TB-Profiler result

Run: ERR4815246
Summary

Run ID: ERR4815246

Sample name:

Date: 01-04-2023 13:45:20

Number of reads: 331144

Percentage reads mapped: 99.97

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
katG 2154815 c.1296delC frameshift_variant 0.11 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
rpoB 761152 p.Leu449Gln missense_variant 0.19
rpoB 762820 p.Phe1005Ser missense_variant 0.29
rpoC 767084 p.Asn1239Asp missense_variant 0.18
mmpS5 778755 p.Phe51Leu missense_variant 0.1
fbiC 1303912 p.Gly328Cys missense_variant 0.17
Rv1258c 1406481 c.859delC frameshift_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473797 n.140G>T non_coding_transcript_exon_variant 0.11
rpsA 1834115 p.Glu192Lys missense_variant 0.17
rpsA 1834806 p.Glu422Gly missense_variant 0.17
katG 2154369 c.1743G>A synonymous_variant 0.2
katG 2154550 p.Leu521Pro missense_variant 0.13
PPE35 2168213 c.2400G>C synonymous_variant 0.13
PPE35 2169612 p.Ser334Tyr missense_variant 0.18
pncA 2289806 c.-565A>T upstream_gene_variant 0.25
pepQ 2859538 p.Leu294Pro missense_variant 0.17
thyA 3074020 p.Gln151Arg missense_variant 0.25
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
fprA 3473855 c.-152G>T upstream_gene_variant 0.12
fbiA 3641115 p.Glu191Asp missense_variant 0.2
clpC1 4039471 p.Ile412Val missense_variant 0.25
embC 4242858 p.His999Leu missense_variant 0.18
embA 4243844 c.612G>A synonymous_variant 0.22
embB 4247022 p.Ala170Glu missense_variant 0.25