TB-Profiler result

Run: SRR13583481
Summary

Run ID: SRR13583481

Sample name:

Date: 03-04-2023 09:01:58

Number of reads: 758104

Percentage reads mapped: 85.67

Strain: lineage4.1.2

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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 0.99
lineage4.1.2 Euro-American T;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
rpoC 764948 p.Leu527Val missense_variant 1.0 rifampicin
inhA 1674048 c.-154G>A upstream_gene_variant 0.95 isoniazid, 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 7765 p.Asn155Ser missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762847 p.Pro1014Arg missense_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
fbiC 1304026 p.Asn366His missense_variant 0.11
embR 1417140 p.Ala70Ser missense_variant 1.0
embR 1417270 c.78C>T synonymous_variant 0.11
embR 1417513 c.-166A>C upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673249 c.-191C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169017 p.Leu532Phe missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290217 c.-976T>C upstream_gene_variant 0.14
eis 2714267 p.Leu356Met missense_variant 0.11
folC 2747022 p.Val193Ile missense_variant 1.0
pepQ 2860592 c.-174T>A upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448894 p.Tyr131Asp missense_variant 1.0
Rv3083 3449642 p.Asn380Ser missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641164 p.Ile208Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267472 c.1365C>G synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0