TB-Profiler result

Run: SRR26112005
Summary

Run ID: SRR26112005

Sample name:

Date: 23-01-2024 23:06:37

Number of reads: 4405952

Percentage reads mapped: 99.61

Strain: lineage4.8

Drug-resistance: Other

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin R gid c.489delA (1.00)
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
lineage4.8 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
gid 4407713 c.489delA frameshift_variant 1.0 streptomycin
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 5310 p.Glu24Val missense_variant 1.0
gyrA 7362 p.Glu21Gln 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 2168963 c.1650A>G synonymous_variant 1.0
PPE35 2168975 c.1638C>T synonymous_variant 1.0
PPE35 2168981 c.1632A>G synonymous_variant 1.0
PPE35 2168985 p.Thr543Met missense_variant 1.0
PPE35 2168987 p.Thr542Ala missense_variant 1.0
PPE35 2168990 c.1623T>G synonymous_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
whiB7 3568425 c.255T>G synonymous_variant 0.21
alr 3840764 c.657G>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0