Run ID: ERR4813599
Sample name:
Date: 01-04-2023 12:52:22
Number of reads: 4944173
Percentage reads mapped: 99.83
Strain: lineage4.3.4.2;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 | 0.11 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 0.91 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 0.89 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 0.1 | rifampicin |
inhA | 1674262 | p.Ile21Val | missense_variant | 0.11 | isoniazid |
pncA | 2289090 | p.His51Arg | missense_variant | 0.11 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 0.99 |
gyrA | 8040 | p.Gly247Ser | missense_variant | 0.12 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766487 | p.Pro1040Ala | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1834683 | p.Ala381Val | missense_variant | 0.12 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169041 | c.1572G>A | synonymous_variant | 0.26 |
PPE35 | 2169044 | c.1569G>C | synonymous_variant | 0.3 |
PPE35 | 2169047 | p.Ile522Val | missense_variant | 0.25 |
PPE35 | 2169053 | c.1560T>C | synonymous_variant | 0.57 |
PPE35 | 2169056 | c.1557A>G | synonymous_variant | 0.24 |
PPE35 | 2169059 | c.1554G>A | synonymous_variant | 0.31 |
PPE35 | 2169063 | p.Met517Thr | missense_variant | 0.55 |
PPE35 | 2169065 | p.Ala516Ile | missense_variant | 0.31 |
PPE35 | 2169068 | c.1545G>T | synonymous_variant | 0.33 |
PPE35 | 2169071 | c.1542A>G | synonymous_variant | 0.21 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
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 |
fprA | 3474049 | p.Ala15Thr | missense_variant | 0.89 |
fprA | 3474816 | c.810G>A | synonymous_variant | 0.92 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 0.89 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038824 | c.1881C>T | synonymous_variant | 0.88 |
embC | 4242176 | p.Pro772Ala | missense_variant | 0.9 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |