Run ID: ERR4816758
Sample name:
Date: 20-10-2023 08:11:32
Number of reads: 4063925
Percentage reads mapped: 96.84
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.39) |
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.39 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
mshA | 575891 | p.Ala182Thr | missense_variant | 1.0 |
rpoB | 762667 | p.Pro954Arg | 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 | 0.44 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.65 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.64 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472790 | n.945T>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472958 | n.1113A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472974 | n.1129A>G | non_coding_transcript_exon_variant | 0.38 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1473148 | n.1303G>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1473163 | n.1318C>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473221 | n.1376C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474488 | n.831G>T | non_coding_transcript_exon_variant | 0.53 |
rrl | 1474495 | n.838G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1474498 | n.841G>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1474505 | n.848C>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474508 | n.851C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474516 | n.859C>A | non_coding_transcript_exon_variant | 0.62 |
rrl | 1474527 | n.870T>C | non_coding_transcript_exon_variant | 0.54 |
rrl | 1474537 | n.880G>A | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474626 | n.969T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1474632 | n.975G>T | non_coding_transcript_exon_variant | 0.62 |
rrl | 1474753 | n.1096_1097delACinsG | non_coding_transcript_exon_variant | 0.43 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.43 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474824 | n.1167A>G | non_coding_transcript_exon_variant | 0.73 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.75 |
rrl | 1474831 | n.1174A>C | non_coding_transcript_exon_variant | 0.75 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 0.89 |
rrl | 1474903 | n.1246T>C | non_coding_transcript_exon_variant | 0.75 |
rrl | 1475777 | n.2120A>T | non_coding_transcript_exon_variant | 0.6 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242928 | c.-305A>G | upstream_gene_variant | 1.0 |
embB | 4247595 | p.Cys361Ser | missense_variant | 1.0 |
aftB | 4268040 | p.Leu266Pro | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |