Run ID: SRR6152905
Sample name:
Date: 19-10-2023 11:18:57
Number of reads: 5847420
Percentage reads mapped: 99.72
Strain: lineage2.1
Drug-resistance: HR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | ||
| Isoniazid | R | fabG1 c.-15C>T (1.00), katG p.Ala110Val (0.99) |
| Ethambutol | ||
| Pyrazinamide | ||
| Streptomycin | ||
| Fluoroquinolones | ||
| Moxifloxacin | ||
| Ofloxacin | ||
| Levofloxacin | ||
| Ciprofloxacin | ||
| Aminoglycosides | ||
| Amikacin | ||
| Capreomycin | ||
| Kanamycin | ||
| Cycloserine | ||
| Ethionamide | R | fabG1 c.-15C>T (1.00) |
| Clofazimine | ||
| Para-aminosalicylic_acid | ||
| Delamanid | ||
| Bedaquiline | ||
| Linezolid |
| Lineage | Family | Main Spoligotype | RDs | Frequency |
|---|---|---|---|---|
| lineage2 | East-Asian | Beijing | RD105 | 1.0 |
| lineage2.1 | East-Asian (non-Beijing) | None | None | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
| katG | 2155783 | p.Ala110Val | missense_variant | 0.99 | isoniazid |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| rpoC | 765121 | c.1752G>A | synonymous_variant | 0.99 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1304443 | p.Ala505Thr | missense_variant | 0.99 |
| embR | 1416874 | c.474C>T | synonymous_variant | 0.99 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| rpsA | 1834177 | c.636A>C | synonymous_variant | 0.99 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| katG | 2155506 | c.606C>A | synonymous_variant | 0.99 |
| katG | 2156203 | c.-92C>A | upstream_gene_variant | 1.0 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| PPE35 | 2170065 | p.Ala183Glu | missense_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| folC | 2747453 | p.Arg49Gln | missense_variant | 0.99 |
| thyA | 3073822 | p.Arg217Gln | missense_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| clpC1 | 4040841 | c.-138delG | upstream_gene_variant | 0.99 |
| embC | 4239672 | c.-191G>A | upstream_gene_variant | 0.98 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4243340 | c.108G>A | synonymous_variant | 1.0 |
| embA | 4244185 | p.Ser318Thr | missense_variant | 0.99 |
| embB | 4246088 | c.-426A>G | upstream_gene_variant | 0.98 |
| aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
| whiB6 | 4338592 | c.-71G>C | upstream_gene_variant | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 0.99 |
