Run ID: SRR22528526
Sample name:
Date: 04-04-2023 04:17:58
Number of reads: 2084108
Percentage reads mapped: 99.58
Strain: lineage4.1.1
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 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrB | 6734 | p.Asn499Asp | missense_variant | 0.53 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
gyrA | 7582 | p.Asp94Ala | missense_variant | 0.29 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761110 | p.Asp435Val | missense_variant | 0.46 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.45 | kanamycin, capreomycin, aminoglycosides, amikacin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6052 | p.Ile271Met | missense_variant | 1.0 |
gyrA | 6487 | c.-815C>G | upstream_gene_variant | 1.0 |
gyrB | 7221 | p.Ser661Thr | missense_variant | 1.0 |
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 | 576100 | p.Asp251Glu | missense_variant | 0.13 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
embR | 1416699 | p.Leu217Val | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673579 | p.Arg47Pro | missense_variant | 0.15 |
fabG1 | 1673608 | p.Gly57Cys | missense_variant | 0.14 |
inhA | 1673865 | c.-337C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154832 | p.Leu427Pro | missense_variant | 1.0 |
katG | 2156255 | c.-144T>G | upstream_gene_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726142 | c.-51G>A | upstream_gene_variant | 1.0 |
pepQ | 2860113 | c.306C>G | synonymous_variant | 0.11 |
pepQ | 2860128 | p.Phe97Leu | missense_variant | 0.13 |
pepQ | 2860131 | c.288C>G | synonymous_variant | 0.15 |
pepQ | 2860140 | c.279A>G | synonymous_variant | 0.14 |
pepQ | 2860144 | p.Val92Gly | missense_variant | 0.19 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568425 | c.255T>G | synonymous_variant | 0.2 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.24 |
whiB7 | 3568437 | c.243T>C | synonymous_variant | 0.14 |
whiB7 | 3568441 | p.Lys80Thr | missense_variant | 0.13 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.13 |
rpoA | 3878608 | c.-101C>G | upstream_gene_variant | 0.12 |
clpC1 | 4040874 | c.-170C>G | upstream_gene_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.2 |
embB | 4247055 | p.Leu181Gln | missense_variant | 0.24 |
embB | 4247080 | p.Phe189Leu | missense_variant | 0.16 |
embB | 4247112 | p.Leu200Arg | missense_variant | 0.12 |
embB | 4248319 | c.1806A>T | synonymous_variant | 0.21 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |