Run ID: SRR22251382
Sample name:
Date: 20-01-2024 04:36:40
Number of reads: 2413698
Percentage reads mapped: 99.55
Strain: lineage2.2.2
Drug-resistance: HR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | ||
| Isoniazid | R | katG p.Ala106Val (1.00) |
| Ethambutol | R | embB p.Asp1024Asn (1.00) |
| Pyrazinamide | ||
| Streptomycin | ||
| Fluoroquinolones | ||
| Moxifloxacin | ||
| Ofloxacin | ||
| Levofloxacin | ||
| Ciprofloxacin | ||
| Aminoglycosides | ||
| Amikacin | ||
| Capreomycin | ||
| Kanamycin | ||
| Cycloserine | ||
| Ethionamide | ||
| Clofazimine | ||
| Para-aminosalicylic_acid | ||
| Delamanid | ||
| Bedaquiline | ||
| Linezolid |
| Lineage | Family | Main Spoligotype | RDs | Frequency |
|---|---|---|---|---|
| lineage2 | East-Asian | Beijing | RD105 | 1.0 |
| lineage2.2 | East-Asian (Beijing) | Beijing-RD207 | RD105;RD207 | 1.0 |
| lineage2.2.2 | East-Asian (Beijing) | Beijing-RD105/RD207 | RD105;RD207 | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| katG | 2155795 | p.Ala106Val | missense_variant | 1.0 | isoniazid |
| embB | 4249583 | p.Asp1024Asn | missense_variant | 1.0 | ethambutol |
| 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 |
| ccsA | 620030 | p.Leu47Arg | missense_variant | 0.23 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| mmpS5 | 779615 | c.-710C>G | upstream_gene_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 0.99 |
| rpsA | 1834177 | c.636A>C | synonymous_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 0.98 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| pepQ | 2859931 | p.Leu163Arg | missense_variant | 0.2 |
| ribD | 2987506 | p.Leu223Arg | missense_variant | 0.21 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.98 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| Rv3236c | 3612813 | p.Thr102Ala | missense_variant | 1.0 |
| alr | 3841562 | c.-142A>G | upstream_gene_variant | 1.0 |
| clpC1 | 4039592 | c.1113G>A | synonymous_variant | 1.0 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4243460 | c.228C>T | synonymous_variant | 1.0 |
| embB | 4247015 | p.Ser168Ala | missense_variant | 0.36 |
| aftB | 4267647 | p.Asp397Gly | missense_variant | 1.0 |
| ethA | 4328025 | c.-552T>G | upstream_gene_variant | 0.22 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
| gid | 4407927 | p.Glu92Asp | missense_variant | 0.99 |
