Run ID: SRR24114348
Sample name:
Date: 16-04-2023 21:00:31
Number of reads: 8347583
Percentage reads mapped: 99.73
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 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.24 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 0.99 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475789 | n.2132C>A | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673553 | p.Asp38Glu | missense_variant | 0.19 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168149 | p.Pro822Ser | missense_variant | 1.0 |
PPE35 | 2169149 | c.1464G>C | synonymous_variant | 1.0 |
PPE35 | 2170065 | p.Ala183Gly | missense_variant | 0.18 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2746603 | c.996C>T | synonymous_variant | 1.0 |
pepQ | 2860159 | p.Ala87Gly | missense_variant | 0.23 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.5 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.28 |
clpC1 | 4039729 | p.Asp326Asn | missense_variant | 1.0 |
embC | 4240409 | p.Pro183Ala | missense_variant | 0.15 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4248423 | p.Ala637Val | 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 |