TB-Profiler result

Run: SRR11972168
Summary

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

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage3 East-African-Indian CAS RD750 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
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