Run ID: ERR552393
Sample name:
Date: 15-08-2022 10:50:08
Number of reads: 520569
Percentage reads mapped: 99.7
Strain: lineage4.6.1.2
Drug-resistance: Sensitive
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 |
lineage4.6.1.2 | Euro-American | T2 | RD724 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7539 | p.Thr80Ala | missense_variant | 1.0 |
gyrA | 7570 | p.Ala90Gly | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576084 | p.Val246Ala | missense_variant | 0.13 |
mshA | 576579 | p.Gly411Glu | missense_variant | 0.11 |
ccsA | 619945 | p.Thr19Ala | missense_variant | 0.17 |
rpoB | 762933 | p.Tyr1043His | missense_variant | 0.1 |
rpoC | 764377 | c.1008C>T | synonymous_variant | 0.17 |
rpoC | 764810 | p.Pro481Thr | missense_variant | 1.0 |
rpoC | 765957 | p.Thr863Ile | missense_variant | 0.1 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 778116 | c.364delC | frameshift_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
Rv1258c | 1406504 | c.837C>T | synonymous_variant | 0.12 |
embR | 1416410 | p.Leu313Arg | missense_variant | 1.0 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
inhA | 1674207 | c.6A>G | synonymous_variant | 0.11 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918440 | c.501G>A | synonymous_variant | 0.89 |
ndh | 2103207 | c.-165C>A | upstream_gene_variant | 0.1 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3065192 | p.Ile334Val | missense_variant | 0.09 |
Rv2752c | 3065595 | p.Leu199Phe | missense_variant | 0.09 |
Rv2752c | 3065604 | c.585_587delCGT | disruptive_inframe_deletion | 0.09 |
Rv2752c | 3065920 | p.Pro91Leu | missense_variant | 1.0 |
thyA | 3074582 | c.-111T>C | upstream_gene_variant | 0.11 |
thyA | 3074636 | c.-165T>C | upstream_gene_variant | 0.1 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3642198 | p.Val222Leu | missense_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244153 | p.Tyr307* | stop_gained | 0.1 |
embA | 4245055 | p.Thr608Asn | missense_variant | 1.0 |
embA | 4245585 | p.Pro785Ser | missense_variant | 1.0 |
embB | 4245719 | c.-795G>T | upstream_gene_variant | 0.2 |
aftB | 4268790 | p.Leu16Pro | missense_variant | 0.1 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |