Run ID: SRR13837688
Sample name:
Date: 2024-04-14T15:10:39.745537
Number of reads: 294504
Percentage reads mapped: 98.23
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.Ser424* | Assoc w R | |
| clofazimine | ||||
| para-aminosalicylic_acid | ||||
| delamanid | ||||
| bedaquiline | ||||
| linezolid |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
|---|---|---|---|---|---|---|---|
| ethA | 4326203 | p.Ser424* | stop_gained | 1.0 | ethionamide | Assoc w R |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
|---|---|---|---|---|---|---|
| dnaA | 1057 | p.Val353Leu | missense_variant | 1.0 | isoniazid | Uncertain significance |
| gyrB | 5832 | p.Ala198Gly | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| gyrA | 6976 | c.-326A>G | upstream_gene_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| ccsA | 619735 | c.-156G>C | upstream_gene_variant | 1.0 | capreomycin | |
| amikacin | ||||||
| kanamycin | ||||||
| rpoB | 759609 | c.-198C>A | upstream_gene_variant | 1.0 | rifampicin | Uncertain significance |
| rpoC | 763050 | c.-320C>T | upstream_gene_variant | 1.0 | rifampicin | |
| mmpS5 | 778642 | p.Trp88* | stop_gained | 1.0 | clofazimine | Uncertain significance |
| bedaquiline | Uncertain significance | |||||
| tlyA | 1918625 | p.Pro229Leu | missense_variant | 1.0 | capreomycin | |
| ndh | 2103309 | c.-267C>T | upstream_gene_variant | 1.0 | ethionamide | |
| delamanid | ||||||
| isoniazid | ||||||
| Rv2477c | 2784427 | c.-385T>C | upstream_gene_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| streptomycin | ||||||
| levofloxacin | ||||||
| kanamycin | ||||||
| rifampicin | ||||||
| amikacin | ||||||
| Rv2752c | 3066881 | c.-690C>A | upstream_gene_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| levofloxacin | ||||||
| rifampicin | ||||||
| isoniazid | ||||||
| whiB7 | 3568676 | p.Ser2Ala | missense_variant | 1.0 | streptomycin | Uncertain significance |
| amikacin | Uncertain significance | |||||
| kanamycin | Uncertain significance | |||||
| alr | 3840783 | c.637_638insT | frameshift_variant | 1.0 | cycloserine | |
| clpC1 | 4038326 | p.Glu793Asp | missense_variant | 1.0 | pyrazinamide | |
| embC | 4241026 | c.1164C>G | synonymous_variant | 1.0 | ethambutol | |
| embB | 4247398 | c.885G>T | synonymous_variant | 1.0 | ethambutol | |
| embB | 4249328 | p.Met939Leu | missense_variant | 1.0 | ethambutol |
