Run ID: ERR4812323
Sample name:
Date: 01-04-2023 12:00:13
Number of reads: 4225478
Percentage reads mapped: 99.61
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 | 761110 | p.Asp435Val | missense_variant | 1.0 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
pncA | 2289213 | p.Gln10Arg | missense_variant | 1.0 | pyrazinamide |
embB | 4247469 | p.Tyr319Ser | missense_variant | 1.0 | ethambutol |
gid | 4407952 | p.Pro84Leu | missense_variant | 1.0 | streptomycin |
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 | 0.27 |
mshA | 576600 | p.Ser418Ile | missense_variant | 0.12 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304053 | p.Asp375Tyr | missense_variant | 0.12 |
fbiC | 1304058 | p.Glu376Asp | missense_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834985 | c.1445dupG | frameshift_variant&stop_lost&splice_region_variant | 0.99 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2168998 | p.Ile539Val | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518919 | p.Gly269Ser | missense_variant | 1.0 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339738 | c.621C>A | synonymous_variant | 0.22 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3642155 | c.621C>A | synonymous_variant | 0.18 |
fbiB | 3642172 | p.Pro213Gln | missense_variant | 0.18 |
fbiB | 3642186 | p.Arg218Ser | missense_variant | 0.18 |
alr | 3841135 | p.Glu96* | stop_gained | 0.13 |
alr | 3841150 | p.Val91Phe | missense_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
embC | 4242182 | p.Ala774Ser | missense_variant | 1.0 |
embC | 4242466 | p.Trp868Cys | missense_variant | 0.29 |
embC | 4242498 | p.Arg879Met | missense_variant | 0.5 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244571 | c.1339C>A | synonymous_variant | 0.14 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.21 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |