TB-Profiler result

Run: ERR3275429
Summary

Run ID: ERR3275429

Sample name:

Date: 18-08-2022 13:10:17

Number of reads: 2797962

Percentage reads mapped: 99.96

Strain: lineage4.2.2.2

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR None 1.0
lineage4.2.2.2 Euro-American (Ural) T;LAM7-TUR 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
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
gyrB 6281 p.Asp348Tyr missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8688 p.Ala463Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490873 p.Gly31Cys missense_variant 0.14
mshA 576077 c.730C>T synonymous_variant 1.0
rpoB 761450 p.Phe548Leu missense_variant 0.2
rpoB 763248 p.Asp1148Tyr missense_variant 0.14
rpoC 763274 c.-96G>T upstream_gene_variant 0.15
mmpR5 779186 p.Gly66Val missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.12
rrl 1474372 n.715C>A non_coding_transcript_exon_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.11
inhA 1674655 p.Ser152Cys missense_variant 0.13
rpsA 1834017 p.Arg159His missense_variant 0.14
rpsA 1834324 p.Glu261Asp missense_variant 0.17
tlyA 1917926 c.-14G>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
kasA 2518613 p.Pro167Thr missense_variant 0.2
thyX 3067947 c.-2C>A upstream_gene_variant 0.12
thyA 3074356 p.Ser39* stop_gained 0.12
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087851 c.1032G>T synonymous_variant 0.13
fbiA 3640772 p.Arg77Pro missense_variant 0.12
fbiA 3640774 p.Gly78Arg missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245260 c.2028C>A synonymous_variant 0.15
gid 4407999 c.204C>T synonymous_variant 0.2