Run ID: SRR13837705
Sample name:
Date: 2024-04-15T05:25:00.776669
Number of reads: 293840
Percentage reads mapped: 100.0
Median coverage: 10.0
Strain: lineage4.9
Spoligotype:
Drug-resistance: Sensitive
| 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 | ||||
| clofazimine | ||||
| para-aminosalicylic_acid | ||||
| delamanid | ||||
| bedaquiline | ||||
| linezolid |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence | Comment |
|---|
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs | Confidence |
|---|---|---|---|---|---|---|
| rpoC | 765111 | p.Met581Lys | missense_variant | 1.0 | rifampicin | |
| rpoC | 765161 | p.Glu598Lys | missense_variant | 1.0 | rifampicin | |
| rpoC | 765540 | p.Ala724Val | missense_variant | 1.0 | rifampicin | |
| rpoC | 767068 | c.3699G>T | synonymous_variant | 1.0 | rifampicin | |
| mmpR5 | 778439 | c.-551C>A | upstream_gene_variant | 1.0 | clofazimine | |
| bedaquiline | ||||||
| rplC | 801357 | p.His183Gln | missense_variant | 1.0 | linezolid | |
| tsnR | 1853872 | c.267G>T | synonymous_variant | 1.0 | linezolid | |
| bacA | 2063805 | c.924G>A | synonymous_variant | 1.0 | streptomycin | |
| kanamycin | ||||||
| capreomycin | ||||||
| amikacin | ||||||
| bacA | 2064585 | c.144C>A | synonymous_variant | 1.0 | streptomycin | |
| kanamycin | ||||||
| capreomycin | ||||||
| amikacin | ||||||
| ndh | 2102525 | p.Phe173Tyr | missense_variant | 1.0 | ethionamide | |
| delamanid | ||||||
| isoniazid | ||||||
| ndh | 2102538 | c.504_505insT | frameshift_variant | 1.0 | ethionamide | Uncertain significance |
| delamanid | Uncertain significance | |||||
| isoniazid | Uncertain significance | |||||
| Rv1979c | 2223052 | p.Glu38Val | missense_variant | 1.0 | clofazimine | |
| bedaquiline | ||||||
| pncA | 2289415 | c.-174C>G | upstream_gene_variant | 1.0 | pyrazinamide | |
| eis | 2714983 | p.Ala117Glu | missense_variant | 1.0 | amikacin | |
| kanamycin | ||||||
| Rv2477c | 2784409 | c.-367T>A | upstream_gene_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| streptomycin | ||||||
| levofloxacin | ||||||
| kanamycin | ||||||
| rifampicin | ||||||
| amikacin | ||||||
| Rv2477c | 2784611 | c.-569A>T | upstream_gene_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| streptomycin | ||||||
| levofloxacin | ||||||
| kanamycin | ||||||
| rifampicin | ||||||
| amikacin | ||||||
| clpC1 | 4039777 | c.927_928insG | frameshift_variant | 1.0 | pyrazinamide | |
| glpK | 4138934 | c.822A>C | synonymous_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| streptomycin | ||||||
| levofloxacin | ||||||
| rifampicin | ||||||
| isoniazid |
