TB-Profiler result

Run: ERR257885

Summary

Run ID: ERR257885

Sample name:

Date: 31-03-2023 22:22:01

Number of reads: 557782

Percentage reads mapped: 98.86

Strain: lineage4

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
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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8888 c.1587C>A synonymous_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491270 p.Tyr163Cys missense_variant 1.0
rpoB 762824 p.Asp1006Glu missense_variant 0.12
rpoC 764692 c.1323C>T synonymous_variant 0.25
rpoC 765938 p.Arg857* stop_gained 0.12
rpoC 767314 p.Tyr1315* stop_gained 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406319 p.Ala341Gly missense_variant 0.12
Rv1258c 1406929 p.Ser138Ala missense_variant 0.22
embR 1417526 c.-179G>T upstream_gene_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474571 n.914G>A non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154915 c.1197A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746460 p.Ser380Thr missense_variant 0.11
Rv2752c 3065722 p.Ala157Glu missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568821 c.-142A>G upstream_gene_variant 0.15
Rv3236c 3612169 c.947delA frameshift_variant 0.18
clpC1 4040327 p.Lys126Asn missense_variant 0.25
embC 4242357 c.2497_2499dupAAC conservative_inframe_insertion 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248645 p.Ala711Val missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0