Run ID: ERR4829153
Sample name:
Date: 01-04-2023 19:18:43
Number of reads: 2753947
Percentage reads mapped: 98.96
Strain: lineage4.6.4
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 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.4 | Euro-American | T;LAM | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Asp | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289252 | c.-11A>G | upstream_gene_variant | 0.24 | pyrazinamide |
embB | 4248003 | p.Gln497Arg | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490661 | c.-121_-62delGCGAGCGCGAGCGCGGCAAGCCGGGTGCCGCGGGTCGCGACCATGGGATATGGAGCGATC | upstream_gene_variant | 1.0 |
fgd1 | 491598 | c.816C>T | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.21 |
mmpL5 | 775624 | p.Pro953Ser | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777905 | c.576G>A | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474750 | n.1093C>T | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1833959 | p.Leu140Phe | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2222015 | p.Val384Ile | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2288772 | p.Val157Gly | missense_variant | 0.64 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.39 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.24 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
ddn | 3987116 | c.273C>T | synonymous_variant | 1.0 |
panD | 4044386 | c.-105C>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.36 |
ethA | 4327516 | c.-43C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |