TB-Profiler result

Run: ERR212165
Summary

Run ID: ERR212165

Sample name:

Date: 31-03-2023 15:50:26

Number of reads: 3001719

Percentage reads mapped: 95.59

Strain: lineage4.3.4.2.1

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 0.96
lineage4.3 Euro-American (LAM) mainly-LAM None 0.9
lineage4.3.4 Euro-American (LAM) LAM RD174 0.89
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.9
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 0.88
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
gyrB 6112 p.Met291Ile missense_variant 0.12
gyrB 6140 p.Val301Leu missense_variant 0.78
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 764995 c.1626C>G synonymous_variant 0.85
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.32
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473807 n.150T>C non_coding_transcript_exon_variant 0.1
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.11
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.18
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.17
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.14
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.11
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.11
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.11
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.27
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.27
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.23
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.22
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168428 c.2184dupG frameshift_variant 0.77
PPE35 2169866 c.747G>C synonymous_variant 0.2
Rv1979c 2222308 p.Asp286Gly missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.27
thyA 3073868 p.Thr202Ala missense_variant 0.85
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.88
alr 3840719 c.702A>G synonymous_variant 0.88
rpoA 3878637 c.-130G>C upstream_gene_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 0.83
clpC1 4038857 c.1848C>A synonymous_variant 0.25
embC 4242425 p.Arg855Gly missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.96