTC upstream_gene_variant 0.18 linezolid
tsnR 1853375 c.-231G>C upstream_gene_variant 0.17 linezolid
tsnR 1853387 c.-219T>G upstream_gene_variant 0.13 linezolid
tsnR 1853390 c.-216G>C upstream_gene_variant 0.13 linezolid
tsnR 1853394 c.-212_-211delCTinsGC upstream_gene_variant 0.14 linezolid
tsnR 1853420 c.-186T>G upstream_gene_variant 0.25 linezolid
tsnR 1853429 c.-177G>C upstream_gene_variant 0.19 linezolid
tsnR 1853432 c.-174G>C upstream_gene_variant 0.2 linezolid
tsnR 1853444 c.-162C>T upstream_gene_variant 0.31 linezolid
tsnR 1853459 c.-147G>C upstream_gene_variant 0.32 linezolid
tsnR 1853462 c.-144A>G upstream_gene_variant 0.31 linezolid
tsnR 1853468 c.-138C>G upstream_gene_variant 0.26 linezolid
tlyA 1917972 c.33A>G synonymous_variant 1.0 capreomycin Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
pncA 2289138 p.Leu35Arg missense_variant 1.0 pyrazinamide Not assoc w R - Interim
kasA 2517917 c.-198G>T upstream_gene_variant 0.34 isoniazid
kasA 2517926 c.-189G>A upstream_gene_variant 0.35 isoniazid
kasA 2517941 c.-174C>G upstream_gene_variant 0.36 isoniazid
kasA 2517950 c.-165C>G upstream_gene_variant 0.36 isoniazid
kasA 2517974 c.-141T>C upstream_gene_variant 0.21 isoniazid
kasA 2517989 c.-126T>G upstream_gene_variant 0.15 isoniazid
kasA 2518528 c.414C>G synonymous_variant 0.14 isoniazid
kasA 2518606 c.492G>C synonymous_variant 0.2 isoniazid
kasA 2518609 p.Met165Ile missense_variant 0.22 isoniazid
Rv2477c 2782453 c.1590C>T synonymous_variant 0.18 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782483 c.1560G>C synonymous_variant 0.24 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782522 c.1521G>C synonymous_variant 0.15 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
Rv2477c 2782528 c.1515G>C synonymous_variant 0.14 ethambutol
moxifloxacin
streptomycin
levofloxacin
kanamycin
rifampicin
amikacin
thyX 3067457 c.489C>G synonymous_variant 0.12 para-aminosalicylic_acid
thyX 3067910 c.36C>T synonymous_variant 0.13 para-aminosalicylic_acid
fbiD 3339385 p.Asp90Asn missense_variant 1.0 clofazimine Uncertain significance
pretomanid
delamanid Uncertain significance
mtrB 3625837 c.777C>G synonymous_variant 0.2 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625852 c.-942A>T upstream_gene_variant 0.16 bedaquiline
rifampicin
lpqB 3625861 c.-951C>T upstream_gene_variant 0.18 bedaquiline
rifampicin
mtrB 3625867 c.747A>G synonymous_variant 0.17 bedaquiline
rifampicin Not assoc w R - Interim
lpqB 3625882 c.-972G>T upstream_gene_variant 0.14 bedaquiline
rifampicin
mtrB 3625899 p.Val239Leu missense_variant 0.13 bedaquiline
rifampicin
fbiA 3640350 c.-193C>T upstream_gene_variant 0.16 clofazimine
pretomanid
delamanid
fbiA 3640355 c.-188C>T upstream_gene_variant 0.17 clofazimine
pretomanid
delamanid
rpoA 3877596 c.912G>C synonymous_variant 0.13 rifampicin
rpoA 3877728 c.780C>G synonymous_variant 0.13 rifampicin
rpoA 3877803 c.705G>C synonymous_variant 0.2 rifampicin
rpoA 3877818 c.690A>G synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoA 3877848 c.660C>T synonymous_variant 0.19 rifampicin Not assoc w R - Interim
rpoA 3877905 c.603A>C synonymous_variant 0.12 rifampicin
rpoA 3877908 c.600T>C synonymous_variant 0.14 rifampicin Not assoc w R - Interim
rpoA 3878217 c.291A>G synonymous_variant 0.19 rifampicin Not assoc w R - Interim
clpC1 4038335 c.2370C>G synonymous_variant 0.14 pyrazinamide
clpC1 4038356 c.2349T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038388 c.2317T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038395 c.2310C>G synonymous_variant 0.12 pyrazinamide
clpC1 4038726 p.Thr660Cys missense_variant 0.15 pyrazinamide
clpC1 4038941 c.1764G>A synonymous_variant 0.19 pyrazinamide
clpC1 4038953 c.1752A>G synonymous_variant 0.23 pyrazinamide
clpC1 4038956 c.1749T>C synonymous_variant 0.23 pyrazinamide
clpC1 4038965 c.1740T>C synonymous_variant 0.18 pyrazinamide
clpC1 4038971 c.1734T>C synonymous_variant 0.14 pyrazinamide
clpC1 4038974 c.1731T>C synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4038989 c.1716T>C synonymous_variant 0.15 pyrazinamide
clpC1 4039022 c.1683A>G synonymous_variant 0.17 pyrazinamide
clpC1 4039145 c.1560G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039169 p.Glu512Asp missense_variant 0.16 pyrazinamide
clpC1 4039183 c.1522T>C synonymous_variant 0.12 pyrazinamide
clpC1 4039187 c.1518G>C synonymous_variant 0.12 pyrazinamide
clpC1 4039274 c.1431G>C synonymous_variant 0.15 pyrazinamide Not assoc w R - Interim
clpC1 4039277 c.1428C>T synonymous_variant 0.14 pyrazinamide
clpC1 4039280 c.1425G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039292 c.1413C>A synonymous_variant 0.17 pyrazinamide
clpC1 4039295 c.1410A>C synonymous_variant 0.17 pyrazinamide
clpC1 4039298 c.1407T>C synonymous_variant 0.17 pyrazinamide
clpC1 4039313 c.1392C>G synonymous_variant 0.19 pyrazinamide
clpC1 4039349 c.1356C>T synonymous_variant 0.18 pyrazinamide
clpC1 4039352 c.1353C>G synonymous_variant 0.18 pyrazinamide
clpC1 4039382 c.1323C>G synonymous_variant 0.15 pyrazinamide
clpC1 4039391 c.1314T>G synonymous_variant 0.12 pyrazinamide
clpC1 4039394 c.1311G>C synonymous_variant 0.13 pyrazinamide
clpC1 4039517 c.1188C>G synonymous_variant 0.23 pyrazinamide
clpC1 4039541 c.1164C>G synonymous_variant 0.16 pyrazinamide
clpC1 4039931 c.774T>C synonymous_variant 0.12 pyrazinamide
clpC1 4040021 c.684A>T synonymous_variant 0.17 pyrazinamide
clpC1 4040024 c.681A>G synonymous_variant 0.17 pyrazinamide
clpC1 4040030 c.675C>G synonymous_variant 0.19 pyrazinamide
clpC1 4040033 c.672G>T synonymous_variant 0.2 pyrazinamide
clpC1 4040057 c.648C>T synonymous_variant 0.32 pyrazinamide
clpC1 4040090 c.613_615delTCTinsAGC synonymous_variant 0.14 pyrazinamide
clpC1 4040093 c.612C>G synonymous_variant 0.14 pyrazinamide Not assoc w R - Interim
clpC1 4040393 c.312G>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
clpC1 4040402 c.303C>T synonymous_variant 0.17 pyrazinamide
clpC1 4040411 c.294T>C synonymous_variant 0.16 pyrazinamide Not assoc w R - Interim
clpC1 4040423 c.282A>G synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
clpC1 4040431 c.274T>C synonymous_variant 0.28 pyrazinamide
clpC1 4040441 c.264C>T synonymous_variant 0.27 pyrazinamide
clpC1 4040444 c.261C>G synonymous_variant 0.26 pyrazinamide
clpC1 4040450 c.255A>G synonymous_variant 0.26 pyrazinamide Not assoc w R - Interim
clpC1 4040456 c.249C>T synonymous_variant 0.28 pyrazinamide Not assoc w R - Interim
clpC1 4040459 c.246C>A synonymous_variant 0.28 pyrazinamide
clpC1 4040465 c.240T>C synonymous_variant 0.22 pyrazinamide
clpC1 4040471 c.234T>C synonymous_variant 0.23 pyrazinamide Not assoc w R - Interim
clpC1 4040522 c.183T>C synonymous_variant 0.13 pyrazinamide Not assoc w R - Interim
embC 4241194 c.1332C>G synonymous_variant 0.12 ethambutol
embA 4244885 c.1653A>G synonymous_variant 0.19 ethambutol
embA 4246062 c.2830_2832delTATinsAC frameshift_variant&missense_variant 0.17 ethambutol Uncertain significance
embB 4247462 c.949_950delTCinsAG synonymous_variant 0.14 ethambutol
embB 4247470 c.957T>C synonymous_variant 0.13 ethambutol
embB 4247491 c.978G>C synonymous_variant 0.13 ethambutol
embB 4247494 c.981G>A synonymous_variant 0.13 ethambutol
embB 4247497 c.984T>C synonymous_variant 0.14 ethambutol
embB 4247500 c.987C>G synonymous_variant 0.13 ethambutol
aftB 4268194 p.Leu215Val missense_variant 0.13 ethambutol
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R