TB-Profiler result

Run: SRR23861857
Summary

Run ID: SRR23861857

Sample name:

Date: 12-04-2023 07:18:58

Number of reads: 2204656

Percentage reads mapped: 99.48

Strain: lineage4.2.1

Drug-resistance: RR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin R rpoB p.Ser450Ala (0.23)
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
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
lineage4.2 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
rpoB 761154 p.Ser450Ala missense_variant 0.23 rifampicin
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
gyrB 5726 p.Pro163Ser missense_variant 1.0
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 576100 p.Asp251Glu missense_variant 0.15
mshA 576119 p.Ala258Pro missense_variant 0.13
rpoC 765740 p.Glu791Gln 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
thyA 3074507 c.-36G>C upstream_gene_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568418 p.Lys88Gln missense_variant 0.15
whiB7 3568428 c.252A>C synonymous_variant 0.21
rpoA 3878580 c.-74_-73insCAACCCA upstream_gene_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246990 c.477C>A synonymous_variant 0.16
embB 4246996 p.Phe161Leu missense_variant 0.14
embB 4247013 p.Pro167Arg missense_variant 0.17
embB 4247028 p.Leu172Arg missense_variant 0.13
ethA 4326108 p.Arg456Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0