TB-Profiler result

Run: ERR4812939
Summary

Run ID: ERR4812939

Sample name:

Date: 01-04-2023 12:25:51

Number of reads: 65553

Percentage reads mapped: 99.27

Strain: lineage4.3.3

Drug-resistance: HR-TB

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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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.06
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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289117 c.124delC frameshift_variant 0.4 pyrazinamide
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
ethA 4326718 c.754_755dupGC frameshift_variant 1.0 ethionamide, ethionamide
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
ccsA 620865 c.975A>G stop_lost&splice_region_variant 0.4
rpoB 761998 p.Leu731Pro missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154422 p.Thr564Ala missense_variant 0.67
Rv1979c 2222088 p.Leu359Phe missense_variant 0.4
folC 2746593 p.Pro336Thr missense_variant 1.0
folC 2747330 p.His90Arg missense_variant 0.67
thyA 3073868 p.Thr202Ala missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4039976 p.Lys243Asn missense_variant 0.4
embC 4241913 p.Asn684Thr missense_variant 0.4
embB 4247028 p.Leu172Arg missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0