Run ID: SRR1140716
Sample name:
Date: 2024-10-03T18:31:57.735781
Number of reads: 1585937
Percentage reads mapped: 42.72
Median coverage: 27.0
Strain: lineage3
Spoligotype:
Drug-resistance: Other
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage3 | East-African-Indian | RD750 | 0.98 |
Drug | Resistance | Supporting mutations | WHO confidence | Comment |
---|---|---|---|---|
rifampicin | ||||
isoniazid | ||||
ethambutol | ||||
pyrazinamide | ||||
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | gyrA | p.Ala90Val | Assoc w R | Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance) |
p.Asp94Asn | Assoc w R | High-level resistance | ||
ofloxacin | ||||
levofloxacin | gyrA | p.Ala90Val | Assoc w R | |
p.Asp94Asn | Assoc w R | |||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | rrs | n.1402C>A | Uncertain significance | Mutation from literature |
n.1484G>T | Assoc w R | |||
capreomycin | rrs | n.1402C>A | Uncertain significance | Mutation from literature |
n.1484G>T | Assoc w R | |||
kanamycin | rrs | n.1402C>A | Uncertain significance | Mutation from literature |
n.1484G>T | Assoc w R | |||
cycloserine | ||||
ethionamide | ||||
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|---|---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 0.53 | levofloxacin | Assoc w R | |
moxifloxacin | Assoc w R | Low-level resistance (multiple, genetically linked low-level resistance mutations are additive and confer high-level resistance) | |||||
gyrA | 7581 | p.Asp94Asn | missense_variant | 0.32 | levofloxacin | Assoc w R | |
moxifloxacin | Assoc w R | High-level resistance | |||||
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.67 | amikacin | Uncertain significance | Mutation from literature |
capreomycin | Uncertain significance | Mutation from literature | |||||
kanamycin | Uncertain significance | Mutation from literature | |||||
rrs | 1473329 | n.1484G>T | non_coding_transcript_exon_variant | 0.52 | amikacin | Assoc w R | |
capreomycin | Assoc w R | ||||||
kanamycin | Assoc w R |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
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 | 9304 | p.Gly668Asp | missense_variant | 1.0 | levofloxacin | Not assoc w R |
moxifloxacin | 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 | 657081 | c.390G>A | synonymous_variant | 1.0 | ethionamide | Not assoc w R - Interim |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 | rifampicin | Not assoc w R |
rpoB | 761051 | c.1245G>T | synonymous_variant | 0.22 | rifampicin | Not assoc w R - Interim |
rpoB | 761054 | c.1248G>C | synonymous_variant | 0.24 | rifampicin | Not assoc w R - Interim |
rpoB | 761057 | c.1251G>C | synonymous_variant | 0.25 | rifampicin | Not assoc w R - Interim |
rpoB | 761060 | c.1254C>G | synonymous_variant | 0.31 | rifampicin | Not assoc w R - Interim |
rpoB | 761084 | c.1278C>A | synonymous_variant | 0.32 | rifampicin | Not assoc w R - Interim |
rpoB | 762020 | p.Glu738Asp | missense_variant | 0.26 | rifampicin | |
rpoB | 762026 | c.2220G>C | synonymous_variant | 0.26 | rifampicin | |
rpoB | 762030 | p.Thr742Ser | missense_variant | 0.29 | rifampicin | |
rpoB | 762053 | c.2247T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 762057 | p.Ile751Val | missense_variant | 0.23 | rifampicin | Uncertain significance |
rpoB | 762062 | c.2256T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 762065 | c.2259T>C | synonymous_variant | 0.23 | rifampicin | Not assoc w R - Interim |
rpoB | 762080 | c.2274G>C | synonymous_variant | 0.25 | rifampicin | |
rpoB | 762194 | c.2388G>C | synonymous_variant | 0.38 | rifampicin | Not assoc w R - Interim |
rpoB | 762233 | c.2427G>C | synonymous_variant | 0.47 | rifampicin | Not assoc w R - Interim |
rpoB | 762245 | c.2439G>T | synonymous_variant | 0.44 | rifampicin | |
rpoB | 762251 | c.2445G>C | synonymous_variant | 0.48 | rifampicin | |
rpoB | 762254 | c.2448T>G | synonymous_variant | 0.5 | rifampicin | |
rpoB | 762257 | c.2451C>G | synonymous_variant | 0.52 | rifampicin | |
rpoB | 762273 | p.Ala823Ser | missense_variant | 0.47 | rifampicin | |
rpoB | 762278 | c.2472C>T | synonymous_variant | 0.44 | rifampicin | |
rpoB | 762284 | c.2478G>C | synonymous_variant | 0.46 | rifampicin | Not assoc w R - Interim |
rpoB | 762887 | c.3081G>C | synonymous_variant | 0.16 | rifampicin | Not assoc w R - Interim |
rpoC | 762896 | c.-474G>C | upstream_gene_variant | 0.19 | rifampicin | |
rpoB | 762899 | c.3093G>C | synonymous_variant | 0.26 | rifampicin | Not assoc w R - Interim |
rpoB | 762917 | c.3111C>G | synonymous_variant | 0.29 | rifampicin | Not assoc w R - Interim |
rpoB | 762923 | c.3117C>G | synonymous_variant | 0.3 | rifampicin | Not assoc w R - Interim |
rpoB | 762929 | c.3123G>T | synonymous_variant | 0.3 | rifampicin | Not assoc w R - Interim |
rpoC | 762980 | c.-390T>C | upstream_gene_variant | 0.38 | rifampicin | |
rpoC | 762983 | c.-387C>T | upstream_gene_variant | 0.36 | rifampicin | |
rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.27 | rifampicin | |
rpoB | 762995 | c.3189G>T | synonymous_variant | 0.25 | rifampicin | Not assoc w R - Interim |
rpoB | 763031 | c.3225T>C | synonymous_variant | 1.0 | rifampicin | Not assoc w R |
rpoC | 763483 | c.114G>C | synonymous_variant | 0.22 | rifampicin | |
rpoC | 763486 | c.117T>G | synonymous_variant | 0.21 | rifampicin | |
rpoC | 763504 | c.135C>A | synonymous_variant | 0.4 | rifampicin | |
rpoC | 763507 | c.138G>C | synonymous_variant | 0.43 | rifampicin | |
rpoC | 763528 | c.159G>C | synonymous_variant | 0.58 | rifampicin | |
rpoC | 763531 | c.162G>C | synonymous_variant | 0.59 | rifampicin | Not assoc w R |
rpoC | 763534 | c.165T>C | synonymous_variant | 0.59 | rifampicin | |
rpoC | 763537 | c.168C>T | synonymous_variant | 0.59 | rifampicin | |
rpoC | 763546 | c.177A>G | synonymous_variant | 0.6 | rifampicin | Not assoc w R - Interim |
rpoC | 763550 | p.Tyr61Ala | missense_variant | 0.58 | rifampicin | |
rpoC | 763570 | c.201G>C | synonymous_variant | 0.58 | rifampicin | Not assoc w R - Interim |
rpoC | 763585 | c.216C>G | synonymous_variant | 0.63 | rifampicin | |
rpoC | 763621 | c.252C>T | synonymous_variant | 0.68 | rifampicin | |
rpoC | 763633 | c.264T>C | synonymous_variant | 0.69 | rifampicin | Not assoc w R - Interim |
rpoC | 763642 | c.273G>C | synonymous_variant | 0.64 | rifampicin | Not assoc w R - Interim |
rpoC | 763660 | c.291T>C | synonymous_variant | 0.6 | rifampicin | Not assoc w R - Interim |
rpoC | 763666 | c.297G>T | synonymous_variant | 0.59 | rifampicin | |
rpoC | 763696 | c.327T>C | synonymous_variant | 0.33 | rifampicin | Not assoc w R - Interim |
rpoC | 763699 | c.330G>T | synonymous_variant | 0.28 | rifampicin | |
rpoC | 764542 | c.1173C>G | synonymous_variant | 0.44 | rifampicin | |
rpoC | 764548 | c.1179G>A | synonymous_variant | 0.49 | rifampicin | |
rpoC | 764560 | c.1191T>C | synonymous_variant | 0.53 | rifampicin | Not assoc w R - Interim |
rpoC | 764575 | c.1206T>G | synonymous_variant | 0.57 | rifampicin | Not assoc w R - Interim |
rpoC | 764578 | c.1209C>G | synonymous_variant | 0.56 | rifampicin | |
rpoC | 764581 | c.1212T>C | synonymous_variant | 0.56 | rifampicin | |
rpoC | 764582 | p.Leu405Met | missense_variant | 0.54 | rifampicin | |
rpoC | 764611 | c.1242G>C | synonymous_variant | 0.47 | rifampicin | |
rpoC | 764632 | c.1263T>C | synonymous_variant | 0.32 | rifampicin | Not assoc w R - Interim |
rpoC | 764650 | c.1281G>T | synonymous_variant | 0.21 | rifampicin | Not assoc w R - Interim |
rpoC | 764716 | c.1347G>C | synonymous_variant | 0.29 | rifampicin | Not assoc w R - Interim |
rpoC | 764737 | c.1368G>C | synonymous_variant | 0.41 | rifampicin | |
rpoC | 764746 | c.1377G>C | synonymous_variant | 0.38 | rifampicin | |
rpoC | 764752 | c.1383G>C | synonymous_variant | 0.35 | rifampicin | Not assoc w R - Interim |
rpoC | 764755 | c.1386C>T | synonymous_variant | 0.36 | rifampicin | |
rpoC | 764764 | c.1395T>C | synonymous_variant | 0.29 | 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 | 0.98 | levofloxacin | Not assoc w R |
moxifloxacin | Not assoc w R | |||||
isoniazid | Not assoc w R | |||||
rifampicin | Not assoc w R | |||||
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1471889 | n.44G>T | non_coding_transcript_exon_variant | 0.25 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472120 | n.275G>A | non_coding_transcript_exon_variant | 0.29 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472148 | n.303T>C | non_coding_transcript_exon_variant | 0.39 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.4 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.48 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472223 | n.378C>G | non_coding_transcript_exon_variant | 0.38 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.38 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472228 | n.383G>C | non_coding_transcript_exon_variant | 0.39 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472245 | n.400C>A | non_coding_transcript_exon_variant | 0.31 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472251 | n.406G>C | non_coding_transcript_exon_variant | 0.3 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472344 | n.499C>T | non_coding_transcript_exon_variant | 0.38 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472380 | n.535G>A | non_coding_transcript_exon_variant | 0.41 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472400 | n.555C>T | non_coding_transcript_exon_variant | 0.41 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472484 | n.639A>T | non_coding_transcript_exon_variant | 0.23 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472494 | n.649A>G | non_coding_transcript_exon_variant | 0.27 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472496 | n.651T>A | non_coding_transcript_exon_variant | 0.27 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | ||||||
amikacin | Uncertain significance | |||||
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.29 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472506 | n.661A>T | non_coding_transcript_exon_variant | 0.32 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.47 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472572 | n.727T>A | non_coding_transcript_exon_variant | 0.52 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.46 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472591 | n.746G>A | non_coding_transcript_exon_variant | 0.46 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472607 | n.762G>A | non_coding_transcript_exon_variant | 0.5 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472714 | n.869A>G | non_coding_transcript_exon_variant | 0.49 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.51 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.46 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.49 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1472952 | n.1107T>C | non_coding_transcript_exon_variant | 0.54 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472955 | n.1110C>T | non_coding_transcript_exon_variant | 0.53 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.54 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.54 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 0.59 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.66 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.64 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.62 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.62 | kanamycin | Not assoc w R |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.56 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1473047 | n.1202C>T | non_coding_transcript_exon_variant | 0.48 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.36 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.34 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.31 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.34 | kanamycin | Uncertain significance |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.38 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473130 | n.1285G>A | non_coding_transcript_exon_variant | 0.46 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473147 | n.1302G>T | non_coding_transcript_exon_variant | 0.58 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473148 | n.1303G>A | non_coding_transcript_exon_variant | 0.58 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473157 | n.1312C>T | non_coding_transcript_exon_variant | 0.66 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473163 | n.1318C>T | non_coding_transcript_exon_variant | 0.71 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473164 | n.1319C>A | non_coding_transcript_exon_variant | 0.7 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.64 | kanamycin | Not assoc w R |
capreomycin | Not assoc w R | |||||
streptomycin | Uncertain significance | |||||
amikacin | Not assoc w R | |||||
rrs | 1473276 | n.1431A>G | non_coding_transcript_exon_variant | 0.57 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473288 | n.1443delCinsAGTTT | non_coding_transcript_exon_variant | 0.4 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473291 | n.1446G>T | non_coding_transcript_exon_variant | 0.43 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | ||||||
amikacin | Uncertain significance | |||||
rrs | 1473298 | n.1453A>G | non_coding_transcript_exon_variant | 0.44 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473301 | n.1456T>C | non_coding_transcript_exon_variant | 0.42 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473305 | n.1460G>T | non_coding_transcript_exon_variant | 0.43 | kanamycin | |
capreomycin | ||||||
streptomycin | ||||||
amikacin | ||||||
rrs | 1473315 | n.1470T>C | non_coding_transcript_exon_variant | 0.45 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473316 | n.1471C>T | non_coding_transcript_exon_variant | 0.46 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrs | 1473319 | n.1474C>T | non_coding_transcript_exon_variant | 0.47 | kanamycin | Uncertain significance |
capreomycin | Uncertain significance | |||||
streptomycin | Uncertain significance | |||||
amikacin | Uncertain significance | |||||
rrl | 1474551 | n.894G>C | non_coding_transcript_exon_variant | 0.32 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474558 | n.901G>T | non_coding_transcript_exon_variant | 0.44 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.44 | capreomycin | |
linezolid | ||||||
rrl | 1474636 | n.979A>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1474637 | n.980C>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1474638 | n.981C>G | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474639 | n.982G>C | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474663 | n.1006C>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474673 | n.1016T>C | non_coding_transcript_exon_variant | 0.36 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474676 | n.1019T>C | non_coding_transcript_exon_variant | 0.38 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474806 | n.1149A>G | non_coding_transcript_exon_variant | 0.6 | capreomycin | |
linezolid | ||||||
rrl | 1474822 | n.1165G>T | non_coding_transcript_exon_variant | 0.65 | capreomycin | |
linezolid | ||||||
rrl | 1474827 | n.1170C>T | non_coding_transcript_exon_variant | 0.64 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.65 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1474905 | n.1248T>A | non_coding_transcript_exon_variant | 0.44 | capreomycin | |
linezolid | ||||||
rrl | 1474927 | n.1271delC | non_coding_transcript_exon_variant | 0.22 | capreomycin | |
linezolid | ||||||
rrl | 1474932 | n.1275C>T | non_coding_transcript_exon_variant | 0.17 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475124 | n.1467A>T | non_coding_transcript_exon_variant | 0.26 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475129 | n.1472G>A | non_coding_transcript_exon_variant | 0.28 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475672 | n.2015C>T | non_coding_transcript_exon_variant | 0.21 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475696 | n.2039T>A | non_coding_transcript_exon_variant | 0.38 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475697 | n.2040C>T | non_coding_transcript_exon_variant | 0.4 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475699 | n.2042C>T | non_coding_transcript_exon_variant | 0.4 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475703 | n.2046A>T | non_coding_transcript_exon_variant | 0.4 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475763 | n.2106C>T | non_coding_transcript_exon_variant | 0.5 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475883 | n.2226A>T | non_coding_transcript_exon_variant | 0.7 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.69 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475897 | n.2240T>C | non_coding_transcript_exon_variant | 0.67 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.67 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.67 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1475916 | n.2259C>T | non_coding_transcript_exon_variant | 0.71 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.73 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.66 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475963 | n.2306G>A | non_coding_transcript_exon_variant | 0.58 | capreomycin | |
linezolid | ||||||
rrl | 1475975 | n.2318C>T | non_coding_transcript_exon_variant | 0.4 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475977 | n.2320A>G | non_coding_transcript_exon_variant | 0.37 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475978 | n.2321C>T | non_coding_transcript_exon_variant | 0.36 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1475988 | n.2331A>G | non_coding_transcript_exon_variant | 0.33 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1475989 | n.2332T>G | non_coding_transcript_exon_variant | 0.32 | capreomycin | |
linezolid | ||||||
rrl | 1475990 | n.2333G>C | non_coding_transcript_exon_variant | 0.32 | capreomycin | |
linezolid | ||||||
rrl | 1475997 | n.2340A>G | non_coding_transcript_exon_variant | 0.3 | capreomycin | |
linezolid | ||||||
rrl | 1475998 | n.2341C>T | non_coding_transcript_exon_variant | 0.3 | capreomycin | |
linezolid | Uncertain significance | |||||
rrl | 1476130 | n.2473G>A | non_coding_transcript_exon_variant | 0.32 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476131 | n.2474C>T | non_coding_transcript_exon_variant | 0.32 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476164 | n.2507A>G | non_coding_transcript_exon_variant | 0.54 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476165 | n.2508T>A | non_coding_transcript_exon_variant | 0.54 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476194 | n.2537A>G | non_coding_transcript_exon_variant | 0.41 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476200 | n.2543A>T | non_coding_transcript_exon_variant | 0.39 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476201 | n.2544C>T | non_coding_transcript_exon_variant | 0.4 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476214 | n.2557G>T | non_coding_transcript_exon_variant | 0.3 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.3 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476337 | n.2680C>T | non_coding_transcript_exon_variant | 0.51 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 0.55 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.61 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.72 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.71 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.69 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.52 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.37 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476519 | n.2862C>T | non_coding_transcript_exon_variant | 0.34 | capreomycin | |
linezolid | Uncertain significance | |||||
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.28 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.28 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476530 | n.2873C>T | non_coding_transcript_exon_variant | 0.28 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476534 | n.2877A>T | non_coding_transcript_exon_variant | 0.27 | capreomycin | |
linezolid | ||||||
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.26 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476539 | n.2882A>G | non_coding_transcript_exon_variant | 0.26 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476540 | n.2883C>G | non_coding_transcript_exon_variant | 0.3 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476547 | n.2890C>T | non_coding_transcript_exon_variant | 0.39 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476584 | n.2927C>T | non_coding_transcript_exon_variant | 0.41 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476585 | n.2928A>G | non_coding_transcript_exon_variant | 0.41 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476594 | n.2937C>A | non_coding_transcript_exon_variant | 0.45 | capreomycin | |
linezolid | ||||||
rrl | 1476603 | n.2946G>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | |
linezolid | ||||||
rrl | 1476607 | n.2950C>T | non_coding_transcript_exon_variant | 0.43 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476608 | n.2951C>G | non_coding_transcript_exon_variant | 0.43 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
rrl | 1476614 | n.2957A>T | non_coding_transcript_exon_variant | 0.45 | capreomycin | |
linezolid | ||||||
rrl | 1476616 | n.2959A>G | non_coding_transcript_exon_variant | 0.45 | capreomycin | |
linezolid | ||||||
rrl | 1476619 | n.2962C>T | non_coding_transcript_exon_variant | 0.47 | capreomycin | Not assoc w R |
linezolid | Uncertain significance | |||||
rrl | 1476628 | n.2971T>G | non_coding_transcript_exon_variant | 0.42 | capreomycin | |
linezolid | ||||||
rrl | 1476629 | n.2972C>A | non_coding_transcript_exon_variant | 0.41 | capreomycin | Uncertain significance |
linezolid | ||||||
rrl | 1476661 | n.3004A>G | non_coding_transcript_exon_variant | 0.36 | capreomycin | Uncertain significance |
linezolid | Uncertain significance | |||||
inhA | 1673816 | c.-386G>A | upstream_gene_variant | 1.0 | isoniazid | Uncertain significance |
ethionamide | Uncertain significance | |||||
rpsA | 1834378 | c.837T>G | synonymous_variant | 0.24 | pyrazinamide | |
rpsA | 1834387 | c.846C>T | synonymous_variant | 0.32 | pyrazinamide | |
rpsA | 1834395 | p.Arg285Gln | missense_variant | 0.38 | pyrazinamide | |
rpsA | 1834408 | c.867C>G | synonymous_variant | 0.39 | pyrazinamide | |
rpsA | 1834411 | c.870T>C | synonymous_variant | 0.38 | pyrazinamide | |
rpsA | 1834416 | p.Ala292Val | missense_variant | 0.39 | pyrazinamide | |
rpsA | 1834423 | c.882G>C | synonymous_variant | 0.46 | pyrazinamide | |
rpsA | 1834451 | c.910_912delTTGinsCTC | synonymous_variant | 0.51 | pyrazinamide | |
rpsA | 1834468 | c.927A>G | synonymous_variant | 0.5 | pyrazinamide | |
rpsA | 1834474 | c.933C>G | synonymous_variant | 0.57 | pyrazinamide | |
rpsA | 1834486 | p.Glu315Asp | missense_variant | 0.52 | pyrazinamide | |
rpsA | 1834489 | c.948T>C | synonymous_variant | 0.5 | pyrazinamide | |
rpsA | 1834501 | c.960G>C | synonymous_variant | 0.32 | pyrazinamide | |
rpsA | 1834504 | c.963G>C | synonymous_variant | 0.37 | pyrazinamide | |
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 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 | isoniazid | Not assoc w R |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 | pyrazinamide | 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 | |||||
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 | pyrazinamide | Not assoc w R |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 | pyrazinamide | |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 | isoniazid | Not assoc w R |
Rv2477c | 2782498 | c.1545C>T | synonymous_variant | 1.0 | kanamycin | Not assoc w R |
levofloxacin | Not assoc w R | |||||
moxifloxacin | Not assoc w R | |||||
streptomycin | Not assoc w R - Interim | |||||
rifampicin | Not assoc w R | |||||
ethambutol | Not assoc w R | |||||
amikacin | Not assoc w R | |||||
thyX | 3067987 | c.-42C>T | upstream_gene_variant | 0.97 | para-aminosalicylic_acid | |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 | cycloserine | |
mtrB | 3625065 | p.Met517Leu | missense_variant | 1.0 | rifampicin | Not assoc w R |
bedaquiline | Uncertain significance | |||||
clpC1 | 4040002 | p.His235Asn | missense_variant | 0.19 | pyrazinamide | |
clpC1 | 4040003 | c.702G>C | synonymous_variant | 0.2 | pyrazinamide | |
clpC1 | 4040009 | c.696C>G | synonymous_variant | 0.3 | pyrazinamide | |
clpC1 | 4040021 | c.684A>T | synonymous_variant | 0.32 | pyrazinamide | |
clpC1 | 4040024 | c.681A>G | synonymous_variant | 0.31 | pyrazinamide | |
clpC1 | 4040030 | c.675C>G | synonymous_variant | 0.36 | pyrazinamide | |
clpC1 | 4040033 | c.672G>C | synonymous_variant | 0.37 | pyrazinamide | |
clpC1 | 4040063 | c.642G>C | synonymous_variant | 0.37 | pyrazinamide | Not assoc w R - Interim |
clpC1 | 4040066 | c.639G>T | synonymous_variant | 0.34 | pyrazinamide | |
clpC1 | 4040081 | c.624C>G | synonymous_variant | 0.28 | pyrazinamide | |
panD | 4044872 | c.-591C>T | upstream_gene_variant | 1.0 | pyrazinamide | |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 | ethambutol | Not assoc w R |
embC | 4242643 | c.2781C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
embB | 4247358 | p.Val282Ala | missense_variant | 0.75 | ethambutol | Uncertain significance |
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 |