Run ID: ERR8774336
Sample name:
Date: 02-04-2023 08:27:19
Number of reads: 885997
Percentage reads mapped: 99.55
Strain: lineage4.3.3
Drug-resistance: MDR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 1.0 |
lineage4.3.3 | Euro-American (LAM) | LAM;T | RD115 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761101 | p.Gln432Leu | missense_variant | 1.0 | rifampicin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, 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 | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491599 | p.Asp273Tyr | missense_variant | 0.12 |
mshA | 575909 | p.Leu188Val | missense_variant | 1.0 |
rpoB | 760427 | c.621G>A | synonymous_variant | 0.18 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765609 | p.Asp747Gly | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777493 | p.Pro330Thr | missense_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1305083 | p.His718Leu | missense_variant | 0.12 |
embR | 1417510 | c.-163C>A | upstream_gene_variant | 0.27 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673154 | c.-286A>G | upstream_gene_variant | 0.68 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155141 | p.Thr324Ile | missense_variant | 0.22 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518318 | c.204C>A | synonymous_variant | 0.4 |
kasA | 2518394 | p.Leu94Ile | missense_variant | 0.25 |
kasA | 2518569 | p.Ala152Val | missense_variant | 0.12 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
Rv2752c | 3065559 | c.633C>A | synonymous_variant | 0.15 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086714 | c.-106G>A | upstream_gene_variant | 0.14 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448777 | p.Phe92Leu | missense_variant | 0.2 |
Rv3083 | 3449352 | p.Met283Ile | missense_variant | 0.25 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3877656 | c.852T>C | synonymous_variant | 0.13 |
ddn | 3986714 | c.-130C>T | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
ethA | 4326538 | c.936G>C | synonymous_variant | 0.12 |
ethR | 4326799 | c.-750G>T | upstream_gene_variant | 0.12 |
ethA | 4326942 | p.Ile178Val | missense_variant | 0.12 |
ethA | 4327113 | p.Gln121Glu | missense_variant | 0.18 |
whiB6 | 4338367 | p.Leu52Gln | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |