Run ID: SRR5818596
Sample name:
Date: 21-10-2023 05:06:49
Number of reads: 2242576
Percentage reads mapped: 99.19
Strain: lineage4.2
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
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 | 0.93 |
lineage4.2 | Euro-American | H;T;LAM | None | 0.88 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.98 |
gyrA | 8475 | p.Arg392Cys | missense_variant | 0.88 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 0.13 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777178 | p.Glu435Gln | missense_variant | 0.88 |
mmpL5 | 777356 | c.1125G>A | synonymous_variant | 0.89 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1833525 | c.-17C>G | upstream_gene_variant | 0.78 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.39 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.37 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 0.1 |
folC | 2747158 | c.441G>A | synonymous_variant | 0.93 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 0.92 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3640402 | c.-141C>G | upstream_gene_variant | 0.84 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408160 | p.Arg15Trp | missense_variant | 0.94 |