Run ID: ERR4816718
Sample name:
Date: 20-10-2023 08:10:52
Number of reads: 5664370
Percentage reads mapped: 95.44
Strain: lineage4.1.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.47) |
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 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.47 | 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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_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 | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.59 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472251 | n.406G>T | non_coding_transcript_exon_variant | 0.69 |
rrs | 1472252 | n.407G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472256 | n.411T>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.87 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.94 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.81 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.74 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472734 | n.889C>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472741 | n.896G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.51 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.76 |
rrs | 1472785 | n.940G>T | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472786 | n.941C>G | non_coding_transcript_exon_variant | 0.21 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.52 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.3 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.22 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.48 |
rrs | 1473145 | n.1300C>T | non_coding_transcript_exon_variant | 0.24 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.4 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | 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 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |