TB-Profiler result

Run: ERR11050022

Summary

Run ID: ERR11050022

Sample name:

Date: 02-04-2023 07:51:31

Number of reads: 3448551

Percentage reads mapped: 99.71

Strain: lineage4.3

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
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 9304 p.Gly668Asp missense_variant 1.0
mshA 576442 p.Cys365Trp missense_variant 0.19
mshA 576456 p.Val370Gly missense_variant 0.22
rpoB 762008 c.2202C>T synonymous_variant 0.21
rpoC 764367 p.Gly333Ala missense_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.39
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.19
PPE35 2170065 p.Ala183Gly missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.26
pepQ 2860159 p.Ala87Gly missense_variant 0.23
Rv2752c 3065273 p.Thr307Pro missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.12
fbiD 3339734 p.Ala206Gly missense_variant 0.64
fbiD 3339751 p.Ala212Pro missense_variant 0.28
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878597 c.-90G>C upstream_gene_variant 0.36
rpoA 3878613 c.-106A>C upstream_gene_variant 0.33
rpoA 3878641 c.-134C>G upstream_gene_variant 0.67
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.48
embB 4246584 p.Arg24Pro missense_variant 0.2
embB 4247016 p.Ser168Trp missense_variant 0.19
embB 4248328 c.1815G>C synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407721 p.Ala161Gly missense_variant 1.0
gid 4407981 c.222G>A synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0