Run ID: SRR5431730
Sample name:
Date: 2024-10-04T21:01:24.526623
Number of reads: 3608526
Percentage reads mapped: 74.36
Median coverage: 49.0
Strain: La1.8.1
Spoligotype:
Drug-resistance: Other
Lineage | Family | RDs | Frequency |
---|---|---|---|
La1.8 | M.bovis | None | 1.0 |
La1.8.1 | M.bovis | None | 0.99 |
La1 | M.bovis | None | 0.99 |
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 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|---|---|---|---|---|---|---|
pncA | 2289073 | p.His57Asp | missense_variant | 1.0 | pyrazinamide | Assoc w R |
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 | 0.99 | 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 | |||||
gyrB | 6811 | c.1572C>T | synonymous_variant | 0.13 | levofloxacin | |
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 | 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 | 9143 | c.1842T>C | synonymous_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
gyrA | 9217 | p.Asp639Ala | missense_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
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 | 13228 | c.330delG | frameshift_variant | 1.0 | isoniazid | Uncertain significance |
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 | |||||
Rv0565c | 657578 | c.-108T>C | upstream_gene_variant | 1.0 | ethionamide | |
nusG | 734841 | c.588G>T | synonymous_variant | 0.13 | rifampicin | |
nusG | 734847 | c.594T>C | synonymous_variant | 0.12 | rifampicin | |
nusG | 734853 | c.600A>G | synonymous_variant | 0.12 | rifampicin | |
nusG | 734859 | c.606G>C | synonymous_variant | 0.13 | rifampicin | |
nusG | 734863 | p.Thr204Ser | missense_variant | 0.13 | rifampicin | |
nusG | 734895 | c.642A>G | synonymous_variant | 0.16 | rifampicin | |
rpoB | 760283 | c.477G>C | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoB | 760298 | c.492G>C | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoB | 760649 | c.843G>C | synonymous_variant | 0.16 | rifampicin | |
rpoB | 761015 | c.1209G>C | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoB | 761021 | c.1215G>C | synonymous_variant | 0.18 | rifampicin | |
rpoB | 761027 | c.1221A>G | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 761036 | c.1230G>C | synonymous_variant | 0.24 | rifampicin | Not assoc w R - Interim |
rpoB | 761037 | c.1231T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 761051 | c.1245G>C | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoB | 761201 | c.1395G>A | synonymous_variant | 0.15 | rifampicin | |
rpoB | 761204 | c.1398C>T | synonymous_variant | 0.16 | rifampicin | |
rpoB | 761207 | c.1401C>T | synonymous_variant | 0.16 | rifampicin | |
rpoB | 761222 | c.1416G>C | synonymous_variant | 0.15 | rifampicin | |
rpoB | 761240 | c.1434C>T | synonymous_variant | 0.17 | rifampicin | |
rpoB | 761969 | c.2163G>A | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 761972 | c.2166C>G | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 762006 | c.2200_2202delCGCinsAGG | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
rpoB | 762212 | c.2406G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 762995 | c.3189G>T | synonymous_variant | 0.14 | 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 | 0.13 | rifampicin | Not assoc w R - Interim |
rpoB | 763094 | c.3288G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoB | 763115 | c.3309T>C | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoB | 763127 | c.3321G>C | synonymous_variant | 0.18 | 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 | 0.16 | rifampicin | |
rpoC | 763148 | c.-222G>C | upstream_gene_variant | 0.17 | rifampicin | |
rpoC | 763169 | c.-201A>G | upstream_gene_variant | 0.12 | rifampicin | |
rpoC | 763396 | c.27A>G | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763408 | c.39T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoC | 763411 | c.42T>G | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoC | 763414 | c.45T>G | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoC | 763430 | c.61A>C | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 763444 | c.75T>C | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoC | 763447 | c.78C>T | synonymous_variant | 0.14 | rifampicin | |
rpoC | 763594 | c.225C>T | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoC | 763603 | c.234C>T | synonymous_variant | 0.2 | rifampicin | Not assoc w R - Interim |
rpoC | 763618 | c.249C>T | synonymous_variant | 0.2 | rifampicin | |
rpoC | 764083 | c.714A>G | synonymous_variant | 0.14 | rifampicin | |
rpoC | 764085 | p.Asn239Thr | missense_variant | 0.13 | rifampicin | Uncertain significance |
rpoC | 764087 | p.Leu240Val | missense_variant | 0.15 | rifampicin | Uncertain significance |
rpoC | 764098 | c.729A>G | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoC | 764101 | c.732C>G | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 764104 | c.735C>G | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 764287 | c.918C>T | synonymous_variant | 0.14 | rifampicin | |
rpoC | 764293 | c.924G>C | synonymous_variant | 0.18 | rifampicin | Not assoc w R - Interim |
rpoC | 764344 | c.975C>T | synonymous_variant | 0.22 | rifampicin | |
rpoC | 764365 | c.996C>T | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoC | 764764 | c.1395T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 764791 | c.1422C>G | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoC | 764803 | c.1434C>G | synonymous_variant | 0.13 | rifampicin | |
rpoC | 764815 | c.1446A>G | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 764824 | c.1455T>C | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
rpoC | 764827 | c.1458G>C | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoC | 764858 | c.1489T>C | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoC | 764863 | c.1494G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 764869 | c.1500C>G | synonymous_variant | 0.17 | rifampicin | |
rpoC | 764875 | c.1506C>T | synonymous_variant | 0.15 | rifampicin | |
rpoC | 764878 | c.1509C>G | synonymous_variant | 0.18 | rifampicin | |
rpoC | 764887 | c.1518G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 764888 | c.1519T>C | synonymous_variant | 0.15 | rifampicin | Not assoc w R - Interim |
rpoC | 764911 | c.1542A>G | synonymous_variant | 0.12 | rifampicin | |
rpoC | 764912 | p.Met515Leu | missense_variant | 0.12 | rifampicin | |
rpoC | 764932 | c.1563C>A | synonymous_variant | 0.13 | rifampicin | Not assoc w R - Interim |
rpoC | 765478 | c.2109T>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 765835 | c.2466C>T | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoC | 765871 | c.2502T>C | synonymous_variant | 0.18 | rifampicin | |
rpoC | 765875 | p.Val836Ile | missense_variant | 0.18 | rifampicin | Uncertain significance |
rpoC | 765886 | c.2517C>G | synonymous_variant | 0.19 | rifampicin | |
rpoC | 765904 | c.2535C>G | synonymous_variant | 0.19 | rifampicin | Not assoc w R - Interim |
rpoC | 765908 | c.2539C>T | synonymous_variant | 0.2 | rifampicin | |
rpoC | 765967 | c.2598C>T | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
rpoC | 765973 | c.2604C>T | synonymous_variant | 0.14 | rifampicin | Not assoc w R - Interim |
rpoC | 766484 | p.Val1039Ile | missense_variant | 0.19 | rifampicin | Uncertain significance |
rpoC | 767041 | c.3672G>C | synonymous_variant | 0.22 | rifampicin | |
rpoC | 767044 | c.3675G>C | synonymous_variant | 0.18 | 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 | |||||
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 | streptomycin | Not assoc w R |
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 | |||||
Rv1129c | 1254582 | c.-48A>G | upstream_gene_variant | 1.0 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
isoniazid | Not assoc w R | |||||
rifampicin | Not assoc w R | |||||
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 | pretomanid | |
delamanid | Uncertain significance | |||||
clofazimine | Uncertain significance | |||||
embR | 1417554 | c.-207C>G | upstream_gene_variant | 1.0 | ethambutol | |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472106 | n.261G>A | non_coding_transcript_exon_variant | 0.17 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472108 | n.263C>T | non_coding_transcript_exon_variant | 0.19 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472431 | n.586G>A | non_coding_transcript_exon_variant | 0.18 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472438 | n.593T>C | non_coding_transcript_exon_variant | 0.17 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472446 | n.601T>A | non_coding_transcript_exon_variant | 0.16 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | ||||||
amikacin | Uncertain significance | |||||
rrs | 1472452 | n.607G>A | non_coding_transcript_exon_variant | 0.15 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | ||||||
amikacin | Uncertain significance | |||||
rrs | 1472489 | n.644A>G | non_coding_transcript_exon_variant | 0.17 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.18 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472683 | n.838_839insTA | non_coding_transcript_exon_variant | 0.2 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.15 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | ||||||
amikacin | Uncertain significance | |||||
rrs | 1473100 | n.1255G>C | non_coding_transcript_exon_variant | 0.21 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.2 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473109 | n.1264T>G | non_coding_transcript_exon_variant | 0.21 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473111 | n.1266A>T | non_coding_transcript_exon_variant | 0.22 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.29 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.31 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.3 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrl | 1474151 | n.494C>T | non_coding_transcript_exon_variant | 0.18 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474174 | n.517A>G | non_coding_transcript_exon_variant | 0.24 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474181 | n.524C>A | non_coding_transcript_exon_variant | 0.26 | capreomycin | |
linezolid | ||||||
rrl | 1474552 | n.895C>T | non_coding_transcript_exon_variant | 0.23 | capreomycin | |
linezolid | ||||||
rrl | 1474632 | n.975G>T | non_coding_transcript_exon_variant | 0.14 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474715 | n.1061delA | non_coding_transcript_exon_variant | 0.17 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.21 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474794 | n.1137C>A | non_coding_transcript_exon_variant | 0.24 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.31 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474830 | n.1173A>T | non_coding_transcript_exon_variant | 0.22 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474831 | n.1174A>T | non_coding_transcript_exon_variant | 0.23 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475483 | n.1826C>T | non_coding_transcript_exon_variant | 0.26 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.22 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.23 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475544 | n.1887A>T | non_coding_transcript_exon_variant | 0.15 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475545 | n.1888T>G | non_coding_transcript_exon_variant | 0.14 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475916 | n.2259C>T | non_coding_transcript_exon_variant | 0.18 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476049 | n.2392C>T | non_coding_transcript_exon_variant | 0.16 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476086 | n.2429G>A | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476088 | n.2431A>C | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476095 | n.2438C>T | non_coding_transcript_exon_variant | 0.21 | capreomycin | |
linezolid | ||||||
rrl | 1476103 | n.2446C>A | non_coding_transcript_exon_variant | 0.21 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476108 | n.2451T>G | non_coding_transcript_exon_variant | 0.22 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476110 | n.2453G>T | non_coding_transcript_exon_variant | 0.2 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476115 | n.2458T>C | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.18 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.23 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476246 | n.2589G>A | non_coding_transcript_exon_variant | 0.19 | capreomycin | |
linezolid | ||||||
rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 0.19 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476583 | n.2926G>A | non_coding_transcript_exon_variant | 0.24 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.23 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476594 | n.2937C>T | non_coding_transcript_exon_variant | 0.23 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476597 | n.2940G>A | non_coding_transcript_exon_variant | 0.23 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476603 | n.2946G>A | non_coding_transcript_exon_variant | 0.23 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476608 | n.2951C>G | non_coding_transcript_exon_variant | 0.25 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476616 | n.2959A>G | non_coding_transcript_exon_variant | 0.2 | capreomycin | |
linezolid | ||||||
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.2 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476665 | n.3008T>A | non_coding_transcript_exon_variant | 0.42 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476674 | n.3017T>C | non_coding_transcript_exon_variant | 0.41 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476679 | n.3022T>A | non_coding_transcript_exon_variant | 0.35 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476689 | n.3032A>T | non_coding_transcript_exon_variant | 0.29 | capreomycin | |
linezolid | ||||||
rrl | 1476690 | n.3033C>T | non_coding_transcript_exon_variant | 0.29 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476693 | n.3036G>A | non_coding_transcript_exon_variant | 0.26 | capreomycin | |
linezolid | ||||||
rrl | 1476695 | n.3038T>A | non_coding_transcript_exon_variant | 0.25 | capreomycin | |
linezolid | ||||||
inhA | 1673380 | c.-822C>G | upstream_gene_variant | 0.24 | isoniazid | |
ethionamide | ||||||
rpsA | 1833724 | c.183C>G | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1833727 | c.186G>C | synonymous_variant | 0.15 | pyrazinamide | |
rpsA | 1833734 | p.Ala65Ser | missense_variant | 0.16 | pyrazinamide | |
rpsA | 1833928 | c.387G>C | synonymous_variant | 0.16 | pyrazinamide | |
rpsA | 1833949 | c.408T>C | synonymous_variant | 0.16 | pyrazinamide | |
rpsA | 1833979 | c.438T>C | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1833988 | c.447C>G | synonymous_variant | 0.2 | pyrazinamide | |
rpsA | 1833991 | c.450C>A | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1834051 | c.510G>A | synonymous_variant | 0.18 | pyrazinamide | |
rpsA | 1834099 | c.558C>G | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1834222 | c.681T>C | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1834225 | c.684C>G | synonymous_variant | 0.14 | pyrazinamide | |
rpsA | 1834231 | c.690T>C | synonymous_variant | 0.13 | pyrazinamide | |
rpsA | 1834249 | c.708T>C | synonymous_variant | 0.15 | pyrazinamide | |
rpsA | 1834348 | c.807T>C | synonymous_variant | 0.21 | pyrazinamide | Not assoc w R - Interim |
rpsA | 1834456 | c.915T>G | synonymous_variant | 0.15 | pyrazinamide | |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.17 | pyrazinamide | |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.16 | pyrazinamide | |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 | 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 |
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 | |||||
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 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 | pyrazinamide | Not assoc w R |
PPE35 | 2168011 | p.Ser868Arg | missense_variant | 0.98 | pyrazinamide | Uncertain significance |
PPE35 | 2168319 | p.Thr765Ile | missense_variant | 1.0 | pyrazinamide | Uncertain significance |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 1.0 | pyrazinamide | Uncertain significance |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.33 | pyrazinamide | |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.32 | pyrazinamide | |
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 | 0.98 | bedaquiline | Not assoc w R - Interim |
clofazimine | Not assoc w R | |||||
kasA | 2517917 | c.-198G>A | upstream_gene_variant | 0.93 | isoniazid | |
kasA | 2517926 | c.-189G>A | upstream_gene_variant | 0.19 | isoniazid | |
kasA | 2517941 | c.-174C>G | upstream_gene_variant | 0.12 | isoniazid | |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 | isoniazid | |
eis | 2715125 | p.Thr70Ala | missense_variant | 1.0 | kanamycin | Uncertain significance |
amikacin | Uncertain significance | |||||
Rv2477c | 2782927 | c.1116A>G | synonymous_variant | 1.0 | kanamycin | Not assoc w R - Interim |
levofloxacin | Not assoc w R - Interim | |||||
moxifloxacin | Not assoc w R - Interim | |||||
streptomycin | Not assoc w R | |||||
rifampicin | Not assoc w R | |||||
ethambutol | Not assoc w R | |||||
amikacin | Not assoc w R - Interim | |||||
Rv2680 | 2995832 | c.-273G>A | upstream_gene_variant | 1.0 | capreomycin | |
Rv2681 | 2997325 | p.Ala196Val | missense_variant | 1.0 | capreomycin | Uncertain significance |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 | cycloserine | |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 | cycloserine | |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 | cycloserine | |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 | ethionamide | Uncertain significance |
lpqB | 3623372 | c.1539G>C | synonymous_variant | 1.0 | rifampicin | Not assoc w R |
bedaquiline | Not assoc w R - Interim | |||||
lpqB | 3623730 | p.Ser394Leu | missense_variant | 1.0 | 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 | |||||
mtrB | 3626996 | c.-383G>C | upstream_gene_variant | 0.16 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627008 | c.-395G>C | upstream_gene_variant | 0.16 | rifampicin | |
bedaquiline | ||||||
mtrB | 3627011 | c.-398T>G | upstream_gene_variant | 0.16 | rifampicin | |
bedaquiline | ||||||
fbiB | 3641590 | p.Gly19Glu | missense_variant | 0.97 | pretomanid | |
delamanid | Uncertain significance | |||||
clofazimine | ||||||
rpoA | 3877613 | p.Ile299Val | missense_variant | 0.21 | rifampicin | |
rpoA | 3877617 | c.891G>C | synonymous_variant | 0.22 | rifampicin | |
rpoA | 3877647 | c.861C>T | synonymous_variant | 0.2 | rifampicin | |
rpoA | 3878247 | c.261G>C | synonymous_variant | 0.19 | rifampicin | |
rpoA | 3878250 | c.258C>G | synonymous_variant | 0.19 | rifampicin | |
rpoA | 3878253 | c.255G>C | synonymous_variant | 0.2 | rifampicin | |
rpoA | 3878264 | p.Ser82Gly | missense_variant | 0.17 | rifampicin | |
rpoA | 3878271 | c.237T>C | synonymous_variant | 0.17 | rifampicin | Not assoc w R - Interim |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4038640 | p.Asp689Asn | missense_variant | 0.2 | pyrazinamide | |
clpC1 | 4038647 | c.2058T>G | synonymous_variant | 0.16 | pyrazinamide | |
clpC1 | 4038683 | c.2022T>C | synonymous_variant | 0.13 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4038704 | c.2001T>C | synonymous_variant | 0.2 | pyrazinamide | |
clpC1 | 4038710 | c.1995G>C | synonymous_variant | 0.19 | pyrazinamide | |
clpC1 | 4038713 | c.1992T>C | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4038726 | p.Thr660Ser | missense_variant | 0.15 | pyrazinamide | |
clpC1 | 4038749 | c.1956C>T | synonymous_variant | 0.16 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4039889 | c.816G>C | synonymous_variant | 0.12 | pyrazinamide | |
clpC1 | 4039898 | c.807C>G | synonymous_variant | 0.17 | pyrazinamide | |
clpC1 | 4039925 | c.780C>T | synonymous_variant | 0.22 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4039931 | c.774T>C | synonymous_variant | 0.23 | pyrazinamide | |
clpC1 | 4039934 | c.771G>C | synonymous_variant | 0.24 | pyrazinamide | |
clpC1 | 4039946 | c.759A>T | synonymous_variant | 0.24 | pyrazinamide | |
clpC1 | 4039952 | c.753T>C | synonymous_variant | 0.21 | pyrazinamide | |
clpC1 | 4039958 | c.747G>C | synonymous_variant | 0.22 | pyrazinamide | |
clpC1 | 4040021 | c.684A>C | synonymous_variant | 0.14 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4040024 | c.681A>G | synonymous_variant | 0.14 | pyrazinamide | |
clpC1 | 4040027 | c.678C>G | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4040030 | c.675C>G | synonymous_variant | 0.15 | pyrazinamide | |
clpC1 | 4040033 | c.672G>C | synonymous_variant | 0.16 | pyrazinamide | |
clpC1 | 4040057 | c.648C>T | synonymous_variant | 0.19 | pyrazinamide | |
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 | 4240671 | p.Thr270Ile | missense_variant | 1.0 | ethambutol | Not assoc w R |
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 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
embB | 4246551 | p.Asn13Ser | missense_variant | 1.0 | ethambutol | Not assoc w R |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 | ethambutol | Not assoc w R |
aftB | 4267858 | p.Ile327Val | missense_variant | 1.0 | ethambutol | Not assoc w R |
ubiA | 4269351 | c.483C>T | synonymous_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 | 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 |