TB-Profiler result

Run: ERR158584
Summary

Run ID: ERR158584

Sample name:

Date: 14-08-2022 15:19:31

Number of reads: 7305489

Percentage reads mapped: 99.63

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 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.98
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 0.98 isoniazid
ahpC 2726141 c.-52C>T upstream_gene_variant 0.99 isoniazid
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 0.99
gyrA 8040 p.Gly247Ser missense_variant 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303095 c.165G>A synonymous_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833855 p.Lys105Arg missense_variant 0.96
rpsA 1834836 p.Met432Thr missense_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 0.98
folC 2746340 p.Ala420Val missense_variant 0.99
thyA 3073868 p.Thr202Ala missense_variant 0.97
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 0.98
clpC1 4038857 c.1848C>A synonymous_variant 0.29
clpC1 4038968 c.1737G>A synonymous_variant 0.98
embC 4239842 c.-21C>A upstream_gene_variant 0.23
embC 4242425 p.Arg855Gly missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407777 p.Leu142Phe missense_variant 0.98
gid 4408156 p.Leu16Arg missense_variant 0.98