Run ID: SRR25207007
Sample name:
Date: 28-01-2024 05:07:27
Number of reads: 4783128
Percentage reads mapped: 99.36
Strain: lineage4.5
Drug-resistance: MDR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | R | rpoB p.Ser450Leu (0.98) |
| Isoniazid | R | ahpC c.-52C>T (0.99) |
| 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 |
| lineage4.5 | Euro-American | H;T | RD122 | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| rpoB | 761155 | p.Ser450Leu | missense_variant | 0.98 | rifampicin |
| ahpC | 2726141 | c.-52C>T | upstream_gene_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 | 0.99 |
| gyrA | 7892 | c.591G>A | synonymous_variant | 0.99 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| ccsA | 620029 | c.139C>T | synonymous_variant | 0.99 |
| ccsA | 620050 | p.Val54Met | missense_variant | 0.99 |
| rpoB | 759958 | p.Gln51Pro | missense_variant | 0.73 |
| rpoB | 762112 | p.Asn769Thr | missense_variant | 0.99 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| fbiC | 1302759 | c.-172T>C | upstream_gene_variant | 0.98 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154947 | p.Ile389Leu | missense_variant | 0.89 |
| PPE35 | 2170568 | p.Ile15Met | missense_variant | 0.99 |
| Rv1979c | 2222197 | p.Ala323Val | missense_variant | 1.0 |
| Rv1979c | 2222879 | p.Val96Ile | missense_variant | 0.98 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| Rv2752c | 3065268 | p.Gln308His | missense_variant | 0.99 |
| thyA | 3074355 | c.117G>A | synonymous_variant | 1.0 |
| Rv3083 | 3448426 | c.-78T>C | upstream_gene_variant | 0.99 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| rpoA | 3878575 | c.-68C>T | upstream_gene_variant | 0.99 |
| clpC1 | 4038318 | p.Pro796Leu | missense_variant | 0.99 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4245198 | p.Leu656Phe | missense_variant | 1.0 |
| whiB6 | 4338227 | p.Ala99Pro | missense_variant | 0.99 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
