Run ID: ERR4816691
Sample name:
Date: 20-10-2023 08:10:18
Number of reads: 3728498
Percentage reads mapped: 97.94
Strain: lineage4.1.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | ||
Fluoroquinolones | ||
Moxifloxacin | ||
Ofloxacin | ||
Levofloxacin | ||
Ciprofloxacin | ||
Aminoglycosides | ||
Amikacin | ||
Capreomycin | ||
Kanamycin | ||
Cycloserine | ||
Ethionamide | R | ethA c.1054delG (1.00), ethA c.1054delG (1.00) |
Clofazimine | ||
Para-aminosalicylic_acid | ||
Delamanid | ||
Bedaquiline | ||
Linezolid |
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.2 | Euro-American | T;H | None | 1.0 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
ethA | 4326419 | c.1054delG | frameshift_variant | 1.0 | ethionamide, ethionamide |
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 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | 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 |
rrs | 1472150 | n.305T>A | non_coding_transcript_exon_variant | 0.46 |
rrs | 1472155 | n.310C>T | non_coding_transcript_exon_variant | 0.28 |
rrs | 1472160 | n.315C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.53 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.48 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.56 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.38 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.39 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.34 |
rrs | 1472992 | n.1147A>G | non_coding_transcript_exon_variant | 0.23 |
rrs | 1473005 | n.1160C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.39 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.4 |
rrs | 1473166 | n.1321G>A | non_coding_transcript_exon_variant | 0.42 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290112 | c.-871C>T | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
PPE35 | 2170411 | c.42_201del | frameshift_variant | 1.0 |