Run ID: ERR8773876
Sample name:
Date: 02-04-2023 08:18:54
Number of reads: 2708954
Percentage reads mapped: 99.77
Strain: lineage4.3.3
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 0.31 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
gyrA | 7581 | p.Asp94Asn | missense_variant | 0.76 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
embB | 4247495 | p.Asp328Tyr | missense_variant | 0.18 | ethambutol |
embB | 4247730 | p.Gly406Asp | missense_variant | 0.81 | ethambutol |
embB | 4249583 | p.Asp1024Asn | missense_variant | 0.98 | ethambutol |
ethA | 4326718 | c.754_755dupGC | frameshift_variant | 0.12 | ethionamide, ethionamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5500 | c.261C>T | synonymous_variant | 0.13 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303095 | c.165G>A | synonymous_variant | 1.0 |
Rv1258c | 1406882 | c.459C>T | synonymous_variant | 0.83 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474198 | n.541G>C | non_coding_transcript_exon_variant | 1.0 |
rpsA | 1833767 | p.Pro76Thr | missense_variant | 1.0 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154040 | p.Gly691Asp | missense_variant | 1.0 |
katG | 2156196 | c.-85C>T | upstream_gene_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
folC | 2746340 | p.Ala420Val | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038968 | c.1737G>A | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4248004 | p.Gln497His | missense_variant | 0.85 |
ethA | 4326716 | p.Cys253Tyr | missense_variant | 0.81 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407993 | p.Ser70Arg | missense_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |