Run ID: ERR4813320
Sample name:
Date: 01-04-2023 12:40:26
Number of reads: 3067054
Percentage reads mapped: 99.49
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 | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
fabG1 | 1673425 | c.-15C>T | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
pncA | 2289090 | p.His51Arg | missense_variant | 1.0 | pyrazinamide |
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 | 575268 | c.-80C>A | upstream_gene_variant | 0.25 |
mshA | 575407 | c.60C>T | synonymous_variant | 1.0 |
ccsA | 619863 | c.-28C>T | upstream_gene_variant | 0.5 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766079 | p.Arg904Cys | missense_variant | 0.12 |
rpoC | 766487 | p.Pro1040Ala | missense_variant | 1.0 |
rpoC | 766977 | p.Gly1203Val | missense_variant | 0.18 |
rpoC | 766984 | c.3615G>T | synonymous_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801216 | c.408C>A | synonymous_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834683 | p.Ala381Val | missense_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918110 | c.171C>T | synonymous_variant | 0.5 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.99 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474889 | p.Val295Ile | missense_variant | 0.13 |
fbiB | 3642143 | p.Asp203Glu | missense_variant | 0.22 |
fbiB | 3642342 | p.Pro270Thr | missense_variant | 1.0 |
fbiB | 3642374 | c.840C>A | synonymous_variant | 0.33 |
fbiB | 3642701 | c.1167C>A | synonymous_variant | 0.2 |
rpoA | 3878565 | c.-58G>C | upstream_gene_variant | 0.33 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embC | 4241097 | p.Ser412Leu | missense_variant | 0.12 |
embC | 4241109 | p.Ala416Glu | missense_variant | 0.13 |
embC | 4242182 | p.Ala774Ser | missense_variant | 1.0 |
embC | 4242654 | p.Ala931Val | missense_variant | 1.0 |
embC | 4242719 | p.Ala953Ser | missense_variant | 0.15 |
embA | 4243673 | c.441C>A | synonymous_variant | 0.17 |
embB | 4248631 | c.2118G>T | synonymous_variant | 0.17 |
ethR | 4328023 | p.Arg159* | stop_gained | 0.13 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |