Run ID: ERR4818180
Sample name:
Date: 20-10-2023 08:36:07
Number of reads: 2530483
Percentage reads mapped: 91.1
Strain: lineage4.8
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.90) |
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 | 0.9 | 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 | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.91 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.79 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.75 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.85 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.82 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.93 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.93 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472824 | n.979T>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472988 | n.1143T>C | non_coding_transcript_exon_variant | 0.63 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.74 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.73 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.41 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473148 | n.1303G>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1473163 | n.1318C>A | non_coding_transcript_exon_variant | 0.54 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474760 | n.1103A>G | non_coding_transcript_exon_variant | 0.7 |
rrl | 1475751 | n.2094C>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1475754 | n.2097G>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1475756 | n.2099T>C | non_coding_transcript_exon_variant | 0.86 |
rrl | 1475762 | n.2105_2107delGCAinsCCTCG | non_coding_transcript_exon_variant | 0.83 |
rrl | 1475765 | n.2108A>G | non_coding_transcript_exon_variant | 0.83 |
rrl | 1475774 | n.2117C>T | non_coding_transcript_exon_variant | 0.92 |
rrl | 1475777 | n.2120A>T | non_coding_transcript_exon_variant | 0.92 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476506 | n.2849T>C | 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 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
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 |