TB-Profiler result

Run: ERR3132122
Summary

Run ID: ERR3132122

Sample name:

Date: 01-04-2023 00:20:43

Number of reads: 856503

Percentage reads mapped: 99.57

Strain: lineage4.2.1

Drug-resistance: HR-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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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
rpsL 781822 p.Lys88Arg missense_variant 1.0 streptomycin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247729 p.Gly406Cys missense_variant 1.0 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
fgd1 491247 c.465C>T synonymous_variant 1.0
ccsA 619969 p.Val27Ile missense_variant 1.0
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
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715432 c.-100C>T upstream_gene_variant 0.13
eis 2715436 c.-104G>A upstream_gene_variant 0.13
eis 2715440 c.-108A>C upstream_gene_variant 0.13
eis 2715445 c.-113C>T upstream_gene_variant 0.13
eis 2715447 c.-115T>A upstream_gene_variant 0.13
eis 2715450 c.-118T>C upstream_gene_variant 0.15
eis 2715451 c.-119C>A upstream_gene_variant 0.15
eis 2715454 c.-122T>G upstream_gene_variant 0.15
eis 2715455 c.-123G>A upstream_gene_variant 0.15
eis 2715458 c.-126T>A upstream_gene_variant 0.15
eis 2715460 c.-128A>G upstream_gene_variant 0.15
eis 2715465 c.-133G>T upstream_gene_variant 0.15
eis 2715469 c.-137T>C upstream_gene_variant 0.14
eis 2715473 c.-141A>G upstream_gene_variant 0.14
ribD 2986827 c.-12G>A upstream_gene_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 0.98
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249594 c.3081G>A synonymous_variant 1.0
ethA 4328376 c.-903G>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0