Run ID: SRR25207340
Sample name:
Date: 04-03-2024 18:29:21
Number of reads: 4100377
Percentage reads mapped: 99.07
Strain: lineage4.2.2
Drug-resistance: MDR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | R | rpoB p.Asp435Glu (0.57), rpoB p.His445Asn (1.00) |
| Isoniazid | R | katG p.Ser315Thr (1.00) |
| Ethambutol | ||
| 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 |
|---|---|---|---|---|
| lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
| lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
| lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| rpoB | 761111 | p.Asp435Glu | missense_variant | 0.57 | rifampicin |
| rpoB | 761139 | p.His445Asn | missense_variant | 1.0 | rifampicin |
| katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 5080 | c.-160_-159insGA | upstream_gene_variant | 1.0 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
| 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 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 0.99 |
| katG | 2156570 | c.-459C>T | upstream_gene_variant | 1.0 |
| Rv1979c | 2222716 | p.Ala150Val | missense_variant | 0.99 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| eis | 2714380 | c.952delT | frameshift_variant | 1.0 |
| ribD | 2986827 | c.-12G>A | upstream_gene_variant | 0.99 |
| Rv2752c | 3064653 | c.1539A>C | synonymous_variant | 1.0 |
| Rv2752c | 3066280 | c.-89C>T | upstream_gene_variant | 1.0 |
| ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| ald | 3086797 | c.-23G>A | upstream_gene_variant | 1.0 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| Rv3236c | 3612469 | c.648A>G | synonymous_variant | 1.0 |
| alr | 3841567 | c.-147A>G | upstream_gene_variant | 0.99 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| ethR | 4328113 | p.Gly189Arg | missense_variant | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
