TB-Profiler result

Run: SRR23310937
Summary

Run ID: SRR23310937

Sample name:

Date: 14-03-2023 03:49:37

Number of reads: 5109105

Percentage reads mapped: 99.64

Strain: lineage2.2

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 0.96 streptomycin
katG 2155168 p.Ser315Thr missense_variant 0.99 isoniazid
eis 2715342 c.-10G>A upstream_gene_variant 0.99 kanamycin
embB 4247429 p.Met306Val missense_variant 0.99 ethambutol
ethA 4327363 c.107delA frameshift_variant 0.99 ethionamide, ethionamide
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
gyrA 9647 c.2346C>G synonymous_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 0.98
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.2
rpoC 764817 p.Val483Ala missense_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.99
mmpL5 777883 p.Gly200Arg missense_variant 0.17
mmpS5 779615 c.-710C>G upstream_gene_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
fabG1 1673553 p.Asp38Glu missense_variant 0.19
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.29
ald 3086731 c.-89A>G upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.71
fbiD 3339746 p.Ala210Gly missense_variant 0.25
fprA 3473996 c.-10_-9insA upstream_gene_variant 0.99
whiB7 3568428 c.252A>G synonymous_variant 0.21
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
rpoA 3878597 c.-90G>C upstream_gene_variant 0.44
rpoA 3878641 c.-134C>G upstream_gene_variant 0.76
embC 4240409 p.Pro183Ala missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embA 4243346 c.114A>G synonymous_variant 0.97
embA 4243460 c.228C>T synonymous_variant 0.98
embB 4246527 p.Ala5Gly missense_variant 0.31
embB 4246529 p.Ser6Arg missense_variant 0.15
embB 4246584 p.Arg24Pro missense_variant 0.21
aftB 4267647 p.Asp397Gly missense_variant 0.99
whiB6 4338371 p.Thr51Pro missense_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 0.98