TB-Profiler result

Run: ERR3275353
Summary

Run ID: ERR3275353

Sample name:

Date: 18-08-2022 13:10:29

Number of reads: 2767025

Percentage reads mapped: 99.98

Strain: lineage4.6.1.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 0.98
lineage4.6.1.2 Euro-American T2 RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490609 c.-174G>T upstream_gene_variant 0.12
fgd1 490668 c.-115G>A upstream_gene_variant 0.12
fgd1 490726 c.-57G>A upstream_gene_variant 0.12
rpoC 764352 p.Val328Ala missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416410 p.Leu313Arg missense_variant 1.0
embR 1417251 p.Pro33Thr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 0.93
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.12
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.15
fabG1 1673380 c.-60C>G upstream_gene_variant 0.13
inhA 1674465 c.264C>T synonymous_variant 1.0
inhA 1674812 p.Gly204Ala missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918124 p.Trp62Leu missense_variant 0.13
eis 2714477 p.Arg286Ser missense_variant 0.15
eis 2714493 c.840C>A synonymous_variant 0.15
eis 2715352 c.-20A>C upstream_gene_variant 0.12
folC 2746444 p.Lys385Asn missense_variant 0.11
folC 2746453 c.1146G>T synonymous_variant 0.13
folC 2746874 p.Met242Thr missense_variant 0.12
thyA 3074157 c.315C>A synonymous_variant 0.13
alr 3840502 p.Leu307Val missense_variant 0.11
embA 4243554 p.Arg108Ser missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.45
embB 4246548 p.Pro12Gln missense_variant 0.4
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4246639 c.126G>T synonymous_variant 0.12
ethA 4327998 c.-525G>C upstream_gene_variant 0.2
gid 4407902 p.Leu101Ile missense_variant 0.12
gid 4407986 p.Gly73Trp missense_variant 0.12