Run ID: SRR13837680
Sample name:
Date: 2025-02-11T10:21:48.638166
Number of reads: 293858
Percentage reads mapped: 95.0
Median coverage: 10.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: HR-TB
| 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 | katG | c.926_927insA | Assoc w R | High-level resistance |
| 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 |
|---|---|---|---|---|---|---|---|
| katG | 2155185 | c.926_927insA | frameshift_variant | 1.0 | isoniazid | Assoc w R | High-level resistance |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
|---|---|---|---|---|---|---|
| fgd1 | 490821 | p.Glu13Asp | missense_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| rpoC | 766364 | p.Ala999Ser | missense_variant | 1.0 | rifampicin | |
| mmpL5 | 778992 | c.-512C>T | upstream_gene_variant | 1.0 | bedaquiline | |
| clofazimine | ||||||
| fbiC | 1303186 | p.Tyr86His | missense_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| katG | 2155982 | p.Asn44His | missense_variant | 1.0 | isoniazid | |
| fbiD | 3339188 | p.Thr24Ser | missense_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| whiB7 | 3568496 | p.Pro62Ser | missense_variant | 1.0 | kanamycin | |
| amikacin | ||||||
| streptomycin | ||||||
| fbiA | 3641121 | c.579C>A | synonymous_variant | 0.92 | pretomanid | |
| delamanid | ||||||
| clofazimine | Not assoc w R - Interim | |||||
| clpC1 | 4038346 | p.Glu787* | stop_gained | 1.0 | pyrazinamide | |
| glpK | 4139375 | p.Asp127Glu | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| streptomycin | ||||||
| rifampicin | ||||||
| ethambutol | ||||||
| glpK | 4139545 | p.Leu71Val | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| streptomycin | ||||||
| rifampicin | ||||||
| ethambutol |
