Run ID: ERR2706913
Sample name:
Date: 19-10-2023 12:06:11
Number of reads: 1481709
Percentage reads mapped: 99.7
Strain: lineage4.9
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB p.Asp435Val (0.98) |
Isoniazid | R | katG p.Ser315Thr (1.00) |
Ethambutol | R | embB p.Pro404Ser (1.00) |
Pyrazinamide | R | pncA p.Ser67Pro (0.38), pncA p.Thr61Pro (0.57) |
Streptomycin | R | rrs n.514A>C (1.00), gid c.386delG (1.00) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | R | thyX c.-16C>T (0.98), thyA p.Pro224Leu (1.00) |
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 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761110 | p.Asp435Val | missense_variant | 0.98 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 1.0 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289043 | p.Ser67Pro | missense_variant | 0.38 | pyrazinamide |
pncA | 2289061 | p.Thr61Pro | missense_variant | 0.57 | pyrazinamide |
thyX | 3067961 | c.-16C>T | upstream_gene_variant | 0.98 | para-aminosalicylic_acid |
thyA | 3073801 | p.Pro224Leu | missense_variant | 1.0 | para-aminosalicylic_acid |
embB | 4247723 | p.Pro404Ser | missense_variant | 1.0 | ethambutol |
gid | 4407816 | c.386delG | frameshift_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5452 | p.Glu71Asp | missense_variant | 0.37 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472081 | n.236C>T | non_coding_transcript_exon_variant | 0.43 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ubiA | 4269124 | p.Ala237Val | missense_variant | 0.59 |
ubiA | 4269719 | p.Ala39Ser | missense_variant | 0.21 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |