Run ID: ERR4817847
Sample name:
Date: 20-10-2023 08:30:30
Number of reads: 2502312
Percentage reads mapped: 93.18
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 | 0.97 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5524 | c.285C>A | synonymous_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 0.13 |
rpoB | 760101 | c.295T>C | synonymous_variant | 0.13 |
rpoB | 760112 | c.306T>C | synonymous_variant | 0.13 |
rpoB | 760121 | c.315T>C | synonymous_variant | 0.13 |
rpoB | 760181 | c.375T>C | synonymous_variant | 0.15 |
rpoB | 760184 | c.378A>G | synonymous_variant | 0.15 |
rpoB | 760196 | c.390C>G | synonymous_variant | 0.13 |
rpoB | 762101 | c.2295C>G | synonymous_variant | 0.14 |
rpoB | 762114 | p.Ile770Val | missense_variant | 0.13 |
rpoB | 762131 | c.2325C>G | synonymous_variant | 0.13 |
rpoB | 762140 | c.2334G>C | synonymous_variant | 0.13 |
rpoB | 762149 | c.2343G>C | synonymous_variant | 0.12 |
rpoB | 762167 | c.2361T>C | synonymous_variant | 0.12 |
rpoB | 762176 | c.2370T>C | synonymous_variant | 0.13 |
rpoC | 763085 | c.-285C>G | upstream_gene_variant | 0.13 |
rpoC | 763115 | c.-255T>C | upstream_gene_variant | 0.13 |
rpoC | 764497 | c.1128A>G | synonymous_variant | 0.12 |
rpoC | 766312 | c.2943T>G | synonymous_variant | 0.12 |
rpoC | 766345 | c.2976T>C | synonymous_variant | 0.17 |
rpoC | 766348 | c.2979A>G | synonymous_variant | 0.17 |
rpoC | 766363 | c.2994G>C | synonymous_variant | 0.16 |
rpoC | 766381 | c.3012C>T | synonymous_variant | 0.19 |
rpoC | 766384 | c.3015A>G | synonymous_variant | 0.18 |
rpoC | 766390 | c.3021C>T | synonymous_variant | 0.12 |
rpoC | 766426 | c.3057C>T | synonymous_variant | 0.15 |
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 | 1473290 | n.1445C>T | non_coding_transcript_exon_variant | 0.21 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
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 |
clpC1 | 4038878 | c.1827A>G | synonymous_variant | 0.16 |
clpC1 | 4038908 | c.1797C>G | synonymous_variant | 0.13 |
clpC1 | 4038956 | c.1749T>C | synonymous_variant | 0.13 |
clpC1 | 4038965 | c.1740T>C | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4247470 | c.957T>C | synonymous_variant | 0.16 |
embB | 4247512 | c.999T>C | synonymous_variant | 0.13 |
embB | 4249354 | c.2841G>C | synonymous_variant | 0.98 |
whiB6 | 4338590 | c.-69A>T | upstream_gene_variant | 0.97 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 0.93 |