Run ID: ERR4798679
Sample name:
Date: 20-10-2023 03:05:39
Number of reads: 3139377
Percentage reads mapped: 99.33
Strain: lineage1.1.2
Drug-resistance: Other
| Drug | Resistance | Supporting mutations |
|---|---|---|
| Rifampicin | ||
| Isoniazid | ||
| Ethambutol | ||
| Pyrazinamide | ||
| Streptomycin | ||
| Fluoroquinolones | ||
| Moxifloxacin | ||
| Ofloxacin | ||
| Levofloxacin | ||
| Ciprofloxacin | ||
| Aminoglycosides | ||
| Amikacin | ||
| Capreomycin | ||
| Kanamycin | ||
| Cycloserine | ||
| Ethionamide | R | ethA p.Gly413Asp (0.99) |
| Clofazimine | ||
| Para-aminosalicylic_acid | ||
| Delamanid | ||
| Bedaquiline | ||
| Linezolid |
| Lineage | Family | Main Spoligotype | RDs | Frequency |
|---|---|---|---|---|
| lineage1 | Indo-Oceanic | EAI | RD239 | 1.0 |
| lineage1.1 | Indo-Oceanic | EAI3;EAI4;EAI5;EAI6 | RD239 | 1.0 |
| lineage1.1.2 | Indo-Oceanic | EAI3;EAI5 | RD239 | 0.99 |
| Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
|---|---|---|---|---|---|
| ethA | 4326236 | p.Gly413Asp | missense_variant | 0.99 | ethionamide |
| Gene | Chromosome position | Mutation | Type | Estimated fraction |
|---|---|---|---|---|
| gyrB | 5080 | c.-160_-159insGA | upstream_gene_variant | 0.99 |
| gyrB | 6112 | p.Met291Ile | missense_variant | 0.99 |
| gyrB | 6124 | c.885C>T | synonymous_variant | 0.99 |
| gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
| gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
| gyrA | 8452 | p.Ala384Val | missense_variant | 0.97 |
| gyrA | 9143 | c.1842T>C | synonymous_variant | 0.98 |
| gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
| fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
| rpoB | 759875 | c.69T>C | synonymous_variant | 0.98 |
| rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
| rpoC | 763884 | p.Ala172Val | missense_variant | 1.0 |
| rpoC | 763886 | c.517C>A | synonymous_variant | 1.0 |
| rpoC | 765171 | p.Pro601Leu | missense_variant | 0.99 |
| mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
| mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
| rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
| embR | 1417019 | p.Cys110Tyr | missense_variant | 1.0 |
| rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
| tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
| katG | 2154473 | p.Gly547Ser | missense_variant | 1.0 |
| katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
| PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
| PPE35 | 2167983 | p.Gly877Asp | missense_variant | 0.98 |
| Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
| Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
| kasA | 2518132 | c.18C>T | synonymous_variant | 0.99 |
| eis | 2715026 | p.Glu103Lys | missense_variant | 1.0 |
| ahpC | 2726051 | c.-142G>A | upstream_gene_variant | 1.0 |
| Rv2752c | 3064632 | c.1560C>T | synonymous_variant | 1.0 |
| ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
| Rv3083 | 3448714 | p.Asp71His | missense_variant | 0.96 |
| fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
| fprA | 3474597 | c.591C>A | synonymous_variant | 1.0 |
| fprA | 3475159 | p.Asn385Asp | missense_variant | 0.97 |
| whiB7 | 3568507 | p.Gln58Arg | missense_variant | 0.99 |
| fbiA | 3640646 | p.Ser35Leu | missense_variant | 0.99 |
| clpC1 | 4040517 | p.Val63Ala | missense_variant | 0.99 |
| embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
| embC | 4241042 | p.Asn394Asp | missense_variant | 0.98 |
| embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
| embA | 4243848 | p.Val206Met | missense_variant | 0.99 |
| embA | 4245969 | p.Pro913Ser | missense_variant | 0.99 |
| embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
| ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
| aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
| whiB6 | 4338441 | p.Tyr27* | stop_gained | 1.0 |
| whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
| whiB6 | 4338603 | c.-82C>T | upstream_gene_variant | 1.0 |
| gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
| gid | 4407873 | c.330G>T | synonymous_variant | 0.99 |
