TB-Profiler result

Run: ERR4827527

Summary

Run ID: ERR4827527

Sample name:

Date: 01-04-2023 18:07:23

Number of reads: 4603171

Percentage reads mapped: 99.47

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 0.97
lineage4.2.1 Euro-American (TUR) H3;H4 None 0.96
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.Ser450Trp missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
fabG1 1673425 c.-15C>T upstream_gene_variant 0.98 isoniazid, ethionamide
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 0.96 ethambutol
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
gyrA 9808 p.Thr836Arg missense_variant 0.94
mshA 576108 p.Ala254Gly missense_variant 0.21
rpoC 764724 p.Phe452Cys missense_variant 0.96
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918591 p.Leu218Met missense_variant 0.94
tlyA 1918623 p.Ser228Arg missense_variant 0.95
PPE35 2169879 p.Phe245Cys missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747470 p.Ile43Ala missense_variant 0.91
ald 3086742 c.-78A>C upstream_gene_variant 0.96
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.27
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
rpoA 3878641 c.-134C>G upstream_gene_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.44
embB 4249594 c.3081G>A synonymous_variant 0.99
ethA 4328376 c.-903G>C upstream_gene_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0