TB-Profiler result

Run: SRR6046171
Summary

Run ID: SRR6046171

Sample name:

Date: 04-04-2023 12:12:25

Number of reads: 423300

Percentage reads mapped: 20.66

Strain: lineage3

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
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
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
gyrB 5135 c.-105G>A upstream_gene_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7459 p.Arg53His missense_variant 0.18
gyrA 7466 c.165G>A synonymous_variant 0.13
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 575830 c.483C>T synonymous_variant 0.11
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 765147 p.Pro593His missense_variant 0.13
rpoC 765347 p.Asp660Asn missense_variant 1.0
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 1303016 p.Val29Gly missense_variant 0.36
fbiC 1304583 p.Asn551Lys missense_variant 0.12
Rv1258c 1406221 p.Ala374Pro missense_variant 1.0
embR 1416821 p.Ala176Asp missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473344 n.1499T>C non_coding_transcript_exon_variant 0.33
tlyA 1917851 c.-89C>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154615 c.1497G>C synonymous_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155196 p.Thr306Ala missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169375 p.Asn413Ile missense_variant 0.1
Rv1979c 2221946 p.Val407Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518147 c.33C>T synonymous_variant 0.23
ahpC 2726105 c.-88G>A 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
whiB7 3568685 c.-7delA upstream_gene_variant 0.11
clpC1 4039161 p.His515Gly missense_variant 0.11
clpC1 4039169 p.Glu512Asp missense_variant 0.1
clpC1 4039228 p.Gly493Arg missense_variant 0.1
clpC1 4040375 c.330G>A synonymous_variant 0.15
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245991 p.Pro920Leu missense_variant 0.15
embB 4246043 c.-471C>T upstream_gene_variant 0.12
embB 4248959 p.Asp816Asn missense_variant 0.15
embB 4249210 c.2697G>A synonymous_variant 0.13
ethA 4326797 p.Asn226Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0