Run ID: ERR6358868
Sample name:
Date: 02-04-2023 02:19:42
Number of reads: 5882432
Percentage reads mapped: 99.6
Strain: lineage4.6.1.1
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 |
lineage4.6 | Euro-American | T;LAM | None | 1.0 |
lineage4.6.1 | Euro-American (Uganda) | T2 | RD724 | 1.0 |
lineage4.6.1.1 | Euro-American | T2-Uganda | RD724 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
rpsL | 781822 | p.Lys88Thr | missense_variant | 0.11 | streptomycin |
katG | 2155843 | p.Trp90* | stop_gained | 0.2 | isoniazid |
pncA | 2289213 | p.Gln10Arg | missense_variant | 0.11 | pyrazinamide |
ahpC | 2726141 | c.-52C>T | upstream_gene_variant | 1.0 | isoniazid |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 0.99 |
gyrA | 7539 | p.Thr80Ala | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.25 |
rpoC | 767123 | p.Val1252Leu | missense_variant | 1.0 |
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 |
katG | 2154681 | p.Trp477Tyr | missense_variant | 1.0 |
katG | 2156100 | c.12A>G | synonymous_variant | 0.13 |
Rv1979c | 2222522 | p.Lys215Glu | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
folC | 2747481 | p.Glu40Lys | missense_variant | 1.0 |
Rv2752c | 3065587 | p.Asp202Ala | missense_variant | 0.99 |
thyA | 3074495 | c.-24C>T | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 0.99 |
embA | 4243201 | c.-31delC | upstream_gene_variant | 1.0 |
embA | 4245184 | p.Leu651Arg | missense_variant | 0.99 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.24 |
ethA | 4328329 | c.-856C>G | upstream_gene_variant | 1.0 |
whiB6 | 4338378 | c.141_143delCGA | disruptive_inframe_deletion | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408009 | p.Val65Gly | missense_variant | 1.0 |