Run ID: SRR27107291
Sample name:
Date: 22-01-2024 02:45:25
Number of reads: 4792406
Percentage reads mapped: 98.95
Strain: lineage4.8
Drug-resistance: MDR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | R | rpoB p.Ser450Leu (0.99) |
| Isoniazid | R | katG p.Ser315Thr (0.99) |
| Ethambutol | R | embB p.Gln497Lys (1.00) |
| Pyrazinamide | R | pncA p.Asp8Glu (1.00) |
| Streptomycin | R | gid p.Tyr22* (1.00) |
| Fluoroquinolones | ||
| Moxifloxacin | ||
| Ofloxacin | ||
| Levofloxacin | ||
| Ciprofloxacin | ||
| Aminoglycosides | ||
| Amikacin | ||
| Capreomycin | ||
| Kanamycin | ||
| Cycloserine | ||
| Ethionamide | R | ethA p.Gln271* (1.00) |
| Clofazimine | ||
| Para-aminosalicylic_acid | ||
| Delamanid | ||
| Bedaquiline | ||
| Linezolid |
| Lineage | Family | Main Spoligotype | RDs | Frequency |
|---|---|---|---|---|
| lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
| lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| rpoB | 761155 | p.Ser450Leu | missense_variant | 0.99 | rifampicin |
| katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
| pncA | 2289218 | p.Asp8Glu | missense_variant | 1.0 | pyrazinamide |
| embB | 4248002 | p.Gln497Lys | missense_variant | 1.0 | ethambutol |
| ethA | 4326663 | p.Gln271* | stop_gained | 1.0 | ethionamide |
| gid | 4408137 | p.Tyr22* | stop_gained | 1.0 | streptomycin |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| rpoB | 762724 | p.Gly973Val | missense_variant | 0.99 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
| inhA | 1674135 | c.-67C>T | upstream_gene_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| alr | 3840764 | c.657G>C | synonymous_variant | 1.0 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| gid | 4408232 | c.-30C>T | upstream_gene_variant | 1.0 |
