Run ID: ERR4827462
Sample name:
Date: 01-04-2023 18:04:10
Number of reads: 1558890
Percentage reads mapped: 99.34
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 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761109 | p.Asp435Tyr | missense_variant | 1.0 | rifampicin |
rrs | 1472359 | n.514A>C | non_coding_transcript_exon_variant | 0.99 | streptomycin |
rrs | 1473246 | n.1401A>G | non_coding_transcript_exon_variant | 0.97 | kanamycin, capreomycin, aminoglycosides, amikacin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embB | 4249583 | p.Asp1024Asn | 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 | 8040 | p.Gly247Ser | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.23 |
rpoB | 761266 | p.Asn487Ser | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 765801 | p.Phe811Cys | missense_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 779142 | c.-662C>T | upstream_gene_variant | 0.11 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303095 | c.165G>A | synonymous_variant | 1.0 |
fbiC | 1304962 | p.Trp678Gly | missense_variant | 1.0 |
Rv1258c | 1406363 | c.978A>T | synonymous_variant | 0.22 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.17 |
rpsA | 1834836 | p.Met432Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2156196 | c.-85C>T | upstream_gene_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.16 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
folC | 2746340 | p.Ala420Val | missense_variant | 1.0 |
ribD | 2986827 | c.-12G>A | upstream_gene_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339734 | p.Ala206Gly | missense_variant | 0.2 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
rpoA | 3878527 | c.-20C>G | upstream_gene_variant | 0.2 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038968 | c.1737G>A | synonymous_variant | 1.0 |
embC | 4242552 | p.Arg897Leu | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246358 | c.-156C>T | upstream_gene_variant | 0.12 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.36 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.36 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.36 |
embB | 4246943 | p.Gln144Lys | missense_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |