Run ID: ERR2516422
Sample name:
Date: 19-10-2023 23:45:04
Number of reads: 2115218
Percentage reads mapped: 99.72
Strain: lineage4.7
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB p.Ser450Leu (1.00) |
Isoniazid | R | katG c.1199dupA (1.00), ahpC c.-52C>T (1.00) |
Ethambutol | R | embA c.-12C>T (1.00), embB p.Gly406Ala (1.00) |
Pyrazinamide | R | pncA c.-11A>G (1.00) |
Streptomycin | R | rrs n.517C>T (1.00) |
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 |
lineage4.7 | Euro-American (mainly T) | T1;T5 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472362 | n.517C>T | non_coding_transcript_exon_variant | 1.0 | streptomycin |
katG | 2154912 | c.1199dupA | frameshift_variant | 1.0 | isoniazid |
pncA | 2289252 | c.-11A>G | upstream_gene_variant | 1.0 | pyrazinamide |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 1.0 | ethambutol |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
rpoC | 764724 | p.Phe452Cys | missense_variant | 0.98 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775715 | c.2766G>A | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304233 | p.Trp435Gly | missense_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 |
kasA | 2518617 | p.Val168Gly | missense_variant | 1.0 |
Rv2752c | 3065201 | c.990delT | frameshift_variant | 1.0 |
alr | 3841071 | p.Gly117Asp | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243977 | p.Ala249Thr | missense_variant | 1.0 |
embB | 4248549 | p.Ala679Val | missense_variant | 1.0 |
embB | 4249732 | c.3219C>G | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 0.97 |
gid | 4407590 | p.Ala205Thr | missense_variant | 1.0 |
gid | 4407602 | p.Thr201Pro | missense_variant | 1.0 |