Run ID: ERR2510420
Sample name:
Date: 31-03-2023 18:43:55
Number of reads: 757532
Percentage reads mapped: 99.58
Strain: lineage4.1.2.1
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 | 0.99 |
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 |
---|---|---|---|---|---|
gyrA | 7566 | p.Asp89Asn | missense_variant | 1.0 | ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin |
rpoB | 761101 | p.Gln432Leu | missense_variant | 1.0 | rifampicin |
rpoC | 764363 | p.Gly332Arg | missense_variant | 1.0 | rifampicin |
katG | 2154973 | p.Thr380Ile | missense_variant | 0.12 | isoniazid |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4247429 | p.Met306Val | missense_variant | 1.0 | ethambutol |
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 |
ccsA | 619775 | c.-116G>A | upstream_gene_variant | 0.11 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoC | 763515 | p.Glu49Val | missense_variant | 0.11 |
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 |
atpE | 1460997 | c.-48T>A | upstream_gene_variant | 0.22 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472411 | n.566G>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1472870 | n.1025T>A | non_coding_transcript_exon_variant | 0.2 |
rrs | 1473312 | n.1467G>T | non_coding_transcript_exon_variant | 0.18 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155226 | p.Met296Val | missense_variant | 1.0 |
PPE35 | 2170419 | p.Met65Lys | missense_variant | 0.13 |
Rv1979c | 2223293 | c.-129A>G | 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 | 4242442 | c.-791G>A | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
aftB | 4267903 | p.Val312Leu | missense_variant | 0.29 |
ethR | 4327803 | p.Met85Ile | missense_variant | 1.0 |
ethA | 4328212 | c.-741_-740delCC | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407790 | p.Ala138Val | missense_variant | 1.0 |
gid | 4408048 | p.Cys52Tyr | missense_variant | 0.13 |