Run ID: ERR1034598
Sample name:
Date: 31-03-2023 09:28:32
Number of reads: 21125632
Percentage reads mapped: 99.5
Strain: lineage4.9
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 |
lineage4.9 | Euro-American (H37Rv-like) | T1 | 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 | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781687 | p.Lys43Arg | missense_variant | 1.0 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289081 | p.Pro54Leu | missense_variant | 1.0 | pyrazinamide |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 576400 | c.1053C>T | synonymous_variant | 1.0 |
rpoB | 761461 | p.Arg552Leu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | 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 | 2169320 | p.Leu431Phe | missense_variant | 0.23 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.11 |
ald | 3086904 | c.89_99delGCCATGAGGTG | frameshift_variant | 0.17 |
ald | 3086987 | p.Gln56His | missense_variant | 1.0 |
ald | 3087367 | p.Ala183Val | missense_variant | 1.0 |
alr | 3840231 | p.Arg397Leu | missense_variant | 0.42 |
rpoA | 3877536 | c.972C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.13 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.14 |
ubiA | 4269124 | p.Ala237Val | missense_variant | 1.0 |
ethA | 4326943 | p.Asn177Lys | missense_variant | 0.8 |
ethA | 4328448 | c.-975A>G | upstream_gene_variant | 0.92 |
whiB6 | 4338307 | p.Ala72Gly | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
ethR | 4326936 | c.-612_*250del | transcript_ablation | 1.0 |