Run ID: SRR17657932
Sample name:
Date: 01-02-2024 22:22:23
Number of reads: 9918016
Percentage reads mapped: 99.67
Strain: lineage4
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | R | ahpC c.-52C>T (1.00) |
Ethambutol | R | embB p.Gly406Asp (1.00), embB p.Asp1024Asn (1.00) |
Pyrazinamide | R | pncA p.Thr76Pro (1.00) |
Streptomycin | R | gid p.Glu173* (1.00) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | R | ethA p.Cys131* (1.00) |
Clofazimine | ||
Para-aminosalicylic_acid | R | folC p.Ile43Thr (1.00) |
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
pncA | 2289016 | p.Thr76Pro | missense_variant | 1.0 | pyrazinamide |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
folC | 2747471 | p.Ile43Thr | missense_variant | 1.0 | para-aminosalicylic_acid |
embB | 4247730 | p.Gly406Asp | missense_variant | 1.0 | ethambutol |
embB | 4249583 | p.Asp1024Asn | missense_variant | 1.0 | ethambutol |
ethA | 4327081 | p.Cys131* | stop_gained | 1.0 | ethionamide |
gid | 4407686 | p.Glu173* | stop_gained | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8147 | p.Asn282Lys | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304501 | p.Ala524Gly | missense_variant | 1.0 |
fbiC | 1305357 | c.2427C>G | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154277 | p.Asp612Gly | missense_variant | 1.0 |
katG | 2155141 | p.Thr324Leu | missense_variant | 1.0 |
PPE35 | 2168742 | p.Gly624Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290088 | c.-847G>A | upstream_gene_variant | 1.0 |
Rv2752c | 3065482 | p.Cys237Tyr | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612113 | c.1003dupG | frameshift_variant | 1.0 |
rpoA | 3878609 | c.-102T>A | upstream_gene_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4246401 | p.Val1057Met | missense_variant | 1.0 |
embB | 4247675 | p.Ala388Thr | missense_variant | 1.0 |
ethA | 4327376 | p.Ala33Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |