Run ID: ERR230003
Sample name:
Date: 31-03-2023 17:55:07
Number of reads: 3820402
Percentage reads mapped: 99.75
Strain: lineage4.1.2.1
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 |
lineage4.1 | Euro-American | T;X;H | None | 0.98 |
lineage4.1.2 | Euro-American | T;H | None | 0.97 |
lineage4.1.2.1 | Euro-American (Haarlem) | T1;H1 | RD182 | 0.98 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761140 | p.His445Leu | missense_variant | 0.98 | rifampicin |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
embA | 4243221 | c.-12C>T | upstream_gene_variant | 0.98 | ethambutol |
ethA | 4326292 | c.1181delA | frameshift_variant | 1.0 | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 490617 | c.-166T>G | upstream_gene_variant | 0.97 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 0.98 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
rpoB | 760115 | c.309C>T | synonymous_variant | 0.97 |
rpoC | 763513 | c.144C>T | synonymous_variant | 0.96 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 0.97 |
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 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.29 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 0.99 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.22 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3449025 | c.522T>C | synonymous_variant | 0.26 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3613286 | c.-170C>G | upstream_gene_variant | 0.99 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.21 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 0.97 |
aftB | 4268256 | p.Gly194Ala | missense_variant | 0.96 |
ethR | 4327941 | p.Ser131Arg | missense_variant | 0.96 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407967 | p.Leu79Trp | missense_variant | 0.99 |