TB-Profiler result

Run: SRR22424906
Summary

Run ID: SRR22424906

Sample name:

Date: 04-04-2023 04:16:16

Number of reads: 722295

Percentage reads mapped: 99.67

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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
katG 2155168 p.Ser315Thr missense_variant 1.0 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 491742 c.960T>C synonymous_variant 1.0
mshA 576488 p.Val381Leu missense_variant 0.1
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763797 p.Met143Arg missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304373 p.His481Gln missense_variant 0.11
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.17
Rv1258c 1407241 p.Val34Leu missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472957 n.1112C>A non_coding_transcript_exon_variant 0.33
rrs 1473286 n.1441C>A non_coding_transcript_exon_variant 0.29
fabG1 1673684 p.Val82Asp missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918540 p.Pro201Ser missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167889 c.2724C>A synonymous_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087483 p.Ala222Thr missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612068 p.Gly350Val missense_variant 0.12
fbiB 3642012 p.Gln160* stop_gained 0.12
fbiB 3642877 p.Lys448Arg missense_variant 1.0
embC 4241261 p.Phe467Leu missense_variant 0.11
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244563 p.Arg444Leu missense_variant 0.12
embB 4246662 p.Val50Ala missense_variant 0.11
embB 4246973 p.His154Tyr missense_variant 0.13
embB 4246976 p.Ala155Pro missense_variant 0.13
aftB 4268654 c.183A>G synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407797 p.Ser136Pro missense_variant 1.0
fbiC 1305494 c.2565_*56delCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0