TB-Profiler result

Run: ERR9786286
Summary

Run ID: ERR9786286

Sample name:

Date: 02-04-2023 12:17:17

Number of reads: 1743488

Percentage reads mapped: 99.69

Strain: lineage4.6.2.2;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 0.29
lineage4.6.2 Euro-American T;LAM RD726 0.69
lineage4.1.2 Euro-American T;H None 0.32
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.7
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.3
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 7762 p.Pro154Arg missense_variant 0.78
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.15
mshA 575679 p.Asn111Ser missense_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 0.23
rpoC 763963 c.594C>T synonymous_variant 0.3
rpoC 765150 p.Gly594Glu missense_variant 0.26
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 0.66
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.71
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.46
thyX 3067474 p.Pro158Ala missense_variant 0.8
ald 3086788 c.-32T>C upstream_gene_variant 0.38
Rv3083 3448567 p.His22Asp missense_variant 0.74
Rv3083 3449069 p.Ala189Glu missense_variant 0.73
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 0.23
aftB 4267272 p.Lys522Arg missense_variant 0.61
ethR 4326739 c.-810G>C upstream_gene_variant 0.73
ethA 4328004 c.-531C>T upstream_gene_variant 0.82
whiB6 4338595 c.-75delG upstream_gene_variant 1.0