TB-Profiler result

Run: ERR279610
Summary

Run ID: ERR279610

Sample name:

Date: 31-03-2023 23:42:58

Number of reads: 4067485

Percentage reads mapped: 99.76

Strain: lineage4.9

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
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
ethA 4326714 p.Gln254* stop_gained 0.25 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
mshA 575761 c.414C>T synonymous_variant 1.0
rpoB 759814 p.Asp3Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 778900 c.-420T>C upstream_gene_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781502 c.-58G>T upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674952 p.Pro251Ala missense_variant 0.26
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.36
PPE35 2168551 p.Asn688Asp missense_variant 0.15
PPE35 2169317 c.1296C>T synonymous_variant 0.26
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.32
Rv2752c 3064898 p.Val432Ile missense_variant 0.15
thyA 3074046 c.426G>A synonymous_variant 0.15
ald 3086750 c.-70A>C upstream_gene_variant 0.95
rpoA 3878569 c.-62C>G upstream_gene_variant 0.5
rpoA 3878574 c.-67G>C upstream_gene_variant 0.38
rpoA 3878641 c.-134C>G upstream_gene_variant 0.23
clpC1 4038572 c.2133C>T synonymous_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.3
ethA 4326105 c.1369C>T synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0