Run ID: SRR13837627
Sample name:
Date: 2024-04-14T00:57:10.626584
Number of reads: 293937
Percentage reads mapped: 95.03
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 | 5922 | p.Glu228Gly | missense_variant | 1.0 | levofloxacin | |
| moxifloxacin | ||||||
| hadA | 732060 | p.Gly44Val | missense_variant | 1.0 | isoniazid | |
| hadA | 732292 | c.363C>T | synonymous_variant | 1.0 | isoniazid | |
| nusG | 734239 | c.-14delG | upstream_gene_variant | 1.0 | rifampicin | |
| rpoB | 761356 | c.1550_1551insA | frameshift_variant | 1.0 | rifampicin | |
| rpoC | 763347 | c.-23C>G | upstream_gene_variant | 1.0 | rifampicin | |
| mmpL5 | 776145 | p.Ala779Gly | missense_variant | 1.0 | clofazimine | |
| bedaquiline | ||||||
| mmpL5 | 776954 | p.Lys509Asn | missense_variant | 1.0 | clofazimine | |
| bedaquiline | ||||||
| rrl | 1476201 | n.2544C>G | non_coding_transcript_exon_variant | 1.0 | capreomycin | |
| linezolid | ||||||
| rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.47 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.47 | capreomycin | Not assoc w R |
| linezolid | Uncertain significance | |||||
| rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.47 | capreomycin | Uncertain significance |
| linezolid | Uncertain significance | |||||
| katG | 2155137 | c.975G>C | synonymous_variant | 1.0 | isoniazid | |
| PPE35 | 2168892 | p.Thr574Lys | missense_variant | 1.0 | pyrazinamide | Uncertain significance |
| Rv1979c | 2222852 | p.Ala105Thr | missense_variant | 1.0 | clofazimine | Uncertain significance |
| bedaquiline | Uncertain significance | |||||
| Rv2752c | 3065161 | p.Asn344Thr | missense_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| levofloxacin | ||||||
| rifampicin | ||||||
| isoniazid | ||||||
| Rv2752c | 3065830 | p.Ile121Thr | missense_variant | 1.0 | ethambutol | |
| moxifloxacin | ||||||
| levofloxacin | ||||||
| rifampicin | ||||||
| isoniazid | ||||||
| fbiD | 3339117 | c.-1C>T | upstream_gene_variant | 1.0 | clofazimine | |
| pretomanid | ||||||
| delamanid | ||||||
| Rv3083 | 3448661 | p.Val53Ala | missense_variant | 1.0 | ethionamide | |
| Rv3236c | 3612041 | p.Val359Glu | missense_variant | 1.0 | pyrazinamide | |
| clpC1 | 4039250 | c.1455C>G | synonymous_variant | 1.0 | pyrazinamide | |
| embC | 4242113 | c.2251C>T | synonymous_variant | 1.0 | ethambutol | |
| embB | 4246367 | c.-147C>T | upstream_gene_variant | 1.0 | ethambutol | |
| whiB6 | 4338567 | c.-46C>T | upstream_gene_variant | 1.0 | capreomycin | |
| amikacin | ||||||
| kanamycin |
