Run ID: SRR23861870
Sample name:
Date: 12-04-2023 07:58:24
Number of reads: 4731400
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 | 576087 | p.Phe247Ser | missense_variant | 0.18 |
mshA | 576093 | p.Pro249Arg | missense_variant | 0.25 |
mshA | 576100 | p.Asp251Glu | missense_variant | 0.24 |
mshA | 576453 | p.Val369Gly | missense_variant | 0.18 |
mshA | 576456 | p.Val370Gly | missense_variant | 0.19 |
mshA | 576483 | p.Val379Gly | missense_variant | 0.15 |
mshA | 576626 | p.Thr427Pro | missense_variant | 0.23 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_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 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2170073 | c.540C>G | synonymous_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
fbiD | 3339738 | c.621C>G | synonymous_variant | 0.22 |
fbiD | 3339742 | p.Arg209Gly | missense_variant | 0.38 |
fbiD | 3339746 | p.Ala210Gly | missense_variant | 0.38 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
whiB7 | 3568428 | c.252A>G | synonymous_variant | 0.23 |
whiB7 | 3568437 | c.243T>C | synonymous_variant | 0.19 |
rpoA | 3878597 | c.-90G>C | upstream_gene_variant | 0.25 |
rpoA | 3878609 | c.-102T>G | upstream_gene_variant | 0.29 |
rpoA | 3878613 | c.-106A>C | upstream_gene_variant | 0.43 |
rpoA | 3878618 | c.-111A>C | upstream_gene_variant | 0.25 |
rpoA | 3878628 | c.-121G>T | upstream_gene_variant | 0.5 |
rpoA | 3878630 | c.-123G>T | upstream_gene_variant | 0.4 |
rpoA | 3878636 | c.-129C>G | upstream_gene_variant | 0.29 |
rpoA | 3878637 | c.-130G>C | upstream_gene_variant | 0.29 |
rpoA | 3878641 | c.-134C>G | upstream_gene_variant | 0.22 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4245835 | p.Leu868Arg | missense_variant | 0.14 |
embB | 4247015 | p.Ser168Ala | missense_variant | 0.16 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |