Run ID: ERR4821171
Sample name:
Date: 20-10-2023 09:33:59
Number of reads: 1249956
Percentage reads mapped: 98.76
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 | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.47 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.46 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.38 |
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 |