Run ID: ERR2516557
Sample name:
Date: 31-03-2023 21:36:12
Number of reads: 3901181
Percentage reads mapped: 99.75
Strain: lineage4.1.4
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.4 | Euro-American | T;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 0.99 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
rpoB | 761167 | p.Pro454Arg | missense_variant | 0.99 | rifampicin |
inhA | 1674481 | p.Ser94Ala | missense_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Asn | missense_variant | 1.0 | isoniazid |
pncA | 2289252 | c.-11A>G | upstream_gene_variant | 0.89 | pyrazinamide |
embB | 4247730 | p.Gly406Ala | missense_variant | 1.0 | ethambutol |
gid | 4407845 | c.357delC | frameshift_variant | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778042 | p.Ala147Thr | missense_variant | 1.0 |
mmpR5 | 779005 | p.Gly6Trp | missense_variant | 0.12 |
mmpR5 | 779420 | c.436_437dupAT | frameshift_variant | 0.52 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1473025 | n.1180A>G | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168298 | p.Pro772Leu | missense_variant | 1.0 |
PPE35 | 2170035 | p.Val193Ala | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.12 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.23 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.98 |
fbiD | 3338923 | c.-195T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.17 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ubiA | 4269294 | p.Met180Ile | missense_variant | 1.0 |
ethA | 4327298 | p.Met59Arg | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |