Run ID: ERR4872045
Sample name:
Date: 01-04-2023 21:19:13
Number of reads: 4509811
Percentage reads mapped: 99.76
Strain: lineage4.7
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 |
lineage4.7 | Euro-American (mainly T) | T1;T5 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 0.95 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761076 | p.Phe424Val | missense_variant | 0.32 | rifampicin |
rpoB | 761095 | p.Leu430Pro | missense_variant | 1.0 | rifampicin |
rpoB | 761110 | p.Asp435Gly | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289016 | p.Thr76Pro | missense_variant | 1.0 | pyrazinamide |
ethA | 4327384 | c.89delA | frameshift_variant | 1.0 | ethionamide, ethionamide |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.27 |
mshA | 576113 | p.Arg256Gly | missense_variant | 0.23 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 779189 | p.Ile67Ser | missense_variant | 0.36 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474294 | n.637C>G | non_coding_transcript_exon_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.22 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
ald | 3086896 | c.79dupA | frameshift_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.56 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.35 |
alr | 3841424 | c.-4C>A | upstream_gene_variant | 0.12 |
rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.27 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.31 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.46 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243190 | c.-43G>C | upstream_gene_variant | 0.99 |
embB | 4249732 | c.3219C>G | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408406 | c.-204A>C | upstream_gene_variant | 0.34 |