Run ID: SRR6044857
Sample name:
Date: 20-10-2023 18:09:14
Number of reads: 1964580
Percentage reads mapped: 91.56
Strain: lineage4.8.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | rrs n.888G>A (0.51) |
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 |
lineage4.8.1 | 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 | 0.51 | streptomycin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | 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 | 0.32 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.37 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.49 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.49 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474779 | n.1122G>A | non_coding_transcript_exon_variant | 0.39 |
rrl | 1474782 | n.1125G>A | non_coding_transcript_exon_variant | 0.39 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.3 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.3 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.52 |
rrl | 1475899 | n.2242G>A | non_coding_transcript_exon_variant | 0.52 |
rrl | 1475916 | n.2259C>G | non_coding_transcript_exon_variant | 0.55 |
rrl | 1475937 | n.2280A>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1475943 | n.2286G>A | non_coding_transcript_exon_variant | 0.47 |
rrl | 1475952 | n.2295A>G | non_coding_transcript_exon_variant | 0.45 |
rrl | 1476260 | n.2603A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476313 | n.2656G>A | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.37 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.49 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.43 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.44 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.46 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.55 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.23 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.35 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3066072 | c.120G>A | synonymous_variant | 1.0 |
fbiD | 3339040 | c.-78T>C | upstream_gene_variant | 1.0 |
fbiB | 3642874 | p.Leu447Arg | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_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 |