TB-Profiler result

Run: ERR4383962
Summary

Run ID: ERR4383962

Sample name:

Date: 01-04-2023 05:44:01

Number of reads: 1436444

Percentage reads mapped: 99.54

Strain: lineage4.3.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.93
lineage4.3.1 Euro-American (LAM) LAM9 None 0.95
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 0.97 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 0.94 isoniazid, ethionamide
katG 2155168 p.Ser315Thr missense_variant 0.84 isoniazid
embB 4247431 p.Met306Ile missense_variant 0.94 ethambutol
ethA 4327367 c.106delG frameshift_variant 0.95 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 9304 p.Gly668Asp missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 0.1
mshA 576108 p.Ala254Gly missense_variant 0.41
mshA 576482 p.Val379Leu missense_variant 0.23
rpoC 764944 p.His525Gln missense_variant 0.38
rpoC 764995 c.1626C>G synonymous_variant 0.93
rpoC 765926 p.Thr853Ala missense_variant 0.73
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475317 n.1660G>A non_coding_transcript_exon_variant 0.85
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102705 c.330_337delCCCCTACG frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 0.9
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 0.94
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.13
embB 4246584 p.Arg24Pro missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408061 p.His48Tyr missense_variant 0.97
gid 4408156 p.Leu16Arg missense_variant 0.98