TB-Profiler result

Run: SRR6257078
Summary

Run ID: SRR6257078

Sample name:

Date: 04-04-2023 13:25:35

Number of reads: 687245

Percentage reads mapped: 99.63

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 491115 c.333G>T synonymous_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764520 p.Asn384Ser missense_variant 0.1
rpoC 765117 p.Thr583Ile missense_variant 0.12
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
rplC 801291 c.483C>T synonymous_variant 0.89
fbiC 1303763 p.Arg278Leu missense_variant 0.1
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.1
rrs 1472835 n.990T>A non_coding_transcript_exon_variant 0.18
rrl 1473908 n.251C>T non_coding_transcript_exon_variant 0.11
rrl 1474302 n.646delA 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
tlyA 1918525 p.Gly196Arg missense_variant 0.12
katG 2154135 c.1977G>T synonymous_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222515 p.Thr217Met missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290039 c.-798C>A upstream_gene_variant 1.0
eis 2714816 p.Gly173Cys missense_variant 0.11
eis 2715465 c.-133G>A upstream_gene_variant 0.11
thyX 3067698 p.Thr83Ile missense_variant 0.1
thyX 3067782 p.Ala55Val missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339046 c.-72G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474601 p.Arg199Cys missense_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641661 p.Gly43Ser missense_variant 0.11
embC 4242141 p.Asp760Gly missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4247834 p.Thr441Ala missense_variant 0.15
embB 4248316 c.1803C>A synonymous_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267700 p.Trp379* stop_gained 0.12
ethR 4327981 p.Trp145Arg missense_variant 0.1
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