Run ID: SRR19427009
Sample name:
Date: 03-04-2023 21:37:54
Number of reads: 1295582
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 | 0.88 |
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 | 491315 | p.Gly178Val | missense_variant | 0.29 |
fgd1 | 491333 | p.Tyr184Ser | missense_variant | 0.25 |
fgd1 | 491337 | c.557dupG | frameshift_variant | 0.25 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 575237 | c.-111C>A | upstream_gene_variant | 0.12 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 0.99 |
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 | 1.0 |
fbiC | 1303050 | p.Asn40Lys | missense_variant | 0.12 |
fbiC | 1303146 | c.216G>T | synonymous_variant | 0.4 |
Rv1258c | 1406349 | p.Ile331Ser | missense_variant | 1.0 |
Rv1258c | 1406981 | c.360C>A | synonymous_variant | 0.18 |
Rv1258c | 1407482 | c.-142G>C | upstream_gene_variant | 0.13 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918053 | c.114G>T | synonymous_variant | 0.5 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.22 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.25 |
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 | 0.99 |
pncA | 2289365 | c.-125delC | upstream_gene_variant | 1.0 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
folC | 2746227 | p.Gly458Trp | missense_variant | 0.12 |
pepQ | 2859617 | p.Ala268Ser | missense_variant | 0.13 |
ribD | 2987348 | c.510G>T | synonymous_variant | 0.13 |
thyX | 3067208 | p.Leu246Phe | missense_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087294 | p.Leu159Met | missense_variant | 0.11 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475325 | p.Pro440His | missense_variant | 0.2 |
fbiB | 3642343 | p.Pro270Leu | missense_variant | 0.2 |
embC | 4241562 | p.Arg567His | missense_variant | 1.0 |
embC | 4242075 | p.Arg738Gln | missense_variant | 0.98 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243571 | c.339G>A | synonymous_variant | 0.18 |
embA | 4243603 | p.Ala124Val | missense_variant | 0.18 |
embA | 4244579 | c.1347C>T | synonymous_variant | 1.0 |
embB | 4247685 | p.Leu391* | stop_gained | 0.2 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |