Run ID: SRR13837619
Sample name:
Date: 2024-10-05T14:21:10.042138
Number of reads: 294314
Percentage reads mapped: 97.18
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 |
|---|---|---|---|---|---|---|
| gyrB | 6667 | p.Gln476His | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| gyrA | 7289 | c.-13_-12insT | upstream_gene_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| rpoB | 760214 | p.Asn136Lys | missense_variant | 1.0 | rifampicin | |
| Rv1129c | 1253228 | p.Asp436Ala | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| rifampicin | ||||||
| Rv1129c | 1253885 | p.Lys217Arg | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| rifampicin | ||||||
| rrs | 1471943 | n.98T>C | non_coding_transcript_exon_variant | 1.0 | kanamycin | Uncertain significance |
| capreomycin | Uncertain significance | |||||
| streptomycin | Uncertain significance | |||||
| amikacin | Uncertain significance | |||||
| rrs | 1472075 | n.230A>C | non_coding_transcript_exon_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| rrs | 1473370 | n.1525T>C | non_coding_transcript_exon_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| inhA | 1673813 | c.-389G>T | upstream_gene_variant | 1.0 | isoniazid | |
| ethionamide | ||||||
| inhA | 1674784 | p.Arg195Gly | missense_variant | 1.0 | isoniazid | |
| ethionamide | ||||||
| bacA | 2064693 | p.Trp12Cys | missense_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| kasA | 2519223 | p.Thr370Ile | missense_variant | 1.0 | isoniazid | |
| ahpC | 2726213 | c.21C>T | synonymous_variant | 1.0 | isoniazid | |
| ribD | 2987016 | p.Gly60Arg | missense_variant | 1.0 | para-aminosalicylic_acid | |
| Rv2680 | 2996618 | p.Trp172Arg | missense_variant | 1.0 | capreomycin | |
| Rv2681 | 2997515 | c.777T>G | synonymous_variant | 1.0 | capreomycin | |
| Rv2752c | 3066590 | c.-399A>G | upstream_gene_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| rifampicin | ||||||
| ethambutol | ||||||
| thyA | 3074595 | c.-124C>A | upstream_gene_variant | 1.0 | para-aminosalicylic_acid | |
| lpqB | 3624763 | p.Val50Leu | missense_variant | 1.0 | rifampicin | |
| bedaquiline | ||||||
| embC | 4242810 | p.Leu983Gln | missense_variant | 1.0 | ethambutol | |
| gid | 4408480 | c.-278G>C | upstream_gene_variant | 1.0 | streptomycin |
