Development of a new barcode-based, multiplex-PCR, next-generation-sequencing assay and data processing and analytical pipeline for multiplicity of infection detection of Plasmodium falciparum

Table 1 Barcode reconstruction quality with StrainRecon, varying the number of strains to be found

Proportion of SNP sites correctly reconstructed	Strain 1 (%)	Strain 2 (%)	Strain 3 (%)	Strain 4^a (%)
Anticipated MOI n = 1	98.97
Anticipated MOI n = 2	98.97	84.79
Anticipated MOI n = 3	98.70	89.25	64.64
Anticipated MOI n = 4	98.78	82.69	48.80	19.79
Anticipated MOI n = 5	98.50	77.52	47.06	19.28

Columns are arranged by proportion of strain in the mixture, so the most dominant strain is called Strain 1. Non-barcode SNP sites are omitted
^aStrain 4 exists only in those samples where SNP23 had a mutation

ISSN: 1475-2875