TB-Profiler result

Run: SRR26111990
Summary

Run ID: SRR26111990

Sample name:

Date: 23-01-2024 22:15:34

Number of reads: 3209289

Percentage reads mapped: 99.53

Strain: lineage4.8

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
Rifampicin
Isoniazid R fabG1 c.-15C>T (1.00)
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide R fabG1 c.-15C>T (1.00)
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 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
mshA 576453 p.Val369Gly missense_variant 0.19
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778842 p.Gly22Ser 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 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168599 p.Val672Ile missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065366 c.826C>T synonymous_variant 0.88
whiB7 3568425 c.255T>G synonymous_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244741 c.1509C>T synonymous_variant 1.0
embB 4249392 p.Trp960Ser missense_variant 1.0
aftB 4267149 p.Glu563Gly missense_variant 1.0
aftB 4267155 p.Gln561Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0