TB-Profiler result

Run: ERR11082164
Summary

Run ID: ERR11082164

Sample name:

Date: 10-04-2023 03:29:41

Number of reads: 652284

Percentage reads mapped: 99.72

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 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
gyrA 6682 c.-620G>T upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8770 p.His490Arg missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491660 p.Ala293Val missense_variant 0.13
mshA 575474 p.Asp43Asn missense_variant 1.0
mshA 576113 p.Arg256Gly missense_variant 0.29
mshA 576409 c.1062G>C synonymous_variant 0.14
mshA 576612 p.Ala422Glu missense_variant 0.17
rpoB 762117 p.Ser771Thr missense_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775668 p.Trp938Leu missense_variant 0.25
mmpL5 778726 c.-246T>C upstream_gene_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304089 p.Asp387His missense_variant 0.14
fbiC 1304327 p.Leu466Gln missense_variant 0.18
Rv1258c 1406430 p.Val304Gly missense_variant 0.25
Rv1258c 1406534 c.807C>A synonymous_variant 0.13
embR 1416747 p.His201Asn missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673266 c.-174C>T upstream_gene_variant 1.0
fabG1 1673500 p.Thr21Ser missense_variant 0.15
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102492 p.Glu184Gly missense_variant 0.15
ndh 2102695 c.348C>T synonymous_variant 0.12
ndh 2102934 p.Asp37Asn missense_variant 0.12
katG 2156196 c.-85C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
kasA 2519363 c.1249T>C stop_lost&splice_region_variant 0.11
folC 2746340 p.Ala420Val missense_variant 1.0
Rv2752c 3066015 c.177G>A synonymous_variant 0.12
Rv2752c 3067131 c.-941delT upstream_gene_variant 0.12
thyX 3067534 p.Ala138Thr missense_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640378 c.-165A>G upstream_gene_variant 0.11
fbiB 3642563 p.Asp343Glu missense_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038716 p.Ile663Met missense_variant 0.25
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embC 4241921 p.Gly687Trp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.38
embB 4248829 c.2316T>C synonymous_variant 0.14
embB 4249735 c.3222T>A synonymous_variant 0.22
ethR 4327387 c.-162G>T upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407826 p.Asp126Gly missense_variant 0.17
gid 4407917 p.Arg96Ser missense_variant 1.0
gid 4407945 c.258C>G synonymous_variant 0.14
gid 4408156 p.Leu16Arg missense_variant 1.0