TB-Profiler result

Run: ERR4814989
Summary

Run ID: ERR4814989

Sample name:

Date: 01-04-2023 13:36:23

Number of reads: 694584

Percentage reads mapped: 98.69

Strain: 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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
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 8763 p.Asp488Tyr missense_variant 0.5
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
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
embR 1417140 p.Ala70Ser missense_variant 0.12
atpE 1461275 c.231T>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473706 n.49A>C non_coding_transcript_exon_variant 0.18
inhA 1673565 c.-637G>T upstream_gene_variant 0.25
tlyA 1917902 c.-38G>T upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102132 p.Gln304Arg missense_variant 0.22
PPE35 2167792 p.Ser941Ala missense_variant 1.0
PPE35 2170119 p.Leu165Arg missense_variant 0.33
PPE35 2170148 p.His155Gln missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2725992 c.-201G>C upstream_gene_variant 1.0
folC 2747581 c.18C>T synonymous_variant 0.2
folC 2747668 c.-70A>C upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448907 p.Tyr135Ser missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640366 c.-177G>A upstream_gene_variant 1.0
embC 4239776 c.-87G>T upstream_gene_variant 0.2
embC 4240569 p.Leu236Arg missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245146 p.Gln638His missense_variant 0.18
embA 4245934 p.Pro901Leu missense_variant 0.2
aftB 4268709 p.Ala43Val missense_variant 0.15
ethA 4326420 p.Ala352Thr missense_variant 0.16
ethA 4327269 p.Trp69Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0