TB-Profiler result

Run: ERR4817120
Summary

Run ID: ERR4817120

Sample name:

Date: 01-04-2023 14:48:46

Number of reads: 123259

Percentage reads mapped: 89.64

Strain: lineage4

Drug-resistance: Other

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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
ethA 4326016 c.1457delC frameshift_variant 0.67 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 8622 p.Arg441Trp missense_variant 0.67
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576089 c.750_769delTGATCGGCGCGCGGCCCGGG frameshift_variant 0.67
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766447 c.3078T>C synonymous_variant 1.0
rpoC 766462 c.3093G>C synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2221957 p.Glu403Val missense_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ribD 2986665 c.-174G>A upstream_gene_variant 0.67
Rv2752c 3064535 p.Pro553Ser missense_variant 1.0
Rv2752c 3064926 c.1266G>A synonymous_variant 0.4
thyX 3067278 p.Ala223Val missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086906 c.89delG frameshift_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641097 p.Phe185Leu missense_variant 0.5
fbiA 3641506 p.Ala322Thr missense_variant 0.33
rpoA 3877770 c.738A>G synonymous_variant 0.5
rpoA 3878345 c.162delT frameshift_variant 0.25
clpC1 4040857 c.-153C>A upstream_gene_variant 0.67
embC 4241092 c.1231delT frameshift_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243392 p.Asn54Tyr missense_variant 1.0
embA 4243987 p.Leu252Pro missense_variant 0.29
whiB6 4338596 c.-76delA upstream_gene_variant 1.0