TB-Profiler result

Run: ERR4820362
Summary

Run ID: ERR4820362

Sample name:

Date: 01-04-2023 16:38:15

Number of reads: 113025

Percentage reads mapped: 97.21

Strain: lineage4.2

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.2 Euro-American H;T;LAM None 0.08
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 9224 p.Asp641Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781742 c.183C>T synonymous_variant 0.14
rpsL 781748 c.189C>G synonymous_variant 0.14
rpsL 781754 c.195G>C synonymous_variant 0.15
rpsL 781760 c.201T>C synonymous_variant 0.14
rpsL 781772 c.213C>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474130 n.473C>T non_coding_transcript_exon_variant 1.0
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 1.0
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 1.0
rrl 1474181 n.524_525insT non_coding_transcript_exon_variant 1.0
rrl 1474184 n.527C>A non_coding_transcript_exon_variant 1.0
rrl 1474185 n.529delA non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918698 c.759C>A synonymous_variant 0.5
PPE35 2167745 p.Thr956Arg missense_variant 0.4
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2221797 c.1368C>T synonymous_variant 0.29
Rv1979c 2223284 c.-120C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859408 c.1011C>T synonymous_variant 1.0
Rv2752c 3065541 c.651A>G synonymous_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
fbiD 3339564 c.447G>T synonymous_variant 0.4
rpoA 3877494 p.Glu338Asp missense_variant 0.5
rpoA 3877503 c.1005G>C synonymous_variant 0.4
rpoA 3877507 p.Gly334Ala missense_variant 0.4
rpoA 3877515 c.993G>C synonymous_variant 0.4
rpoA 3877553 p.Glu319Gln missense_variant 0.5
embC 4241572 c.1710C>T synonymous_variant 0.5
embB 4247705 p.Phe398Ile missense_variant 0.5
whiB6 4338585 c.-64G>A upstream_gene_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338666 c.-145G>A upstream_gene_variant 0.4