TB-Profiler result

Run: ERR2515444
Summary

Run ID: ERR2515444

Sample name:

Date: 31-03-2023 20:56:28

Number of reads: 615275

Percentage reads mapped: 97.12

Strain: lineage4.3.2.1

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 1.0
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>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
mshA 576754 c.1407C>A synonymous_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 0.96
rpoC 766555 p.Tyr1062* stop_gained 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777615 p.Arg289His missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781490 c.-70C>T upstream_gene_variant 0.12
Rv1258c 1406159 c.1182G>A synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471985 n.140T>C non_coding_transcript_exon_variant 0.11
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.11
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.12
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.13
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.12
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.12
rrs 1472243 n.398G>A non_coding_transcript_exon_variant 0.12
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.12
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.12
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.12
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.12
rrl 1475708 n.2051G>T non_coding_transcript_exon_variant 0.1
inhA 1673643 c.-559C>G upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155626 c.486G>A synonymous_variant 0.11
PPE35 2169448 p.Phe389Leu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289887 c.-647delG upstream_gene_variant 0.12
pncA 2290120 c.-879T>C upstream_gene_variant 0.12
pepQ 2860418 p.Val1Met missense_variant 0.12
thyX 3067784 c.162C>A synonymous_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339255 c.138G>A synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241573 p.Ile571Val missense_variant 0.11
embC 4242064 p.Trp734Cys missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244641 p.Val470Ala missense_variant 0.13
embB 4248807 p.Lys765Arg missense_variant 0.12
aftB 4268724 p.Val38Ala missense_variant 0.11
ubiA 4268936 c.897delT frameshift_variant 0.18
ethR 4327420 c.-129G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0