TB-Profiler result

Run: ERR4811959

Summary

Run ID: ERR4811959

Sample name:

Date: 01-04-2023 11:46:33

Number of reads: 310253

Percentage reads mapped: 99.6

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 8003 c.702C>A synonymous_variant 0.25
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.29
mshA 576123 p.Leu259Arg missense_variant 0.29
ccsA 619917 c.27C>A synonymous_variant 0.18
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674873 p.Gln224His missense_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154470 p.Gly548Ser missense_variant 0.4
katG 2155431 c.681G>A synonymous_variant 0.2
PPE35 2170018 c.594delT frameshift_variant 0.25
Rv1979c 2222681 p.Ala162Ser missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715320 p.Leu5Met missense_variant 0.25
folC 2746613 p.Gly329Asp missense_variant 0.2
thyX 3067989 c.-44C>T upstream_gene_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
whiB7 3568441 p.Lys80Thr missense_variant 0.23
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039562 c.1143C>A synonymous_variant 0.13
embC 4240730 p.Asn290Asp missense_variant 0.4
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243392 p.Asn54Asp missense_variant 1.0
embB 4248522 p.Thr670Ile missense_variant 0.13
aftB 4268505 p.Arg111Leu missense_variant 0.22
ethR 4327661 p.Glu38Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0