Run ID: SRR19428515
Sample name:
Date: 03-04-2023 21:38:44
Number of reads: 2499856
Percentage reads mapped: 99.57
Strain: lineage3.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | RD750 | 1.0 |
lineage3.1 | East-African-Indian | Non-CAS1-Delhi | RD750 | 1.0 |
lineage3.1.1 | East-African-Indian | CAS1-Kili | RD750 | 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 | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576375 | p.Ala343Glu | missense_variant | 0.11 |
ccsA | 619728 | c.-163C>A | upstream_gene_variant | 0.13 |
ccsA | 620140 | p.Ala84Ser | missense_variant | 0.29 |
ccsA | 620162 | p.Leu91Pro | missense_variant | 0.11 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoB | 762750 | p.Leu982Met | missense_variant | 0.12 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 0.99 |
fbiC | 1304314 | p.Val462Leu | missense_variant | 0.15 |
Rv1258c | 1407521 | c.-181C>A | upstream_gene_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918074 | c.135C>A | synonymous_variant | 0.5 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170461 | p.Gly51Glu | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289047 | c.195C>T | synonymous_variant | 1.0 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
thyX | 3067559 | c.387C>A | synonymous_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fbiB | 3642320 | c.786C>A | synonymous_variant | 0.29 |
rpoA | 3878578 | c.-71C>A | upstream_gene_variant | 0.67 |
embC | 4240172 | p.Val104Met | missense_variant | 1.0 |
embC | 4240533 | p.Ser224Asn | missense_variant | 1.0 |
embC | 4241562 | p.Arg567His | missense_variant | 0.98 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.99 |
embC | 4242545 | p.Glu895* | stop_gained | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242651 | p.Arg930His | missense_variant | 0.17 |
embA | 4243899 | p.Ala223Ser | missense_variant | 0.12 |
embA | 4244300 | c.1068C>A | synonymous_variant | 0.29 |
embB | 4246800 | p.Gly96Val | missense_variant | 0.12 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |