Run ID: ERR2516475
Sample name:
Date: 31-03-2023 21:33:23
Number of reads: 861091
Percentage reads mapped: 99.19
Strain: lineage4.1.3
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 |
lineage4.1 | Euro-American | T;X;H | None | 1.0 |
lineage4.1.3 | Euro-American | T;X;H | None | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761139 | p.His445Tyr | missense_variant | 1.0 | rifampicin |
inhA | 1674048 | c.-154G>A | upstream_gene_variant | 1.0 | isoniazid, ethionamide |
katG | 2155168 | p.Ser315Thr | missense_variant | 1.0 | isoniazid |
ethA | 4327132 | c.341delA | frameshift_variant | 1.0 | ethionamide, ethionamide |
gid | 4407967 | p.Leu79Ser | 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 | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9557 | c.2256G>C | synonymous_variant | 1.0 |
rpoB | 762394 | p.Val863Ala | missense_variant | 0.11 |
rpoB | 762505 | p.Phe900Ser | missense_variant | 0.14 |
rpoC | 762836 | c.-534C>G | upstream_gene_variant | 0.2 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781421 | c.-139C>A | upstream_gene_variant | 1.0 |
fbiC | 1304610 | c.1680C>T | synonymous_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rpsA | 1833696 | p.Leu52Pro | missense_variant | 0.12 |
tlyA | 1917915 | c.-25T>C | upstream_gene_variant | 0.14 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2156185 | c.-74T>C | upstream_gene_variant | 0.13 |
katG | 2156559 | c.-448C>T | upstream_gene_variant | 0.12 |
PPE35 | 2169320 | p.Leu431Phe | missense_variant | 0.17 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289613 | c.-372T>C | upstream_gene_variant | 0.11 |
pncA | 2289827 | c.-586A>G | upstream_gene_variant | 0.11 |
pncA | 2290201 | c.-960G>A | upstream_gene_variant | 0.12 |
eis | 2714911 | p.Thr141Met | missense_variant | 0.17 |
eis | 2715249 | c.84C>T | synonymous_variant | 0.12 |
folC | 2747392 | c.207C>T | synonymous_variant | 0.12 |
ribD | 2987074 | p.Asp79Gly | missense_variant | 0.11 |
ribD | 2987307 | p.Ala157Pro | missense_variant | 0.25 |
Rv2752c | 3064657 | p.Glu512Val | missense_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087265 | p.Leu149Pro | missense_variant | 0.11 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.25 |
Rv3083 | 3448731 | c.228C>T | synonymous_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3840921 | p.Val167Ala | missense_variant | 0.11 |
rpoA | 3878482 | p.Leu9Pro | missense_variant | 0.13 |
panD | 4044266 | c.16C>T | synonymous_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embA | 4244681 | c.1449A>G | synonymous_variant | 0.17 |
embA | 4244938 | p.Lys569Arg | missense_variant | 0.11 |
embA | 4245231 | p.Arg667Trp | missense_variant | 0.12 |
aftB | 4267722 | p.Val372Ala | missense_variant | 0.12 |
aftB | 4267740 | p.Glu366Gly | missense_variant | 0.15 |
aftB | 4267855 | c.982C>A | synonymous_variant | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |