Run ID: SRR13837489
Sample name:
Date: 2024-10-05T06:18:35.787472
Number of reads: 2948210
Percentage reads mapped: 97.33
Median coverage: 98.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: Other
Lineage | Family | RDs | Frequency |
---|---|---|---|
lineage4 | Euro-American | None | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | None | 1.0 |
Drug | Resistance | Supporting mutations | WHO confidence | Comment |
---|---|---|---|---|
rifampicin | ||||
isoniazid | ||||
ethambutol | ||||
pyrazinamide | ||||
streptomycin | ||||
fluoroquinolones | ||||
moxifloxacin | ||||
ofloxacin | ||||
levofloxacin | ||||
ciprofloxacin | ||||
aminoglycosides | ||||
amikacin | ||||
capreomycin | ||||
kanamycin | ||||
cycloserine | ||||
ethionamide | ethA | c.905delT | Assoc w R | |
clofazimine | ||||
para-aminosalicylic_acid | ||||
delamanid | ||||
bedaquiline | ||||
linezolid |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
---|---|---|---|---|---|---|---|
ethA | 4326568 | c.905delT | frameshift_variant | 1.0 | ethionamide | Assoc w R |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
---|---|---|---|---|---|---|
gyrA | 8820 | p.Asp507His | missense_variant | 0.98 | levofloxacin | Uncertain significance |
moxifloxacin | Uncertain significance | |||||
mshA | 575967 | p.Val207Asp | missense_variant | 1.0 | isoniazid | |
ethionamide | ||||||
rpoB | 759961 | p.Thr52Asn | missense_variant | 1.0 | rifampicin | |
rpoB | 763050 | p.Leu1082Met | missense_variant | 1.0 | rifampicin | |
mmpL5 | 775701 | p.Pro927Gln | missense_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
mmpL5 | 778828 | c.-348G>A | upstream_gene_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
rplC | 800500 | c.-309A>C | upstream_gene_variant | 1.0 | linezolid | |
rplC | 801353 | p.Val182Ala | missense_variant | 1.0 | linezolid | |
Rv1129c | 1253966 | p.Leu190Trp | missense_variant | 1.0 | levofloxacin | |
moxifloxacin | ||||||
isoniazid | ||||||
rifampicin | ||||||
fbiC | 1304512 | p.Val528Ile | missense_variant | 0.99 | pretomanid | |
delamanid | ||||||
clofazimine | ||||||
embR | 1417704 | c.-357T>C | upstream_gene_variant | 1.0 | ethambutol | |
rpsA | 1834175 | p.Arg212* | stop_gained | 1.0 | pyrazinamide | Uncertain significance |
katG | 2156840 | c.-729C>T | upstream_gene_variant | 1.0 | isoniazid | |
Rv1979c | 2222085 | c.1080G>C | synonymous_variant | 1.0 | bedaquiline | |
clofazimine | ||||||
ald | 3087218 | p.Met133Ile | missense_variant | 1.0 | cycloserine | |
whiB7 | 3568679 | p.Val1Leu | missense_variant | 1.0 | kanamycin | |
amikacin | ||||||
streptomycin | ||||||
whiB7 | 3568989 | c.-310A>C | upstream_gene_variant | 0.99 | kanamycin | |
amikacin | ||||||
streptomycin | ||||||
mtrB | 3625440 | p.Gly392Arg | missense_variant | 1.0 | rifampicin | |
bedaquiline | ||||||
clpC1 | 4040066 | c.639G>T | synonymous_variant | 1.0 | pyrazinamide | |
embC | 4241259 | c.1397_1398insT | frameshift_variant | 1.0 | ethambutol | |
embA | 4243358 | c.126C>T | synonymous_variant | 1.0 | ethambutol | |
embA | 4243469 | c.237C>T | synonymous_variant | 1.0 | ethambutol | |
embB | 4248436 | c.1923C>T | synonymous_variant | 1.0 | ethambutol | |
ubiA | 4269557 | p.Ala93Pro | missense_variant | 1.0 | ethambutol |