Run ID: ERR6197027
Sample name:
Date: 2025-02-11T09:43:45.896484
Number of reads: 2065978
Percentage reads mapped: 95.87
Median coverage: 65.0
Strain: lineage4.7
Spoligotype:
Drug-resistance: Sensitive
| Lineage | Family | RDs | Frequency |
|---|---|---|---|
| lineage4.7 | Euro-American (mainly T) | None | 0.98 |
| lineage4 | Euro-American | 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 |
|---|---|---|---|---|---|---|
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 | levofloxacin | Not assoc w R |
| moxifloxacin | Not assoc w R | |||||
| Rv0010c | 13636 | c.-78A>G | upstream_gene_variant | 1.0 | isoniazid | Uncertain significance |
| rpoC | 762989 | c.-381G>C | upstream_gene_variant | 0.12 | rifampicin | |
| rpoB | 763005 | p.Cys1067Val | missense_variant | 0.12 | rifampicin | |
| rpoB | 763028 | c.3222T>C | synonymous_variant | 0.11 | rifampicin | Not assoc w R - Interim |
| rpoB | 763053 | c.3247T>C | synonymous_variant | 0.12 | rifampicin | Not assoc w R - Interim |
| rpoB | 763070 | c.3264T>C | synonymous_variant | 0.1 | rifampicin | Not assoc w R - Interim |
| rpoC | 763570 | c.201G>C | synonymous_variant | 0.1 | rifampicin | 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 |
| Rv1129c | 1253651 | p.Ala295Val | missense_variant | 0.98 | levofloxacin | |
| moxifloxacin | ||||||
| isoniazid | ||||||
| rifampicin | ||||||
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 | kanamycin | |
| capreomycin | ||||||
| streptomycin | ||||||
| amikacin | ||||||
| rrl | 1476215 | n.2558C>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476245 | n.2588C>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476250 | n.2593C>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476252 | n.2595T>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476256 | n.2599A>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476257 | n.2600G>C | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | Not assoc w R |
| linezolid | Uncertain significance | |||||
| rrl | 1476262 | n.2605G>A | non_coding_transcript_exon_variant | 0.86 | capreomycin | |
| linezolid | ||||||
| rrl | 1476281 | n.2624T>C | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476297 | n.2640C>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476298 | n.2641C>A | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
| linezolid | ||||||
| rrl | 1476300 | n.2643G>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
| linezolid | ||||||
| rrl | 1476301 | n.2644A>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476307 | n.2650A>T | non_coding_transcript_exon_variant | 0.88 | capreomycin | |
| linezolid | ||||||
| rrl | 1476309 | n.2652G>T | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
| linezolid | ||||||
| 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 | |||||
| pncA | 2289200 | c.42C>T | synonymous_variant | 1.0 | pyrazinamide | |
| embC | 4242643 | c.2781C>T | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
| embB | 4249732 | c.3219C>G | synonymous_variant | 1.0 | ethambutol | Not assoc w R |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 | kanamycin | Not assoc w R |
| capreomycin | Not assoc w R | |||||
| amikacin | Not assoc w R |
