Run ID: ERR2653056
Sample name:
Date: 31-03-2023 22:28:45
Number of reads: 2307238
Percentage reads mapped: 99.19
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 | 0.99 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7570 | p.Ala90Val | missense_variant | 0.39 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
gyrA | 7582 | p.Asp94Ala | missense_variant | 0.48 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.95 | rifampicin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 1.0 | kanamycin, capreomycin, aminoglycosides, amikacin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2288826 | p.Val139Ala | missense_variant | 1.0 | pyrazinamide |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 1.0 | ethambutol |
embB | 4248003 | p.Gln497Arg | missense_variant | 1.0 | ethambutol |
gid | 4408100 | c.102delG | frameshift_variant | 0.98 | streptomycin |
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 |
rpoB | 762027 | p.Leu741Phe | missense_variant | 1.0 |
rpoB | 762310 | p.His835Pro | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.96 |
rpoC | 765730 | c.2361G>A | synonymous_variant | 1.0 |
rpoC | 766689 | p.Val1107Glu | missense_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781767 | p.Glu70Lys | missense_variant | 0.85 |
rplC | 801115 | p.Ala103Thr | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2167931 | c.2682C>T | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726210 | c.18T>C | synonymous_variant | 1.0 |
Rv2752c | 3065944 | p.His83Pro | missense_variant | 0.76 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiA | 3641447 | p.Thr302Met | missense_variant | 0.98 |
rpoA | 3877553 | p.Glu319Lys | missense_variant | 1.0 |
rpoA | 3878601 | c.-95delG | upstream_gene_variant | 0.38 |
rpoA | 3878613 | c.-113_-107delCAACCCA | upstream_gene_variant | 0.31 |
embC | 4240897 | c.1035C>G | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.12 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.11 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.11 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
ethA | 4327331 | p.Phe48Ser | missense_variant | 0.97 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |