TB-Profiler result

Run: SRR18213794
Summary

Run ID: SRR18213794

Sample name:

Date: 03-04-2023 19:29:27

Number of reads: 2314527

Percentage reads mapped: 96.75

Strain: lineage4.1.1.3

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472088 n.243T>A non_coding_transcript_exon_variant 0.15
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.25
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.29
rrl 1473746 n.89T>A non_coding_transcript_exon_variant 0.22
rrl 1473864 n.207G>A non_coding_transcript_exon_variant 0.2
rrl 1474717 n.1060A>G non_coding_transcript_exon_variant 0.75
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.75
rrl 1474743 n.1086T>G non_coding_transcript_exon_variant 0.75
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.75
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.67
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 1.0
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.98
PPE35 2170048 p.Leu189Val missense_variant 0.18
PPE35 2170053 p.Thr187Ser missense_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.24
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
ethR 4327691 p.Asp48Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0