TB-Profiler result

Run: ERR6865424
Summary

Run ID: ERR6865424

Sample name:

Date: 02-04-2023 02:53:38

Number of reads: 1836019

Percentage reads mapped: 99.71

Strain: lineage4.8;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 0.75
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.23
lineage4.1.2 Euro-American T;H None 0.76
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.69
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 0.61
gyrA 9304 p.Gly668Asp missense_variant 0.73
fgd1 491591 p.Lys270Met missense_variant 0.67
mshA 575679 p.Asn111Ser missense_variant 0.89
rpoB 760115 c.309C>T synonymous_variant 0.71
rpoC 765150 p.Gly594Glu missense_variant 0.76
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460992 c.-53A>C upstream_gene_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.25
rrl 1475757 n.2100A>G non_coding_transcript_exon_variant 0.18
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 0.82
ald 3086788 c.-32T>C upstream_gene_variant 0.7
ald 3087026 p.Asp69Glu missense_variant 0.33
fbiD 3339040 c.-78T>C upstream_gene_variant 0.74
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.79
fbiA 3640393 c.-150A>C upstream_gene_variant 0.72
alr 3840764 c.657G>C synonymous_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.75
embB 4248043 c.1530C>G synonymous_variant 0.69
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408027 p.Leu59Arg missense_variant 0.3
gid 4408312 c.-110C>T upstream_gene_variant 0.8