TB-Profiler result

Run: ERR4815457
Summary

Run ID: ERR4815457

Sample name:

Date: 01-04-2023 13:52:39

Number of reads: 4764666

Percentage reads mapped: 99.23

Strain: lineage4.1.2.1

Drug-resistance: Other

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.22 streptomycin
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765838 c.2469G>A synonymous_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 1472172 n.327T>C non_coding_transcript_exon_variant 0.43
rrs 1472188 n.343A>G non_coding_transcript_exon_variant 0.22
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.33
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.67
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.2
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.3
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.36
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.55
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.45
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.45
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.33
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.5
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.4
rrs 1472958 n.1113A>C non_coding_transcript_exon_variant 0.4
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.4
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.33
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.29
rrs 1472988 n.1143T>G non_coding_transcript_exon_variant 0.29
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.22
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.2
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.17
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.15
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.18
rrl 1475879 n.2222T>C non_coding_transcript_exon_variant 0.4
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
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
ethR 4327893 c.346_347dupTC frameshift_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338676 c.-155T>C upstream_gene_variant 1.0