Run ID: SRR23862054
Sample name:
Date: 12-04-2023 16:26:04
Number of reads: 4605864
Percentage reads mapped: 99.5
Strain: lineage4.2.1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | R | fabG1 c.-15C>T (1.00) |
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | gid c.115delC (1.00) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | R | fabG1 c.-15C>T (1.00) |
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 |
lineage4.2.1 | Euro-American (TUR) | H3;H4 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.99 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576093 | p.Pro249Arg | missense_variant | 0.18 |
mshA | 576100 | p.Asp251Glu | missense_variant | 0.13 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.12 |
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 | 1.0 |
PPE35 | 2169879 | p.Phe245Cys | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2517966 | c.-149G>A | upstream_gene_variant | 0.99 |
ald | 3086742 | c.-78A>C | 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 |
whiB7 | 3568418 | p.Lys88Gln | missense_variant | 0.2 |
whiB7 | 3568428 | c.252A>C | synonymous_variant | 0.23 |
rpoA | 3878569 | c.-62C>G | upstream_gene_variant | 0.12 |
rpoA | 3878580 | c.-74_-73insCAACCCA | upstream_gene_variant | 0.13 |
clpC1 | 4040235 | p.Gly157Ala | missense_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4249594 | c.3081G>A | synonymous_variant | 1.0 |
aftB | 4268137 | c.700C>T | synonymous_variant | 1.0 |
ethA | 4328376 | c.-903G>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |