TB-Profiler result

Run: ERR2679303
Summary

Run ID: ERR2679303

Sample name:

Date: 31-03-2023 23:01:39

Number of reads: 242082

Percentage reads mapped: 99.51

Strain: lineage4.1

Drug-resistance: Sensitive

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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 0.99
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 6507 p.Ala423Val missense_variant 0.96
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9656 c.2355C>G synonymous_variant 0.86
fgd1 491078 p.Asn99Ser missense_variant 0.15
rpoB 760341 p.Val179Leu missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765187 c.1818C>T synonymous_variant 1.0
rpoC 766012 c.2643C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777217 c.1258_1263delTACCTG conservative_inframe_deletion 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155824 c.288C>T synonymous_variant 1.0
katG 2156007 c.105C>T synonymous_variant 1.0
PPE35 2168448 p.Gln722Arg missense_variant 0.93
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715432 c.-100C>T upstream_gene_variant 0.4
eis 2715436 c.-104G>A upstream_gene_variant 0.4
eis 2715440 c.-108A>C upstream_gene_variant 0.33
eis 2715445 c.-113C>T upstream_gene_variant 0.33
eis 2715447 c.-115T>A upstream_gene_variant 0.33
eis 2715450 c.-118T>C upstream_gene_variant 0.33
eis 2715451 c.-119C>A upstream_gene_variant 0.33
eis 2715454 c.-122T>G upstream_gene_variant 0.33
eis 2715455 c.-123G>A upstream_gene_variant 0.33
eis 2715458 c.-126T>A upstream_gene_variant 0.33
eis 2715460 c.-128A>G upstream_gene_variant 0.33
eis 2715465 c.-133G>T upstream_gene_variant 0.33
eis 2715469 c.-137T>C upstream_gene_variant 0.33
eis 2715473 c.-141A>G upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087893 p.Asp358Glu missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4240394 p.Glu178* stop_gained 0.25
embC 4240646 p.Phe262Leu missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242708 p.Asp949Ala missense_variant 0.33
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244220 c.988C>T synonymous_variant 0.2
embA 4244262 c.1030C>T synonymous_variant 0.82
whiB6 4338595 c.-75delG upstream_gene_variant 1.0