Run ID: SRR3675567
Sample name:
Date: 19-10-2023 18:30:41
Number of reads: 2981529
Percentage reads mapped: 93.65
Strain: lineage4.8
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 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 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 |
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 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.56 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.63 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.62 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.71 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.61 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.65 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.64 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.35 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 0.99 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
aftB | 4267149 | p.Glu563Gly | missense_variant | 1.0 |
aftB | 4267155 | p.Gln561Arg | missense_variant | 1.0 |
aftB | 4267814 | c.1023G>A | synonymous_variant | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448504 | c.2_*1408del | frameshift_variant&start_lost&splice_region_variant | 1.0 |