Run ID: ERR4820944
Sample name:
Date: 20-10-2023 09:30:33
Number of reads: 8150588
Percentage reads mapped: 98.65
Strain: lineage4.1.1.3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.53) |
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | ||
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
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 | 1.0 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.53 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5248 | c.9C>T | synonymous_variant | 1.0 |
gyrB | 5805 | p.Thr189Ser | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | 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 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.72 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.53 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |