Run ID: ERR2516492
Sample name:
Date: 31-03-2023 21:34:10
Number of reads: 2978656
Percentage reads mapped: 99.72
Strain: lineage4.3.3
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrB | 6579 | p.Ser447Phe | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761154 | p.Ser450Gln | missense_variant | 1.0 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.82 | kanamycin, capreomycin, aminoglycosides, amikacin |
inhA | 1674481 | p.Ser94Ala | missense_variant | 1.0 | isoniazid, ethionamide |
pncA | 2288953 | p.Gly97Ser | missense_variant | 1.0 | pyrazinamide |
eis | 2715346 | c.-14C>T | upstream_gene_variant | 0.16 | kanamycin, amikacin |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
embB | 4247729 | p.Gly406Ser | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576128 | c.781C>T | synonymous_variant | 1.0 |
rpoC | 764363 | p.Gly332Ser | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1833585 | p.Asp15Ala | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154727 | p.Ile462Ser | missense_variant | 1.0 |
PPE35 | 2168863 | c.1750C>T | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
thyX | 3067680 | p.Cys89Ser | missense_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.2 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612626 | p.Ala164Val | missense_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242822 | p.Val987Gly | missense_variant | 0.21 |
embB | 4248161 | c.1648C>T | synonymous_variant | 1.0 |
ethA | 4326713 | p.Gln254Pro | missense_variant | 1.0 |
gid | 4407956 | p.Arg83Gly | missense_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |