TB-Profiler result

Run: SRR8651561
Summary

Run ID: SRR8651561

Sample name:

Date: 21-10-2023 12:59:33

Number of reads: 10667723

Percentage reads mapped: 99.31

Strain: lineage4.5

Drug-resistance: MDR-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.Ser450Leu (0.99)
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
lineage4.5 Euro-American H;T RD122 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.Ser450Leu missense_variant 0.99 rifampicin
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 0.96
ccsA 620566 p.Asp226Asn missense_variant 0.99
rpoC 765608 p.Asp747His missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 0.99
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417360 c.-13C>T upstream_gene_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673652 c.-550C>G upstream_gene_variant 0.97
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156119 c.-8G>C upstream_gene_variant 0.62
PPE35 2170568 p.Ile15Met missense_variant 0.94
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339140 p.Gly8Asp missense_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612304 c.813C>G synonymous_variant 0.96
clpC1 4038318 p.Pro796Leu missense_variant 0.95
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248548 p.Ala679Thr missense_variant 0.95
whiB6 4338458 c.63_64insT frameshift_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0