Run ID: SRR18213684
Sample name:
Date: 03-04-2023 19:25:11
Number of reads: 2656593
Percentage reads mapped: 96.25
Strain: lineage4.1.1.3.1
Drug-resistance: Pre-XDR-TB
Drug | Resistance | Supporting mutations |
---|
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 |
lineage4.1.1 | Euro-American (X-type) | X1;X2;X3 | None | 1.0 |
lineage4.1.1.3 | Euro-American (X-type) | X1;X3 | RD193 | 1.0 |
lineage4.1.1.3.1 | Euro-American (X-type) | X1;X3 | RD193 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
gyrA | 7582 | p.Asp94Gly | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761277 | p.Ile491Phe | missense_variant | 1.0 | rifampicin |
rrs | 1473247 | n.1402C>A | non_coding_transcript_exon_variant | 0.1 | kanamycin, capreomycin, aminoglycosides, amikacin |
embB | 4247431 | p.Met306Ile | missense_variant | 0.98 | ethambutol |
gid | 4408100 | c.102delG | frameshift_variant | 1.0 | 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 |
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 |
fbiC | 1303601 | p.Glu224Gly | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472441 | n.596T>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472464 | n.619A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472471 | n.626G>A | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472484 | n.639A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472489 | n.644A>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472498 | n.653C>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472504 | n.659A>T | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472505 | n.660G>A | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 0.36 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 0.31 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1472549 | n.704G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472558 | n.713G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472569 | n.724G>A | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472573 | n.728C>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472574 | n.729T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.47 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472584 | n.739A>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.25 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472987 | n.1142G>A | non_coding_transcript_exon_variant | 0.11 |
rrs | 1473252 | n.1407T>C | non_coding_transcript_exon_variant | 0.1 |
rrs | 1473259 | n.1414C>T | non_coding_transcript_exon_variant | 0.1 |
rrl | 1474537 | n.880G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474542 | n.885A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474558 | n.901G>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1474584 | n.927C>T | non_coding_transcript_exon_variant | 0.4 |
rrl | 1475817 | n.2160A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1475858 | n.2201T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1475866 | n.2209T>A | non_coding_transcript_exon_variant | 0.29 |
rrl | 1475874 | n.2217C>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476332 | n.2675G>C | non_coding_transcript_exon_variant | 0.13 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.16 |
rrl | 1476353 | n.2696G>T | non_coding_transcript_exon_variant | 0.25 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 0.31 |
rrl | 1476372 | n.2715T>C | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476383 | n.2726T>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.38 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.36 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.34 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169422 | c.1191G>A | synonymous_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | 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 |
embB | 4249408 | c.2895G>A | synonymous_variant | 1.0 |
aftB | 4269540 | c.-704C>T | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |