Run ID: ERR4819080
Sample name:
Date: 20-10-2023 08:51:18
Number of reads: 1064085
Percentage reads mapped: 93.01
Strain: lineage4.1.2.1
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|---|---|
Rifampicin | ||
Isoniazid | ||
Ethambutol | ||
Pyrazinamide | ||
Streptomycin | R | gid c.102delG (0.94) |
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 |
lineage4.1 | Euro-American | T;X;H | None | 0.97 |
lineage4.1.2 | Euro-American | T;H | None | 0.96 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.96 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gid | 4408100 | c.102delG | frameshift_variant | 0.94 | streptomycin |
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 | 0.94 |
mshA | 575679 | p.Asn111Ser | missense_variant | 0.85 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765773 | p.Ile802Val | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776083 | p.Ala800Ser | missense_variant | 0.96 |
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 | 0.32 |
rrs | 1472172 | n.327T>C | non_coding_transcript_exon_variant | 0.41 |
rrs | 1472251 | n.406G>A | non_coding_transcript_exon_variant | 0.44 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.61 |
rrs | 1472952 | n.1107T>C | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472955 | n.1110C>T | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472956 | n.1111T>C | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.71 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472989 | n.1144G>A | non_coding_transcript_exon_variant | 0.7 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.7 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.79 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.53 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.47 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.35 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.98 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4040087 | c.618G>A | synonymous_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 |