Run ID: ERR133937
Sample name:
Date: 19-10-2023 19:26:29
Number of reads: 8122384
Percentage reads mapped: 99.57
Strain: lineage4.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB p.Ser450Leu (1.00) |
Isoniazid | R | katG p.Ser315Thr (0.99) |
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rpsL p.Lys43Arg (1.00) |
Fluoroquinolones | R | gyrA p.Ala90Val (0.99) |
Moxifloxacin | R | gyrA p.Ala90Val (0.99) |
Ofloxacin | R | gyrA p.Ala90Val (0.99) |
Levofloxacin | R | gyrA p.Ala90Val (0.99) |
Ciprofloxacin | R | gyrA p.Ala90Val (0.99) |
Aminoglycosides | ||
Amikacin | R | eis c.-14C>T (1.00) |
Capreomycin | ||
Kanamycin | R | eis c.-14C>T (1.00) |
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 0.99 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 0.99 | isoniazid |
eis | 2715346 | c.-14C>T | upstream_gene_variant | 1.0 | kanamycin, amikacin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764438 | c.1069C>T | synonymous_variant | 0.99 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765863 | p.Ile832Val | missense_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801019 | p.Thr71Ala | missense_variant | 1.0 |
atpE | 1461209 | c.165C>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>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 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embC | 4242584 | p.Ala908Thr | missense_variant | 0.99 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.99 |
embB | 4247296 | c.783G>A | synonymous_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethA | 4326476 | p.Leu333Pro | missense_variant | 0.64 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |