TB-Profiler result

Run: ERR4813230
Summary

Run ID: ERR4813230

Sample name:

Date: 01-04-2023 12:36:55

Number of reads: 78119

Percentage reads mapped: 97.41

Strain: lineage4.1

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
lineage4.1 Euro-American T;X;H None 0.09
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
ethA 4326278 p.Ser399* stop_gained 1.0 ethionamide
gid 4407985 p.Gly73Ala missense_variant 1.0 streptomycin
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
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834568 p.Asp343His missense_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2222501 p.Ala222Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518271 p.Lys53Glu missense_variant 0.4
pepQ 2859360 c.1059A>G synonymous_variant 1.0
fprA 3475234 p.Leu410Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
ethA 4326407 p.Ile356Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0