Fig. 3

Comparison of genotyping by length-polymorphic marker msp2 and amplicon sequencing of cpmp and csp. Raw data from length-polymorphism- and SNP-based genotyping for one P. falciparum-positive field sample. Left panel: Capillary electropherograms (CE) for msp2 nested PCR products (duplicate experiments); X-axis: fragment length, Y-axis: peak heights (arbitrary intensity units); size standards: red/orange peaks; 3D7-type msp2 genotypes: green peaks; FC27-type msp2 genotypes: blue peaks. Middle and right panel: Dendrograms derived from sequence reads of marker cpmp (middle) and csp (right); coloured lines represent membership to a specific, colour-coded haplotype; Grey lines: sequence reads of PCR artefacts (later excluded by cut-off settings); line length: number of mismatches according to bar insert. Bottom panels: Read counts (n) and percentage of reads (%) per haplotype and final multiplicity call