Run ID: ERR7821126
Sample name:
Date: 2024-10-05T12:50:35.523143
Number of reads: 1582829
Percentage reads mapped: 88.51
Median coverage: 40.0
Strain: lineage1.1.3.2
Spoligotype:
Drug-resistance: Sensitive
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage1.1.3 | Indo-Oceanic | RD239 | 1.0 |
lineage1.1.3.2 | Indo-Oceanic | RD239 | 0.97 |
lineage1.1 | Indo-Oceanic | RD239 | 1.0 |
lineage1 | Indo-Oceanic | RD239 | 0.97 |
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
dnaA | 403 | p.Asp135Asn | missense_variant | 1.0 | isoniazid | Uncertain significance |
gyrB | 6112 | p.Met291Ile | missense_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
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 | 8188 | p.Leu296Pro | missense_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
gyrA | 8452 | p.Ala384Val | missense_variant | 0.95 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
gyrA | 8967 | p.Ala556Arg | missense_variant | 0.17 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 8978 | c.1677C>T | synonymous_variant | 0.19 | levofloxacin | Not assoc w R - Interim |
moxifloxacin | Not assoc w R - Interim | |||||
gyrA | 8987 | c.1686C>G | synonymous_variant | 0.18 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 8990 | c.1689C>G | synonymous_variant | 0.2 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 8996 | c.1695T>C | synonymous_variant | 0.2 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 8998 | p.Leu566Trp | missense_variant | 0.2 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
gyrA | 9017 | c.1716C>G | synonymous_variant | 0.18 | levofloxacin | Not assoc w R - Interim |
moxifloxacin | Not assoc w R - Interim | |||||
gyrA | 9023 | c.1722A>C | synonymous_variant | 0.19 | levofloxacin | Not assoc w R - Interim |
moxifloxacin | Not assoc w R - Interim | |||||
gyrA | 9029 | c.1728T>C | synonymous_variant | 0.22 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
gyrA | 9267 | p.Asn656Gly | missense_variant | 0.16 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 9293 | c.1992G>C | synonymous_variant | 0.17 | levofloxacin | |
moxifloxacin | ||||||
gyrA | 9296 | c.1995T>C | synonymous_variant | 0.18 | levofloxacin | Not assoc w R - Interim |
moxifloxacin | Not assoc w R - Interim | |||||
gyrA | 9299 | c.1998G>C | synonymous_variant | 0.16 | levofloxacin | Not assoc w R - Interim |
moxifloxacin | Not assoc w R - Interim | |||||
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
Rv0010c | 13298 | p.Ile87Met | 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 | |||||
ccsA | 619695 | c.-196G>A | upstream_gene_variant | 0.95 | kanamycin | |
capreomycin | ||||||
amikacin | ||||||
Rv0565c | 657578 | c.-108T>C | upstream_gene_variant | 1.0 | ethionamide | |
nusG | 734116 | c.-138T>C | upstream_gene_variant | 0.91 | rifampicin | Not assoc w R |
rpoB | 760547 | c.741G>T | synonymous_variant | 0.16 | rifampicin | |
rpoB | 761021 | c.1215G>C | synonymous_variant | 0.19 | rifampicin | |
rpoB | 761027 | c.1221A>C | synonymous_variant | 0.22 | rifampicin | Not assoc w R - Interim |
rpoB | 761036 | c.1230G>C | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoB | 761057 | c.1251G>C | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoB | 761133 | c.1327T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 761147 | c.1341C>T | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 761150 | c.1344A>T | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 761180 | c.1374A>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 761510 | c.1704T>C | synonymous_variant | 0.14 | rifampicin | |
rpoB | 761531 | c.1725C>G | synonymous_variant | 0.2 | rifampicin | |
rpoB | 761537 | c.1731C>G | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoB | 761561 | c.1755C>G | synonymous_variant | 0.24 | rifampicin | |
rpoB | 761564 | c.1758G>C | synonymous_variant | 0.27 | rifampicin | Not assoc w R - Interim |
rpoB | 761570 | c.1764T>C | synonymous_variant | 0.28 | rifampicin | Not assoc w R - Interim |
rpoB | 761573 | c.1767C>G | synonymous_variant | 0.26 | rifampicin | Not assoc w R - Interim |
rpoB | 761579 | c.1773G>C | synonymous_variant | 0.27 | rifampicin | Not assoc w R - Interim |
rpoB | 761606 | c.1800C>G | synonymous_variant | 0.22 | rifampicin | |
rpoB | 761612 | c.1806G>T | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoB | 761615 | c.1809A>C | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoB | 761636 | c.1830G>T | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 761645 | c.1839C>G | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoB | 761648 | c.1842T>C | synonymous_variant | 0.19 | rifampicin | |
rpoB | 761657 | c.1851C>G | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoB | 761669 | c.1863C>T | synonymous_variant | 0.16 | rifampicin | |
rpoB | 761675 | c.1869G>T | synonymous_variant | 0.19 | rifampicin | |
rpoB | 762062 | c.2256T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 762065 | c.2259T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 762083 | c.2277T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 762086 | c.2280G>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoB | 762122 | c.2316C>T | synonymous_variant | 0.2 | rifampicin | |
rpoB | 762129 | c.2323_2325delCTCinsTTG | synonymous_variant | 0.17 | rifampicin | |
rpoB | 762143 | c.2337T>C | synonymous_variant | 0.2 | rifampicin | |
rpoB | 762149 | c.2343G>C | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoB | 762185 | c.2379G>C | synonymous_variant | 0.3 | rifampicin | Not assoc w R - Interim |
rpoB | 762221 | c.2415G>A | synonymous_variant | 0.25 | rifampicin | |
rpoB | 762233 | c.2427G>C | synonymous_variant | 0.24 | rifampicin | Not assoc w R - Interim |
rpoB | 762254 | c.2448T>C | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoB | 762257 | c.2451C>G | synonymous_variant | 0.17 | rifampicin | |
rpoB | 762284 | c.2478G>T | synonymous_variant | 0.17 | rifampicin | |
rpoB | 762293 | c.2487T>C | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
rpoB | 762296 | c.2490G>C | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoB | 762297 | c.2491C>T | synonymous_variant | 0.14 | rifampicin | |
rpoB | 763028 | c.3222T>C | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
rpoB | 763031 | c.3225T>C | synonymous_variant | 1.0 | rifampicin | Not assoc w R |
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 | 763456 | c.87A>G | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763570 | c.201G>T | synonymous_variant | 0.21 | rifampicin | |
rpoC | 763573 | c.204G>C | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763594 | c.225C>T | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 763636 | c.267T>C | synonymous_variant | 0.22 | rifampicin | |
rpoC | 763660 | c.291T>G | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 763675 | c.306C>G | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoC | 763696 | c.327T>C | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763702 | c.333C>G | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763723 | c.354G>C | synonymous_variant | 0.19 | rifampicin | |
rpoC | 763732 | c.363C>G | synonymous_variant | 0.2 | rifampicin | |
rpoC | 763884 | p.Ala172Val | missense_variant | 0.9 | rifampicin | Not assoc w R |
rpoC | 763886 | c.517C>A | synonymous_variant | 0.89 | rifampicin | Not assoc w R |
rpoC | 764815 | c.1446A>G | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoC | 764827 | c.1458G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 765171 | p.Pro601Leu | missense_variant | 1.0 | rifampicin | Not assoc w R |
rpoC | 765230 | p.Ala621Thr | missense_variant | 0.98 | rifampicin | Not assoc w R |
rpoC | 765580 | c.2211G>C | synonymous_variant | 0.15 | rifampicin | |
rpoC | 765583 | c.2214G>C | synonymous_variant | 0.15 | rifampicin | |
rpoC | 765613 | p.His748Gln | missense_variant | 0.16 | rifampicin | |
rpoC | 765700 | c.2331T>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoC | 765734 | c.2365T>C | synonymous_variant | 0.26 | rifampicin | Not assoc w R - Interim |
rpoC | 765739 | c.2370G>T | synonymous_variant | 0.24 | rifampicin | |
rpoC | 765751 | c.2382C>G | synonymous_variant | 0.21 | rifampicin | |
rpoC | 765753 | p.Asp795Ala | missense_variant | 0.21 | rifampicin | Uncertain significance |
rpoC | 765772 | c.2403C>G | synonymous_variant | 0.18 | rifampicin | |
rpoC | 765778 | c.2409C>G | synonymous_variant | 0.19 | rifampicin | |
rpoC | 765835 | c.2466C>T | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 765883 | c.2514C>G | synonymous_variant | 0.16 | rifampicin | |
rpoC | 765886 | c.2517C>G | synonymous_variant | 0.16 | rifampicin | |
rpoC | 766765 | c.3396A>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoC | 766774 | c.3405T>C | synonymous_variant | 0.22 | rifampicin | |
rpoC | 766804 | c.3435A>G | synonymous_variant | 0.22 | rifampicin | Not assoc w R - Interim |
rpoC | 766861 | c.3492G>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoC | 766864 | c.3495G>C | synonymous_variant | 0.19 | rifampicin | |
rpoC | 767059 | c.3690T>G | synonymous_variant | 0.28 | rifampicin | Not assoc w R - Interim |
rpoC | 767062 | c.3693C>A | synonymous_variant | 0.28 | rifampicin | |
rpoC | 767098 | c.3729T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoC | 767119 | c.3750A>G | synonymous_variant | 0.24 | 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 | |||||
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 | bedaquiline | Not assoc w R - Interim |
clofazimine | Not assoc w R | |||||
mmpL5 | 776288 | c.2193C>G | synonymous_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
mmpS5 | 778701 | p.Ile69Val | missense_variant | 1.0 | bedaquiline | Uncertain significance |
clofazimine | Uncertain significance | |||||
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 | streptomycin | Not assoc w R |
rpsL | 781754 | c.195G>C | synonymous_variant | 0.17 | streptomycin | |
rpsL | 781760 | c.201T>C | synonymous_variant | 0.15 | streptomycin | |
rpsL | 781769 | c.210G>A | synonymous_variant | 0.15 | streptomycin | |
rpsL | 781808 | c.249C>T | synonymous_variant | 0.15 | streptomycin | |
rpsL | 781817 | c.258G>T | synonymous_variant | 0.15 | streptomycin | |
rplC | 800357 | c.-452C>A | upstream_gene_variant | 0.99 | linezolid | Not assoc w R |
rplC | 800690 | c.-119C>T | upstream_gene_variant | 0.22 | linezolid | |
rplC | 800693 | c.-116A>C | upstream_gene_variant | 0.21 | linezolid | |
rplC | 800703 | c.-106T>C | upstream_gene_variant | 0.18 | linezolid | |
rplC | 800715 | c.-94A>C | upstream_gene_variant | 0.18 | linezolid | |
rplC | 800720 | c.-89T>C | upstream_gene_variant | 0.15 | linezolid | |
rplC | 800723 | c.-86C>G | upstream_gene_variant | 0.16 | linezolid | |
rplC | 800738 | c.-71T>C | upstream_gene_variant | 0.14 | linezolid | |
rplC | 800747 | c.-62C>G | upstream_gene_variant | 0.15 | linezolid | |
rplC | 801166 | p.Gly120Ser | missense_variant | 0.9 | linezolid | Uncertain significance |
Rv1129c | 1254562 | c.-28T>C | upstream_gene_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
isoniazid | Not assoc w R | |||||
rifampicin | Not assoc w R | |||||
fbiC | 1303761 | c.831T>C | synonymous_variant | 0.19 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303785 | c.855G>C | synonymous_variant | 0.22 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303788 | c.858T>C | synonymous_variant | 0.22 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303789 | p.Ile287Val | missense_variant | 0.22 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303794 | c.864A>G | synonymous_variant | 0.19 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303800 | c.870G>T | synonymous_variant | 0.22 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303818 | c.888C>G | synonymous_variant | 0.24 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303869 | c.939T>C | synonymous_variant | 0.19 | pretomanid | |
delamanid | Not assoc w R - Interim | |||||
clofazimine | Not assoc w R - Interim | |||||
fbiC | 1303881 | c.951G>C | synonymous_variant | 0.21 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303884 | c.954T>G | synonymous_variant | 0.22 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303890 | c.960G>A | synonymous_variant | 0.2 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303897 | c.967C>T | synonymous_variant | 0.23 | pretomanid | |
delamanid | Not assoc w R - Interim | |||||
clofazimine | Not assoc w R - Interim | |||||
fbiC | 1303947 | c.1017T>G | synonymous_variant | 0.16 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303948 | p.Gly340Arg | missense_variant | 0.16 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
fbiC | 1303956 | c.1026A>G | synonymous_variant | 0.16 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 | ethambutol | Not assoc w R |
embR | 1417554 | c.-207C>G | upstream_gene_variant | 1.0 | ethambutol | |
embR | 1417793 | c.-446C>T | upstream_gene_variant | 1.0 | ethambutol | |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrl | 1475599 | n.1942A>G | non_coding_transcript_exon_variant | 0.29 | capreomycin | |
linezolid | Uncertain significance | |||||
rrl | 1475608 | n.1951T>C | non_coding_transcript_exon_variant | 0.29 | capreomycin | Uncertain significance |
linezolid | ||||||
inhA | 1674690 | c.489C>G | synonymous_variant | 0.17 | isoniazid | |
ethionamide | ||||||
inhA | 1674703 | c.502T>C | synonymous_variant | 0.17 | isoniazid | |
ethionamide | ||||||
inhA | 1674708 | c.507G>A | synonymous_variant | 0.18 | isoniazid | |
ethionamide | ||||||
inhA | 1674883 | p.Ile228Val | missense_variant | 0.91 | isoniazid | Uncertain significance |
ethionamide | Uncertain significance | |||||
rpsA | 1833595 | c.54T>G | synonymous_variant | 0.16 | pyrazinamide | |
rpsA | 1833703 | c.162C>T | synonymous_variant | 0.17 | pyrazinamide | Not assoc w R - Interim |
rpsA | 1833928 | c.387G>C | synonymous_variant | 0.16 | pyrazinamide | |
rpsA | 1833940 | c.399C>G | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1833971 | c.430C>T | synonymous_variant | 0.17 | pyrazinamide | |
rpsA | 1833979 | c.438T>C | synonymous_variant | 0.17 | pyrazinamide | |
rpsA | 1833997 | c.456G>C | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1834021 | c.480C>T | synonymous_variant | 0.2 | pyrazinamide | |
rpsA | 1834030 | c.489C>G | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1834294 | c.753G>T | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1834297 | c.756C>G | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1834348 | c.807T>C | synonymous_variant | 0.19 | pyrazinamide | Not assoc w R - Interim |
rpsA | 1834357 | c.816T>C | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1834366 | c.825A>G | synonymous_variant | 0.19 | pyrazinamide | Not assoc w R - Interim |
rpsA | 1834369 | c.828C>G | synonymous_variant | 0.19 | pyrazinamide | |
rpsA | 1834375 | c.834G>A | synonymous_variant | 0.17 | pyrazinamide | |
tsnR | 1853974 | c.369C>T | synonymous_variant | 1.0 | linezolid | Not assoc w R |
tsnR | 1854045 | p.Tyr147Cys | missense_variant | 1.0 | linezolid | Not assoc w R |
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 |
bacA | 2062922 | p.Ile603Val | missense_variant | 1.0 | kanamycin | Not assoc w R |
capreomycin | Not assoc w R | |||||
streptomycin | Not assoc w R | |||||
amikacin | Not assoc w R | |||||
bacA | 2064420 | c.309C>T | synonymous_variant | 1.0 | kanamycin | Not assoc w R - Interim |
capreomycin | Not assoc w R - Interim | |||||
streptomycin | Not assoc w R - Interim | |||||
amikacin | Not assoc w R - Interim | |||||
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 | isoniazid | Not assoc w R |
katG | 2154917 | p.Glu399Lys | missense_variant | 1.0 | isoniazid | |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 | pyrazinamide | Not assoc w R |
PPE35 | 2167983 | p.Gly877Asp | missense_variant | 1.0 | pyrazinamide | Uncertain significance |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 | bedaquiline | Not assoc w R - Interim |
clofazimine | 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 | |||||
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 | isoniazid | |
ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 | isoniazid | |
Rv2477c | 2783149 | c.894G>C | synonymous_variant | 0.24 | kanamycin | Not assoc w R - Interim |
levofloxacin | Not assoc w R - Interim | |||||
moxifloxacin | Not assoc w R - Interim | |||||
streptomycin | ||||||
rifampicin | Not assoc w R - Interim | |||||
ethambutol | ||||||
amikacin | Not assoc w R - Interim | |||||
Rv2477c | 2783158 | c.885A>C | synonymous_variant | 0.23 | kanamycin | Not assoc w R - Interim |
levofloxacin | Not assoc w R - Interim | |||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | Not assoc w R - Interim | |||||
ethambutol | Not assoc w R - Interim | |||||
amikacin | Not assoc w R - Interim | |||||
Rv2477c | 2783674 | c.369T>C | synonymous_variant | 0.17 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2477c | 2783683 | c.360A>G | synonymous_variant | 0.16 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2477c | 2783691 | c.352C>T | synonymous_variant | 0.18 | kanamycin | Not assoc w R - Interim |
levofloxacin | Not assoc w R - Interim | |||||
moxifloxacin | Not assoc w R - Interim | |||||
streptomycin | Not assoc w R - Interim | |||||
rifampicin | Not assoc w R - Interim | |||||
ethambutol | Not assoc w R - Interim | |||||
amikacin | Not assoc w R - Interim | |||||
Rv2477c | 2783695 | c.348C>T | synonymous_variant | 0.17 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2477c | 2783700 | p.Thr115Ser | missense_variant | 0.18 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2477c | 2783719 | c.324A>G | synonymous_variant | 0.17 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2477c | 2783751 | p.Ile98Val | missense_variant | 0.16 | kanamycin | |
levofloxacin | ||||||
moxifloxacin | ||||||
streptomycin | ||||||
rifampicin | ||||||
ethambutol | ||||||
amikacin | ||||||
Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
isoniazid | Not assoc w R | |||||
rifampicin | Not assoc w R | |||||
ethambutol | Not assoc w R | |||||
thyX | 3067817 | c.129C>T | synonymous_variant | 0.96 | para-aminosalicylic_acid | |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 | cycloserine | |
Rv3083 | 3432818 | c.-15685_*836del | transcript_ablation | 1.0 | ethionamide | Uncertain significance |
lpqB | 3624486 | p.Asp142Gly | missense_variant | 1.0 | rifampicin | Not assoc w R |
bedaquiline | Uncertain significance | |||||
mtrB | 3625065 | p.Met517Leu | missense_variant | 1.0 | rifampicin | Not assoc w R |
bedaquiline | Uncertain significance | |||||
mtrB | 3625755 | p.Ala287Thr | missense_variant | 0.15 | rifampicin | Uncertain significance |
bedaquiline | ||||||
mtrB | 3625806 | c.808A>C | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
bedaquiline | ||||||
mtrB | 3627149 | c.-536G>A | upstream_gene_variant | 0.13 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627254 | c.-641C>T | upstream_gene_variant | 0.21 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627263 | c.-650C>T | upstream_gene_variant | 0.19 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627266 | c.-653A>G | upstream_gene_variant | 0.18 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627272 | c.-659G>T | upstream_gene_variant | 0.2 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627275 | c.-662G>T | upstream_gene_variant | 0.19 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627296 | c.-683T>C | upstream_gene_variant | 0.15 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627299 | c.-688_-686delTTGinsCTA | upstream_gene_variant | 0.14 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627317 | c.-704T>C | upstream_gene_variant | 0.15 | rifampicin | |
bedaquiline | ||||||
fbiB | 3642173 | c.639G>A | synonymous_variant | 1.0 | pretomanid | |
delamanid | Not assoc w R - Interim | |||||
clofazimine | Not assoc w R - Interim | |||||
rpoA | 3877542 | c.966C>T | synonymous_variant | 0.17 | rifampicin | |
rpoA | 3877553 | p.Glu319Gln | missense_variant | 0.19 | rifampicin | |
rpoA | 3877587 | c.921A>G | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoA | 3877599 | c.909G>A | synonymous_variant | 0.18 | rifampicin | |
rpoA | 3877656 | c.852T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoA | 3877770 | c.738A>G | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoA | 3877776 | c.732T>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoA | 3877782 | c.726T>C | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoA | 3877818 | c.690A>G | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoA | 3877839 | c.669G>C | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoA | 3877857 | c.651G>A | synonymous_variant | 0.26 | rifampicin | |
rpoA | 3877866 | c.642G>C | synonymous_variant | 0.25 | rifampicin | |
rpoA | 3877872 | c.636C>T | synonymous_variant | 0.27 | rifampicin | Not assoc w R - Interim |
rpoA | 3877875 | c.633T>C | synonymous_variant | 0.29 | rifampicin | Not assoc w R - Interim |
rpoA | 3877896 | c.612G>C | synonymous_variant | 0.23 | rifampicin | |
rpoA | 3877900 | p.Ser203Asn | missense_variant | 0.2 | rifampicin | |
rpoA | 3877905 | c.603A>G | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoA | 3877909 | p.Asn200Ser | missense_variant | 0.17 | rifampicin | |
rpoA | 3877920 | c.588G>C | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoA | 3877962 | c.546G>T | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoA | 3877965 | c.543C>T | synonymous_variant | 0.14 | rifampicin | |
rpoA | 3878082 | c.426T>C | synonymous_variant | 0.15 | rifampicin | |
rpoA | 3878094 | c.414C>G | synonymous_variant | 0.18 | rifampicin | |
rpoA | 3878103 | c.405A>G | synonymous_variant | 0.17 | rifampicin | |
rpoA | 3878106 | c.402G>C | synonymous_variant | 0.14 | rifampicin | |
rpoA | 3878118 | c.390T>C | synonymous_variant | 0.16 | rifampicin | |
rpoA | 3878687 | c.-180A>C | upstream_gene_variant | 1.0 | rifampicin | Uncertain significance |
clpC1 | 4039022 | c.1683A>G | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4039034 | c.1671C>G | synonymous_variant | 0.18 | pyrazinamide | |
clpC1 | 4039037 | c.1668T>C | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4039064 | c.1641C>T | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4039094 | c.1611C>G | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4039103 | c.1602T>C | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4039106 | c.1599G>C | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4039112 | c.1593C>G | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4040033 | c.672G>C | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4040042 | c.663C>T | synonymous_variant | 0.17 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4040048 | c.657C>T | synonymous_variant | 0.18 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.97 | 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 | 4238874 | c.-989A>C | upstream_gene_variant | 1.0 | ethambutol | Uncertain significance |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 | ethambutol | Not assoc w R |
embC | 4241042 | p.Asn394Asp | missense_variant | 0.86 | ethambutol | Not assoc w R |
embC | 4241047 | c.1185C>A | synonymous_variant | 0.14 | ethambutol | |
embC | 4241050 | c.1188T>G | synonymous_variant | 0.14 | ethambutol | |
embC | 4241053 | c.1191G>C | synonymous_variant | 0.14 | ethambutol | |
embC | 4242643 | c.2781C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
embA | 4243848 | p.Val206Met | missense_variant | 1.0 | ethambutol | Not assoc w R |
embA | 4245969 | p.Pro913Ser | missense_variant | 1.0 | ethambutol | Not assoc w R |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 | ethambutol | Not assoc w R |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 | ethambutol | Not assoc w R |
ubiA | 4269606 | c.228T>C | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 | kanamycin | Not assoc w R |
capreomycin | Not assoc w R | |||||
amikacin | Not assoc w R | |||||
whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 | kanamycin | Not assoc w R |
capreomycin | Not assoc w R | |||||
amikacin | Not assoc w R | |||||
whiB6 | 4338613 | c.-92G>A | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
amikacin | ||||||
whiB6 | 4338732 | c.-211C>T | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
amikacin | ||||||
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 | streptomycin | Not assoc w R |
gid | 4407780 | c.423G>A | synonymous_variant | 1.0 | streptomycin | Not assoc w R - Interim |
gid | 4407873 | c.330G>T | synonymous_variant | 0.96 | streptomycin | Not assoc w R |