TB-Profiler result

Run: ERR4828142
Summary

Run ID: ERR4828142

Sample name:

Date: 01-04-2023 18:41:54

Number of reads: 2209035

Percentage reads mapped: 99.74

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
gyrB 6155 p.Asn306His missense_variant 0.13
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 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.15
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765453 p.Ala695Gly missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776744 c.1737C>T synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 1.0
fbiC 1304962 p.Trp678Gly missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.26
fabG1 1673606 p.Phe56Tyr missense_variant 0.2
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153917 p.Met732Thr missense_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2169488 c.1125G>C synonymous_variant 0.13
PPE35 2169491 c.1122T>C synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.24
PPE35 2170053 p.Thr187Ser missense_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
kasA 2519053 c.939G>T synonymous_variant 0.11
folC 2746340 p.Ala420Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087708 p.Cys297Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038968 c.1737G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245834 c.2603_2609delTGGTGGT frameshift_variant 0.16
embA 4245844 p.Val871Glu missense_variant 0.14
embA 4245846 p.Ser872Thr missense_variant 0.14
embA 4245848 c.2616_2617insACCACCA frameshift_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.31
embB 4246555 c.42G>C synonymous_variant 0.44
embB 4246556 p.Ala15Pro missense_variant 0.44
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0