TB-Profiler result

Run: ERR279637
Summary

Run ID: ERR279637

Sample name:

Date: 31-03-2023 23:43:55

Number of reads: 144631

Percentage reads mapped: 99.16

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 4326213 p.Arg421* stop_gained 0.4 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 9304 p.Gly668Asp missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620756 p.Asp289Gly missense_variant 0.67
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781757 p.Tyr66* stop_gained 0.67
rplC 801180 c.372C>A synonymous_variant 0.5
fbiC 1303016 p.Val29Gly missense_variant 0.67
Rv1258c 1406524 p.Val273Leu missense_variant 0.29
embR 1416662 p.Arg229His missense_variant 0.67
rrl 1473953 n.296T>G non_coding_transcript_exon_variant 0.5
rpsA 1833674 p.Lys45Glu missense_variant 1.0
rpsA 1834416 p.Ala292Glu missense_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168522 c.2091T>A synonymous_variant 0.33
PPE35 2169992 c.621C>A synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746586 p.Arg338Gln missense_variant 0.5
Rv2752c 3064584 c.1608G>T synonymous_variant 0.67
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642118 p.Ala195Asp missense_variant 0.67
clpC1 4038753 p.Gln651Arg missense_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.75
embA 4244964 p.Ala578Ser missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0