TB-Profiler result

Run: SRR2101605
Summary

Run ID: SRR2101605

Sample name:

Date: 03-04-2023 23:48:55

Number of reads: 447887

Percentage reads mapped: 98.37

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8325 p.Gly342Cys missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.33
fgd1 491014 p.Thr78Pro missense_variant 0.5
fgd1 491027 p.Asn82Thr missense_variant 0.33
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.44
rpoB 762304 p.Val833Glu missense_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763301 c.-69C>A upstream_gene_variant 0.15
rpoC 766891 c.3527delT frameshift_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.93
mmpL5 776182 p.Asp767Asn missense_variant 0.89
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801228 c.420T>C synonymous_variant 0.11
fbiC 1303016 p.Val29Gly missense_variant 0.22
fbiC 1303144 p.Ser72Pro missense_variant 0.13
fbiC 1303155 c.225G>A synonymous_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472226 n.381A>G non_coding_transcript_exon_variant 0.11
fabG1 1674076 p.Thr213Pro missense_variant 0.29
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154296 p.Ala606Thr missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 0.95
katG 2154823 p.Leu430Ala missense_variant 0.44
katG 2155756 p.Arg119Leu missense_variant 0.15
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170123 p.Ala164Ser missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518722 p.Glu203Gly missense_variant 0.18
Rv2752c 3065092 c.1099delC frameshift_variant 0.15
thyX 3067278 c.667dupG frameshift_variant 0.14
thyA 3074654 c.-183T>G upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087493 p.Leu225His missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3877788 p.Glu240Asp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243743 p.Gly171Cys missense_variant 0.13
embA 4244500 p.Pro423Gln missense_variant 0.14
embA 4245198 p.Leu656Ile missense_variant 0.17
embB 4246567 c.54G>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4327142 p.Thr111Ile missense_variant 0.12
ethR 4328126 p.Ser193* stop_gained 0.12
ethA 4328302 c.-829C>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.95
gid 4407927 p.Glu92Asp missense_variant 1.0