Run ID: ERR4831002
Sample name:
Date: 01-04-2023 20:36:59
Number of reads: 4493691
Percentage reads mapped: 99.5
Strain: lineage4.2.2.2
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 |
lineage4.2 | Euro-American | H;T;LAM | None | 1.0 |
lineage4.2.2 | Euro-American (Ural) | T;LAM7-TUR | None | 1.0 |
lineage4.2.2.2 | Euro-American (Ural) | T;LAM7-TUR | 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 | 761140 | p.His445Leu | missense_variant | 1.0 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 0.99 | streptomycin |
rrs | 1473247 | n.1402C>T | non_coding_transcript_exon_variant | 0.41 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289073 | p.His57Asp | missense_variant | 1.0 | pyrazinamide |
eis | 2715346 | c.-14C>T | upstream_gene_variant | 0.39 | kanamycin, amikacin |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
embB | 4247431 | p.Met306Ile | missense_variant | 1.0 | ethambutol |
ethA | 4326721 | c.752dupG | frameshift_variant | 1.0 | ethionamide, ethionamide |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5965 | c.726A>G | synonymous_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8688 | p.Ala463Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9328 | p.Ala676Val | missense_variant | 1.0 |
mshA | 576077 | c.730C>T | synonymous_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.18 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.13 |
rpoB | 761489 | c.1683G>A | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305180 | c.2250G>A | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.16 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 0.99 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.16 |
Rv2752c | 3066280 | c.-89C>T | upstream_gene_variant | 1.0 |
ald | 3086742 | c.-78A>C | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.34 |
Rv3083 | 3449654 | c.1153delG | frameshift_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.27 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.32 |
ubiA | 4269313 | p.Lys174Arg | missense_variant | 1.0 |
whiB6 | 4338513 | c.9C>T | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |