Run ID: SRR11972168
Sample name:
Date: 03-04-2023 05:30:26
Number of reads: 409878
Percentage reads mapped: 99.13
Strain: lineage3
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage3 | East-African-Indian | CAS | 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 | 7496 | c.195C>T | synonymous_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8934 | p.Gln545Lys | missense_variant | 0.18 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9680 | c.2379G>A | synonymous_variant | 0.22 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
mshA | 576535 | c.1188T>C | synonymous_variant | 1.0 |
ccsA | 619831 | c.-60T>G | upstream_gene_variant | 0.33 |
rpoB | 759746 | c.-61C>T | upstream_gene_variant | 1.0 |
rpoC | 762434 | c.-936T>G | upstream_gene_variant | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoC | 765791 | p.Thr808Ala | missense_variant | 0.17 |
mmpL5 | 775610 | c.2871G>A | synonymous_variant | 0.2 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 778618 | c.-138G>A | upstream_gene_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302735 | c.-196G>T | upstream_gene_variant | 0.18 |
embR | 1416430 | c.918G>C | synonymous_variant | 0.12 |
atpE | 1460978 | c.-67C>A | upstream_gene_variant | 0.25 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472193 | n.348A>G | non_coding_transcript_exon_variant | 0.17 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.42 |
rrs | 1472225 | n.380C>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472236 | n.391C>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472251 | n.406G>T | non_coding_transcript_exon_variant | 0.15 |
rrs | 1472253 | n.408G>T | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472256 | n.411T>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472259 | n.414C>A | non_coding_transcript_exon_variant | 0.14 |
rrs | 1472262 | n.417C>T | non_coding_transcript_exon_variant | 0.13 |
rrs | 1472269 | n.424G>A | non_coding_transcript_exon_variant | 0.12 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.43 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155888 | p.Ala75Val | missense_variant | 0.13 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.14 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168604 | p.Pro670Leu | missense_variant | 1.0 |
PPE35 | 2169249 | p.Ile455Thr | missense_variant | 0.12 |
PPE35 | 2169269 | c.1344A>G | synonymous_variant | 0.13 |
PPE35 | 2169272 | c.1341C>G | synonymous_variant | 0.14 |
PPE35 | 2169353 | c.1260C>T | synonymous_variant | 0.12 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.27 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.27 |
PPE35 | 2170066 | p.Ala183Thr | missense_variant | 0.14 |
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 |
pncA | 2289686 | c.-445G>T | upstream_gene_variant | 0.22 |
ahpC | 2726105 | c.-88G>A | upstream_gene_variant | 1.0 |
ribD | 2987010 | p.Thr58Pro | missense_variant | 0.2 |
thyX | 3067277 | c.669C>A | synonymous_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 0.9 |
fbiD | 3339273 | c.156T>G | synonymous_variant | 0.38 |
fprA | 3473958 | c.-49C>T | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
alr | 3840542 | c.879G>A | synonymous_variant | 0.22 |
ddn | 3987002 | c.159C>T | synonymous_variant | 0.15 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.14 |
panD | 4043998 | p.Asp95Val | missense_variant | 0.18 |
embC | 4242075 | p.Arg738Gln | missense_variant | 1.0 |
embC | 4242228 | p.Gly789Val | missense_variant | 0.2 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242820 | c.-413G>A | upstream_gene_variant | 0.4 |
embA | 4244619 | p.Leu463Val | missense_variant | 0.33 |
aftB | 4267074 | p.Leu588Pro | missense_variant | 0.2 |
aftB | 4268857 | c.-21C>A | upstream_gene_variant | 0.12 |
ethA | 4327268 | p.Trp69Leu | missense_variant | 0.33 |
ethA | 4327557 | c.-84G>T | upstream_gene_variant | 0.2 |
ethR | 4328068 | p.Ala174Thr | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408114 | p.Gly30Asp | missense_variant | 1.0 |