Run ID: SRR13837606
Sample name:
Date: 2025-02-11T11:27:41.650394
Number of reads: 293802
Percentage reads mapped: 96.0
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 | ||||
| pyrazinamide | ||||
| streptomycin | ||||
| fluoroquinolones | ||||
| moxifloxacin | ||||
| ofloxacin | ||||
| levofloxacin | ||||
| ciprofloxacin | ||||
| aminoglycosides | ||||
| amikacin | ||||
| capreomycin | ||||
| kanamycin | ||||
| cycloserine | ||||
| ethionamide | ethA | p.Trp45* | Assoc w R | |
| clofazimine | ||||
| para-aminosalicylic_acid | ||||
| delamanid | ||||
| bedaquiline | ||||
| linezolid |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
|---|---|---|---|---|---|---|---|
| ethA | 4327340 | p.Trp45* | stop_gained | 1.0 | ethionamide | Assoc w R |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
|---|---|---|---|---|---|---|
| gyrA | 8646 | p.Gln449Lys | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| gyrA | 9604 | p.Val768Ala | missense_variant | 1.0 | levofloxacin | Uncertain significance |
| moxifloxacin | Uncertain significance | |||||
| Rv0010c | 13326 | c.232delC | frameshift_variant | 1.0 | isoniazid | Uncertain significance |
| ccsA | 619641 | c.-250T>C | upstream_gene_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| amikacin | ||||||
| ccsA | 620748 | c.858T>G | synonymous_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| amikacin | ||||||
| Rv0565c | 656228 | p.Ala415Ser | missense_variant | 1.0 | ethionamide | |
| mmaA3 | 738274 | c.-125A>T | upstream_gene_variant | 1.0 | isoniazid | |
| rpoB | 761853 | p.Ile683Val | missense_variant | 1.0 | rifampicin | |
| mmpL5 | 777509 | c.972G>T | synonymous_variant | 1.0 | bedaquiline | |
| clofazimine | ||||||
| mmpS5 | 779508 | c.-603G>C | upstream_gene_variant | 1.0 | bedaquiline | |
| clofazimine | ||||||
| Rv1258c | 1406904 | c.436dupT | frameshift_variant | 1.0 | streptomycin | Uncertain significance |
| pyrazinamide | Uncertain significance | |||||
| isoniazid | Uncertain significance | |||||
| Rv1258c | 1407127 | p.Arg72Ser | missense_variant | 1.0 | streptomycin | |
| pyrazinamide | ||||||
| isoniazid | ||||||
| rrs | 1472973 | n.1128A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin | Uncertain significance |
| capreomycin | Uncertain significance | |||||
| streptomycin | Uncertain significance | |||||
| amikacin | Uncertain significance | |||||
| rpsA | 1834079 | p.Arg180Cys | missense_variant | 1.0 | pyrazinamide | |
| bacA | 2063798 | p.Thr311Ser | missense_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| eis | 2714449 | p.Trp295Ser | missense_variant | 1.0 | kanamycin | |
| amikacin | ||||||
| pepQ | 2859723 | c.696T>C | synonymous_variant | 1.0 | bedaquiline | |
| clofazimine | Not assoc w R - Interim | |||||
| fbiD | 3339321 | c.204G>A | synonymous_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| clpC1 | 4038436 | p.Ala757Ser | missense_variant | 1.0 | pyrazinamide | |
| whiB6 | 4338822 | c.-301A>C | upstream_gene_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| amikacin |
