TB-Profiler result

Run: ERR2503453
Summary

Run ID: ERR2503453

Sample name:

Date: 31-03-2023 18:28:07

Number of reads: 478832

Percentage reads mapped: 99.64

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 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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 7789 p.Pro163Gln missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575481 p.Arg45His missense_variant 0.14
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.25
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 762756 p.Ser984Thr missense_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766645 p.Glu1092Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.17
fbiC 1305203 c.2277delC frameshift_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407423 c.-83G>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473771 n.114T>C non_coding_transcript_exon_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168121 p.Leu831Arg missense_variant 1.0
PPE35 2169057 p.Pro519Leu missense_variant 0.18
PPE35 2169916 p.Gly233Ser missense_variant 0.14
PPE35 2170238 c.375T>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289803 c.-562G>A upstream_gene_variant 0.1
kasA 2518812 p.Asp233Gly missense_variant 0.11
ahpC 2726338 p.Val49Gly missense_variant 0.2
ahpC 2726350 p.Trp53Leu missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612125 p.Val331Gly missense_variant 0.22
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3612835 c.282T>G synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242916 c.-317C>T upstream_gene_variant 0.11
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244212 p.Pro327Leu missense_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268716 c.121C>T synonymous_variant 0.12
aftB 4268889 c.-53C>T upstream_gene_variant 0.2
ethR 4327649 p.Glu34Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0