Run ID: ERR11465906
Sample name:
Date: 10-01-2024 05:25:54
Number of reads: 1903107
Percentage reads mapped: 99.66
Strain: lineage4.4.1.1
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 |
lineage4.4 | Euro-American | S;T | None | 0.99 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 1.0 |
lineage4.4.1.1 | Euro-American | S;Orphans | 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 | 9138 | p.Gln613Glu | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 763148 | c.-222G>C | upstream_gene_variant | 0.11 |
rpoC | 763166 | c.-204A>G | upstream_gene_variant | 0.12 |
rpoC | 763169 | c.-201A>G | upstream_gene_variant | 0.12 |
rpoC | 763486 | c.117T>C | synonymous_variant | 0.12 |
rpoC | 764098 | c.729A>G | synonymous_variant | 0.15 |
rpoC | 764101 | c.732C>G | synonymous_variant | 0.15 |
rpoC | 765700 | c.2331T>C | synonymous_variant | 0.11 |
rpoC | 766861 | c.3492G>C | synonymous_variant | 0.12 |
rpoC | 766864 | c.3495G>C | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777416 | c.1065G>T | synonymous_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781631 | c.72G>C | synonymous_variant | 0.14 |
rpsL | 781649 | c.90T>C | synonymous_variant | 0.15 |
rpsL | 781655 | c.96T>C | synonymous_variant | 0.17 |
rpsL | 781682 | c.123T>C | synonymous_variant | 0.1 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.16 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.16 |
rrl | 1473877 | n.220G>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474794 | n.1137C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1474812 | n.1155G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474823 | n.1166C>T | non_coding_transcript_exon_variant | 0.27 |
rrl | 1474831 | n.1174A>G | non_coding_transcript_exon_variant | 0.22 |
rrl | 1474844 | n.1187G>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1474866 | n.1209C>A | non_coding_transcript_exon_variant | 0.13 |
rrl | 1474896 | n.1239A>G | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475355 | n.1698C>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1475369 | n.1712G>C | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475483 | n.1826C>T | non_coding_transcript_exon_variant | 0.15 |
rrl | 1475505 | n.1848G>A | non_coding_transcript_exon_variant | 0.22 |
rrl | 1475526 | n.1869C>A | non_coding_transcript_exon_variant | 0.24 |
rrl | 1475599 | n.1942A>G | non_coding_transcript_exon_variant | 0.11 |
rrl | 1475608 | n.1951T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475881 | n.2224T>C | non_coding_transcript_exon_variant | 0.27 |
rrl | 1476224 | n.2567A>G | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.17 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.21 |
rrl | 1476597 | n.2940G>A | non_coding_transcript_exon_variant | 0.15 |
rrl | 1476608 | n.2951C>G | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476628 | n.2971T>A | non_coding_transcript_exon_variant | 0.17 |
rpsA | 1833724 | c.183C>G | synonymous_variant | 0.12 |
rpsA | 1833727 | c.186G>C | synonymous_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 1.0 |
PPE35 | 2168479 | p.Thr712Pro | missense_variant | 1.0 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ribD | 2987468 | c.630G>A | synonymous_variant | 0.16 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568779 | c.-100T>C | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 1.0 |
rpoA | 3877656 | c.852T>C | synonymous_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |