TB-Profiler result

Run: ERR4820224

Summary

Run ID: ERR4820224

Sample name:

Date: 01-04-2023 16:33:21

Number of reads: 1132589

Percentage reads mapped: 99.5

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
gyrA 7156 c.-146C>T upstream_gene_variant 1.0
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 576751 p.Lys468Asn missense_variant 0.27
ccsA 620034 c.144C>G synonymous_variant 0.12
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
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 0.23
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473024 n.1179G>C non_coding_transcript_exon_variant 0.5
rrl 1476016 n.2362dupG non_coding_transcript_exon_variant 0.5
rrl 1476212 n.2555T>A non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155262 p.Val284Ile missense_variant 0.1
PPE35 2167876 p.Gly913Ser missense_variant 0.11
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169879 p.Phe245Ser missense_variant 0.12
PPE35 2169882 p.Ser244Asn missense_variant 0.11
PPE35 2169890 c.723C>T synonymous_variant 0.11
PPE35 2169893 c.720C>A synonymous_variant 0.12
PPE35 2169970 p.Gly215Ser missense_variant 0.12
PPE35 2170027 p.Pro196Ser missense_variant 1.0
PPE35 2170371 p.Thr81Val 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 2519128 c.1014G>C synonymous_variant 0.11
kasA 2519131 c.1017G>C synonymous_variant 0.11
kasA 2519140 c.1026G>C synonymous_variant 0.11
kasA 2519143 c.1029G>C synonymous_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746296 p.Asn435Asp missense_variant 0.11
thyX 3068029 c.-84C>T upstream_gene_variant 0.11
thyA 3074565 c.-94C>A upstream_gene_variant 1.0
ald 3086753 c.-67A>G 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
embC 4241139 p.Ala426Glu missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244819 p.Phe529Leu missense_variant 0.11
whiB6 4338443 p.Tyr27Asn missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0