TB-Profiler result

Run: ERR4815692
Summary

Run ID: ERR4815692

Sample name:

Date: 01-04-2023 14:00:38

Number of reads: 943069

Percentage reads mapped: 99.5

Strain: lineage3.1.1

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
lineage3 East-African-Indian CAS RD750 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.1 East-African-Indian CAS1-Kili 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
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
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 759859 p.Pro18Arg missense_variant 0.11
rpoB 759903 p.Val33Phe missense_variant 0.11
rpoB 761758 p.Tyr651Phe missense_variant 0.2
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 767308 c.3939C>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 778451 c.-539C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303151 p.Gly74Ala missense_variant 0.15
Rv1258c 1407317 c.24G>A synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471939 n.94C>T non_coding_transcript_exon_variant 0.12
rrs 1472081 n.236C>A non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154746 p.Ala456Pro missense_variant 0.22
katG 2155395 c.717G>C synonymous_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167955 c.2658A>C synonymous_variant 0.12
PPE35 2170461 p.Gly51Glu missense_variant 1.0
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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746197 p.Ile468Val missense_variant 0.1
folC 2747295 p.Gln102Glu missense_variant 0.15
ribD 2987319 p.Glu161* stop_gained 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339012 c.-106A>T upstream_gene_variant 0.11
Rv3083 3448369 c.-135G>C upstream_gene_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475374 c.1368C>A synonymous_variant 0.17
Rv3236c 3612138 p.Gly327Cys missense_variant 0.12
fbiA 3640720 p.Pro60Ser missense_variant 0.17
fbiB 3642823 p.Asp430Gly missense_variant 0.29
clpC1 4039603 p.Ala368Ser missense_variant 0.12
embC 4240172 p.Val104Met missense_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242619 c.-614C>T upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269989 c.-156G>T upstream_gene_variant 0.13
ubiA 4269997 c.-164C>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0