Run ID: ERR5866119
Sample name:
Date: 02-04-2023 00:30:58
Number of reads: 777410
Percentage reads mapped: 99.27
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 | 761100 | p.Gln432Lys | 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 |
gyrA | 9410 | p.Met703Ile | missense_variant | 0.11 |
rpoB | 762201 | p.Lys799Gln | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 779363 | p.Leu125Gln | missense_variant | 0.15 |
mmpR5 | 779486 | c.497G>T | stop_lost&splice_region_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781739 | p.Gln60His | missense_variant | 0.11 |
Rv1258c | 1406943 | c.397_398insGC | frameshift_variant | 0.12 |
Rv1258c | 1406946 | p.Ala132Gly | missense_variant | 0.11 |
Rv1258c | 1406948 | c.391_392delGC | frameshift_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1833694 | c.153G>C | synonymous_variant | 0.1 |
rpsA | 1834073 | p.Lys178* | stop_gained | 0.11 |
rpsA | 1834268 | p.Lys243Glu | missense_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 | 0.32 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.33 |
PPE35 | 2170342 | c.250_270delGAGCAGGCGGCCACCCAGGCC | conservative_inframe_deletion | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
kasA | 2519240 | p.Pro376Ser | missense_variant | 0.12 |
folC | 2746340 | p.Ala420Val | missense_variant | 1.0 |
ribD | 2987267 | c.429C>T | synonymous_variant | 0.13 |
Rv2752c | 3066060 | p.Asp44Glu | missense_variant | 0.11 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038968 | c.1737G>A | synonymous_variant | 1.0 |
panD | 4043992 | p.Arg97Leu | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244969 | c.1737G>T | synonymous_variant | 0.12 |
embA | 4246122 | p.Leu964Met | missense_variant | 0.15 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.18 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.17 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407808 | p.Asp132Gly | missense_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |