TB-Profiler result

Run: SRR6485131

Summary

Run ID: SRR6485131

Sample name:

Date: 04-04-2023 15:11:14

Number of reads: 2986865

Percentage reads mapped: 99.73

Strain: lineage4

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
lineage4 Euro-American LAM;T;S;X;H None 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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.38
ccsA 620619 c.729G>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778090 p.Gly131Arg missense_variant 1.0
mmpS5 778767 p.Asp47His missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416966 p.Ala128Pro missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.98
rrl 1474074 n.417C>T non_coding_transcript_exon_variant 1.0
rrl 1474840 n.1183A>G non_coding_transcript_exon_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154450 p.Lys554Asn missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726003 c.-190C>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242835 c.-398C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.24
embB 4246548 p.Pro12Gln missense_variant 0.3
embB 4246555 c.42G>C synonymous_variant 0.52
embB 4246556 p.Ala15Pro missense_variant 0.52
embB 4246563 p.Leu17Trp missense_variant 0.44
embB 4246567 c.54G>T synonymous_variant 0.42
embB 4246584 p.Arg24Pro missense_variant 0.23
ethA 4327310 p.Ser55Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0