TB-Profiler result

Run: SRR6982296

Summary

Run ID: SRR6982296

Sample name:

Date: 04-04-2023 18:33:14

Number of reads: 261499

Percentage reads mapped: 98.41

Strain:

Drug-resistance: HR-TB


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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
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
katG 2156105 c.6delC frameshift_variant 0.2 isoniazid
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 490751 c.-32T>G upstream_gene_variant 0.25
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
rpoB 762304 p.Val833Glu missense_variant 0.22
rpoB 762429 p.Asp875Asn missense_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766891 c.3527delT frameshift_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.8
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpR5 779447 p.Ala153Asp missense_variant 0.14
mmpS5 779578 c.-673A>G upstream_gene_variant 0.14
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 0.4
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416821 p.Ala176Asp missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472226 n.381A>G non_coding_transcript_exon_variant 0.18
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834406 p.Arg289Cys missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154296 p.Ala606Thr missense_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154823 p.Leu430Ala missense_variant 0.5
katG 2155756 p.Arg119Leu missense_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170123 p.Ala164Ser missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065092 c.1099delC frameshift_variant 0.25
thyX 3067278 c.667dupG frameshift_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087493 p.Leu225His missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3877788 p.Glu240Asp missense_variant 0.14
embC 4240646 p.Phe262Val missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245198 p.Leu656Ile missense_variant 0.22
embB 4246567 c.54G>T synonymous_variant 1.0
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4327142 p.Thr111Ile missense_variant 0.25
ethR 4328126 p.Ser193* stop_gained 0.22
ethA 4328302 c.-829C>A upstream_gene_variant 0.25
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