Run ID: ERR11465290
Sample name:
Date: 07-01-2024 16:17:56
Number of reads: 1207726
Percentage reads mapped: 99.6
Strain: lineage4.9
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 | 1.0 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | None | 0.18 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.89 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 0.73 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 0.96 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.72 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.88 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.6 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 0.79 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 0.71 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474228 | n.571T>C | non_coding_transcript_exon_variant | 0.2 |
rrl | 1475574 | n.1917C>A | non_coding_transcript_exon_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.91 |
thyX | 3067248 | p.Thr233Ile | missense_variant | 0.53 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.74 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.97 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 0.86 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
alr | 3840719 | c.702A>G | synonymous_variant | 0.85 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 0.74 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.58 |
embA | 4245113 | c.1881C>T | synonymous_variant | 0.55 |
ethA | 4328245 | c.-772C>T | upstream_gene_variant | 0.46 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.86 |