TB-Profiler result

Run: SRR2100253

Summary

Run ID: SRR2100253

Sample name:

Date: 19-10-2023 15:43:59

Number of reads: 4065690

Percentage reads mapped: 99.6

Strain: lineage4.6.2.2

Drug-resistance: Sensitive


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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
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
lineage4.6 Euro-American T;LAM None 0.99
lineage4.6.2 Euro-American T;LAM RD726 0.99
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.99
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
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 7403 c.102C>T synonymous_variant 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_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
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640439 c.-104C>A upstream_gene_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244664 p.Thr478Ala missense_variant 0.99
embB 4246554 p.Arg14Gln missense_variant 0.99
embB 4249655 p.Val1048Ile missense_variant 0.99
aftB 4267272 p.Lys522Arg missense_variant 0.98
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4327479 c.-6G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0