Three of the detected NAHR events in the P. falciparum crosses. (A) NAHR event involving two var genes in 3D7×HB3 progeny X5 (PF3D7_0100100 on Chr 1, PF3D7_0223500 on Chr 2). (Top) LdBG contigs spanning mutation (dBG contig shown as thin black line for comparison). Called mutations shown along contig as red points. (Bottom) Mutations from LdBG contigs in genomic context shown in red. Gene models shown in dark blue (thick lines: exonic sequence; thin lines: intronic sequence). Inferred recombination path shown in gray. (B) NAHR event in 803×GB4 sample 38G5 (PFGB4_080041200 on Chr 8; PFGB4_11005100 and PFGB4_11005000 on Chr 11). (C) NAHR event in 3D7×HB3 sample XP24 (PF3D7_0700100 on Chr 7 and PF3D7_1100100 on Chr 11).
