TB-Profiler result

Run: ERR2653022
Summary

Run ID: ERR2653022

Sample name:

Date: 31-03-2023 22:27:17

Number of reads: 1238205

Percentage reads mapped: 99.56

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575499 p.Ala51Val missense_variant 0.11
mshA 575579 p.His78Tyr missense_variant 0.15
rpoB 760318 p.Ser171Asn missense_variant 0.11
rpoB 760436 c.630C>T synonymous_variant 0.11
rpoC 764693 p.Gly442Cys missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406375 c.966C>A synonymous_variant 0.13
Rv1258c 1406413 p.Pro310Ser missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 1.0
inhA 1674748 p.Gly183Ser missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918726 p.Ala263Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518733 p.Ile207Leu missense_variant 0.1
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715567 c.-235G>A upstream_gene_variant 0.12
ribD 2987388 p.Ala184Pro missense_variant 0.12
Rv2752c 3065771 p.Cys141Ser missense_variant 0.12
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448910 p.Leu136His missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878630 c.-123G>C upstream_gene_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
panD 4044029 p.Val85Met missense_variant 0.13
panD 4044077 p.Ile69Val missense_variant 0.12
panD 4044372 c.-91T>A upstream_gene_variant 0.15
panD 4044397 c.-116G>A upstream_gene_variant 0.14
embC 4240006 c.144A>G synonymous_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245083 c.1851A>G synonymous_variant 1.0
aftB 4267180 p.Tyr553His missense_variant 0.1
aftB 4268665 p.Asn58Tyr missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0