TB-Profiler result

Run: ERR4820535
Summary

Run ID: ERR4820535

Sample name:

Date: 01-04-2023 16:44:10

Number of reads: 92978

Percentage reads mapped: 98.7

Strain: lineage4.9;lineage4.1.2.1

Drug-resistance: Sensitive

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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 0.98
lineage4.1.2 Euro-American T;H None 0.06
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.07
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
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
gyrB 6077 p.Gly280Ser missense_variant 0.67
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9076 p.Arg592His missense_variant 0.33
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 763007 p.Cys1067* stop_gained 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302842 c.-89T>C upstream_gene_variant 0.5
fbiC 1303331 p.Arg134Gln missense_variant 0.4
Rv1258c 1406638 p.Val235Ile missense_variant 0.67
embR 1417505 c.-158G>A upstream_gene_variant 0.67
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
Rv1979c 2221808 p.Val453Met missense_variant 0.5
Rv1979c 2223270 c.-106C>A upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339424 p.Val103Ile missense_variant 0.4
fbiB 3642628 p.Arg365His missense_variant 0.5
ddn 3986879 c.36G>A synonymous_variant 0.4
embC 4240684 c.822C>T synonymous_variant 0.5
embC 4241508 p.Ala549Val missense_variant 1.0
embC 4241539 c.1677T>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0