Run ID: ERR4972527
Sample name:
Date: 01-04-2023 21:45:37
Number of reads: 1650767
Percentage reads mapped: 99.36
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 |
---|---|---|---|---|---|
gyrB | 6575 | p.Arg446Cys | missense_variant | 0.25 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
gyrA | 7581 | p.Asp94Tyr | missense_variant | 0.88 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
rrs | 1472362 | n.517C>T | non_coding_transcript_exon_variant | 0.99 | streptomycin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ethA | 4326609 | c.864delC | frameshift_variant | 0.2 | ethionamide, ethionamide |
ethA | 4327462 | c.11dupA | frameshift_variant | 0.73 | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.23 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778042 | p.Ala147Thr | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168298 | p.Pro772Leu | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.16 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290169 | c.-928C>T | upstream_gene_variant | 0.13 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.14 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.2 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.22 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.44 |
embB | 4249408 | c.2895G>A | synonymous_variant | 0.98 |