Run ID: SRR6046384
Sample name:
Date: 20-10-2023 17:58:17
Number of reads: 2675793
Percentage reads mapped: 95.39
Strain: lineage4.3.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
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 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.1 | Euro-American (LAM) | LAM9 | None | 1.0 |
lineage4.3.1.1 | Euro-American (LAM) | LAM9 | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 |
rpoC | 764995 | c.1626C>G | synonymous_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 | 1471660 | n.-186G>A | upstream_gene_variant | 1.0 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.35 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.32 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.35 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.39 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.42 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.32 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.41 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.29 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
thyX | 3067966 | c.-21G>A | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |