TB-Profiler result

Run: SRR6785331
Summary

Run ID: SRR6785331

Sample name:

Date: 04-04-2023 15:48:20

Number of reads: 4317653

Percentage reads mapped: 98.6

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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 0.98
mshA 576108 p.Ala254Gly missense_variant 0.23
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763717 c.348T>C synonymous_variant 0.12
rpoC 763723 c.354G>C synonymous_variant 0.12
rpoC 763732 c.363C>G synonymous_variant 0.12
rpoC 763741 c.372C>T synonymous_variant 0.14
rpoC 763744 c.375G>C synonymous_variant 0.13
rpoC 763765 c.396T>C synonymous_variant 0.12
rpoC 763774 c.405G>C synonymous_variant 0.12
rpoC 764195 p.Ser276Ile missense_variant 0.12
rpoC 764203 c.834G>C synonymous_variant 0.11
rpoC 764206 c.837T>C synonymous_variant 0.11
rpoC 764215 c.846A>G synonymous_variant 0.12
rpoC 764236 c.867G>A synonymous_variant 0.15
rpoC 764248 c.879C>G synonymous_variant 0.13
rpoC 764257 c.888G>C synonymous_variant 0.13
rpoC 766645 p.Glu1092Asp missense_variant 0.99
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 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.98
Rv1258c 1407237 p.Leu35Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474101 n.444C>A non_coding_transcript_exon_variant 0.11
rrl 1476117 n.2460G>T non_coding_transcript_exon_variant 0.11
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.13
fabG1 1673346 c.-94C>G upstream_gene_variant 0.15
fabG1 1673349 c.-91G>C upstream_gene_variant 0.15
fabG1 1673357 c.-83G>A upstream_gene_variant 0.13
fabG1 1673359 c.-81T>C upstream_gene_variant 0.14
fabG1 1673361 c.-79C>G upstream_gene_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
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 2169902 p.Leu237Phe missense_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.33
Rv1979c 2222112 c.1052dupT frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.98
embA 4245149 c.1917C>G synonymous_variant 0.11
embA 4245153 p.Ile641Val missense_variant 0.11
embA 4245182 c.1950T>C synonymous_variant 0.13
embA 4245189 c.1957C>T synonymous_variant 0.14
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.12
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.44
embB 4246563 p.Leu17Trp missense_variant 0.42
embB 4246567 c.54G>T synonymous_variant 0.33
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4327406 p.Leu23Arg missense_variant 1.0
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