Run ID: SRR13837708
Sample name:
Date: 2024-10-05T04:58:22.108194
Number of reads: 293810
Percentage reads mapped: 97.0
Median coverage: 10.0
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 | embC | p.Tyr296His | Mutation from literature | |
| embB | p.Met482Ile | Mutation from literature | ||
| 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 |
|---|---|---|---|---|---|---|---|
| embC | 4240748 | p.Tyr296His | missense_variant | 1.0 | ethambutol | Mutation from literature | |
| embB | 4247959 | p.Met482Ile | missense_variant | 1.0 | ethambutol | Mutation from literature |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
|---|---|---|---|---|---|---|
| rpoC | 767186 | p.Gln1273* | stop_gained | 1.0 | rifampicin | |
| fbiC | 1305306 | c.2376A>T | synonymous_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| tlyA | 1918560 | c.621G>T | synonymous_variant | 1.0 | capreomycin | |
| bacA | 2063120 | c.1609C>T | synonymous_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | Not assoc w R - Interim | |||||
| amikacin | ||||||
| ndh | 2102402 | p.Leu214Arg | missense_variant | 1.0 | isoniazid | Uncertain significance |
| delamanid | ||||||
| ethionamide | ||||||
| katG | 2156175 | c.-64T>G | upstream_gene_variant | 1.0 | isoniazid | |
| PPE35 | 2169349 | p.Phe422Ile | missense_variant | 1.0 | pyrazinamide | |
| PPE35 | 2170540 | p.Leu25Val | missense_variant | 1.0 | pyrazinamide | |
| pncA | 2288999 | p.Phe81Leu | missense_variant | 1.0 | pyrazinamide | |
| fbiD | 3339660 | c.543C>G | synonymous_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| embB | 4248036 | p.Val508Gly | missense_variant | 1.0 | ethambutol | |
| embB | 4248325 | c.1812G>C | synonymous_variant | 1.0 | ethambutol | |
| ethA | 4326052 | p.Asp474Glu | missense_variant | 1.0 | ethionamide | |
| ethR | 4328162 | p.His205Pro | missense_variant | 1.0 | ethionamide | |
| whiB6 | 4338518 | c.4C>A | synonymous_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| amikacin |
