TB-Profiler result

Run: ERR4817975
Summary

Run ID: ERR4817975

Sample name:

Date: 01-04-2023 15:17:44

Number of reads: 2469284

Percentage reads mapped: 99.47

Strain: lineage4.1.2.1

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
lineage4.1 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
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
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
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.25
rrl 1474798 n.1141C>G non_coding_transcript_exon_variant 0.33
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.29
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.33
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.33
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.4
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.29
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.22
rrl 1475504 n.1847C>A non_coding_transcript_exon_variant 1.0
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.6
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.6
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.6
rrl 1475989 n.2332T>C non_coding_transcript_exon_variant 0.6
rrl 1475990 n.2333G>A non_coding_transcript_exon_variant 0.6
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.6
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
thyA 3073929 c.543T>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 0.21
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0