Run ID: ERR3335768
Sample name:
Date: 21-10-2023 15:15:45
Number of reads: 8044606
Percentage reads mapped: 99.51
Strain: lineage4.5
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | R | rpoB c.1306_1308delCAG (0.98) |
Isoniazid | R | inhA c.-154G>A (0.99), katG p.Ser315Thr (1.00) |
Ethambutol | R | embB p.Met306Ile (1.00) |
Pyrazinamide | ||
Streptomycin | R | rpsL p.Lys43Arg (0.99) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | R | inhA c.-154G>A (0.99), ethA c.599delA (1.00) |
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.5 | Euro-American | H;T | RD122 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761111 | c.1306_1308delCAG | conservative_inframe_deletion | 0.98 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 0.99 | streptomycin |
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 0.99 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4326874 | c.599delA | frameshift_variant | 1.0 | ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7892 | c.591G>A | synonymous_variant | 0.99 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
ccsA | 620029 | c.139C>T | synonymous_variant | 1.0 |
rpoC | 763289 | c.-81C>G | upstream_gene_variant | 0.99 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800889 | c.81C>T | synonymous_variant | 1.0 |
Rv1258c | 1406101 | p.Pro414Ser | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168661 | p.Ile651Thr | missense_variant | 1.0 |
PPE35 | 2170568 | p.Ile15Met | missense_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289037 | p.Pro69Thr | missense_variant | 0.99 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878575 | c.-68C>T | upstream_gene_variant | 1.0 |
clpC1 | 4038318 | p.Pro796Leu | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ubiA | 4269309 | p.Trp175Cys | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |