TB-Profiler result

Run: ERR845942
Summary

Run ID: ERR845942

Sample name:

Date: 02-04-2023 07:28:39

Number of reads: 161223

Percentage reads mapped: 94.52

Strain: lineage4

Drug-resistance: RR-TB

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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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
pncA 2289207 p.Asp12Ala missense_variant 1.0 pyrazinamide
ethA 4327363 c.110dupA frameshift_variant 1.0 ethionamide
gid 4408022 c.180delA frameshift_variant 1.0 streptomycin
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 6845 p.Asp536Tyr missense_variant 0.67
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
rpoC 765590 p.Arg741Ser missense_variant 1.0
rpoC 766485 p.Val1039Ala missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472034 n.189T>C non_coding_transcript_exon_variant 0.5
rpsA 1833735 p.Ala65Asp missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223123 c.42G>A synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064771 p.Ala474Val missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240905 p.Thr348Ile missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243284 p.Val18Ile missense_variant 0.29
embA 4246025 p.Trp931Cys missense_variant 0.2
gid 4408156 p.Leu16Arg missense_variant 1.0