Run ID: SRR13837605
Sample name:
Date: 2024-10-04T13:26:23.874632
Number of reads: 293835
Percentage reads mapped: 99.0
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 |
|---|---|---|---|---|---|---|
| ccsA | 619641 | c.-250T>C | upstream_gene_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| amikacin | ||||||
| mmpS5 | 779508 | c.-603G>C | upstream_gene_variant | 1.0 | bedaquiline | |
| clofazimine | ||||||
| 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 | |||||
| inhA | 1674552 | c.351C>G | synonymous_variant | 1.0 | isoniazid | |
| ethionamide | ||||||
| bacA | 2063798 | p.Thr311Ser | missense_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| eis | 2714449 | p.Trp295Ser | missense_variant | 1.0 | kanamycin | |
| amikacin | ||||||
| eis | 2714773 | p.Pro187Gln | missense_variant | 1.0 | kanamycin | |
| amikacin | ||||||
| eis | 2715525 | c.-193G>T | upstream_gene_variant | 1.0 | kanamycin | |
| amikacin | ||||||
| folC | 2747455 | c.144C>A | synonymous_variant | 1.0 | para-aminosalicylic_acid | |
| pepQ | 2859723 | c.696T>C | synonymous_variant | 1.0 | bedaquiline | |
| clofazimine | Not assoc w R - Interim | |||||
| ribD | 2987540 | c.702G>T | synonymous_variant | 1.0 | para-aminosalicylic_acid | |
| fbiD | 3339321 | c.204G>A | synonymous_variant | 1.0 | pretomanid | |
| delamanid | ||||||
| clofazimine | ||||||
| ethA | 4326689 | p.Lys262Thr | missense_variant | 1.0 | ethionamide | |
| ethA | 4326849 | p.Pro209Thr | missense_variant | 1.0 | ethionamide |
