Run ID: ERR4817035
Sample name:
Date: 2025-05-11T23:45:52.409102
Number of reads: 3754473
Percentage reads mapped: 99.77
Median coverage: 80.0
Strain: lineage4.8
Spoligotype:
Drug-resistance: Sensitive
| Lineage | Family | RDs | Frequency |
|---|---|---|---|
| lineage4 | Euro-American | None | 1.0 |
| lineage4.8 | Euro-American (mainly T) | RD219 | 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 |
|---|---|---|---|---|---|---|
| dnaA | 371 | p.Pro124Leu | missense_variant | 1.0 | isoniazid | Not assoc w R |
| gyrB | 4973 | c.-267G>A | upstream_gene_variant | 1.0 | levofloxacin | Uncertain significance |
| moxifloxacin | Uncertain significance | |||||
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 | levofloxacin | Not assoc w R |
| moxifloxacin | Not assoc w R | |||||
| gyrA | 8824 | p.Glu508Ala | missense_variant | 1.0 | levofloxacin | Uncertain significance |
| moxifloxacin | Uncertain significance | |||||
| mshA | 576316 | c.969A>G | synonymous_variant | 1.0 | ethionamide | Not assoc w R - Interim |
| isoniazid | Not assoc w R - Interim | |||||
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 | bedaquiline | Not assoc w R - Interim |
| clofazimine | Not assoc w R | |||||
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 | streptomycin | Not assoc w R |
| Rv1258c | 1407106 | p.Asp79Asn | missense_variant | 1.0 | isoniazid | Uncertain significance |
| pyrazinamide | Uncertain significance | |||||
| streptomycin | Uncertain significance | |||||
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | amikacin | Uncertain significance |
| capreomycin | Uncertain significance | |||||
| kanamycin | Uncertain significance | |||||
| streptomycin | Uncertain significance | |||||
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 | capreomycin | Not assoc w R |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 | bedaquiline | Not assoc w R - Interim |
| clofazimine | Not assoc w R | |||||
| Rv2477c | 2782425 | p.Leu540Phe | missense_variant | 1.0 | amikacin | Uncertain significance |
| ethambutol | Uncertain significance | |||||
| kanamycin | Uncertain significance | |||||
| levofloxacin | Uncertain significance | |||||
| moxifloxacin | Uncertain significance | |||||
| rifampicin | Uncertain significance | |||||
| streptomycin | Uncertain significance | |||||
| Rv3083 | 3448507 | c.5_*1407del | frameshift_variant&stop_lost&splice_region_variant | 1.0 | ethionamide | Uncertain significance |
| fbiA | 3640377 | c.-166G>A | upstream_gene_variant | 1.0 | clofazimine | Uncertain significance |
| delamanid | Uncertain significance | |||||
| pretomanid | Uncertain significance | |||||
| alr | 3840764 | c.657G>C | synonymous_variant | 0.99 | cycloserine | Uncertain significance |
| embC | 4242643 | c.2781C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
| aftB | 4267319 | c.1518C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R - Interim |
| ethA | 4327500 | c.-28_-27insCC | upstream_gene_variant | 1.0 | ethionamide | Uncertain significance |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 | amikacin | Not assoc w R |
| capreomycin | Not assoc w R | |||||
| kanamycin | Not assoc w R |
