Run ID: ERR9806857
Sample name:
Date: 18-05-2023 17:01:18
Number of reads: 3397152
Percentage reads mapped: 99.58
Strain: lineage4.4.1.1
Drug-resistance: MDR-TB
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | R | rpoB p.Asp435Val (1.00) |
| Isoniazid | R | katG p.Ser315Thr (1.00) |
| Ethambutol | R | embB p.Met306Val (0.99) |
| Pyrazinamide | R | pncA c.34dupG (1.00), pncA c.34dupG (1.00) |
| Streptomycin | R | rrs n.517C>T (0.99) |
| 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 |
| lineage4.4 | Euro-American | S;T | None | 0.99 |
| lineage4.4.1.1 | Euro-American | S;Orphans | None | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| rpoB | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
| rrs | 1472362 | n.517C>T | non_coding_transcript_exon_variant | 0.99 | streptomycin |
| katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
| pncA | 2289207 | c.34dupG | frameshift_variant | 1.0 | pyrazinamide, pyrazinamide |
| embB | 4247429 | p.Met306Val | missense_variant | 0.99 | 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 | 9138 | p.Gln613Glu | missense_variant | 0.99 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 777416 | c.1065G>T | synonymous_variant | 0.99 |
| 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 | 1.0 |
| ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
| PPE35 | 2168479 | p.Thr712Pro | missense_variant | 1.0 |
| PPE35 | 2169840 | p.Gly258Asp | missense_variant | 0.99 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 0.99 |
| Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
| rpoA | 3878641 | c.-135delG | upstream_gene_variant | 0.12 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| aftB | 4267782 | p.Val352Gly | missense_variant | 0.99 |
| ubiA | 4269124 | p.Ala237Val | missense_variant | 0.99 |
| ethA | 4326743 | p.Leu244Pro | missense_variant | 0.99 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
