Fig. 1

PacBio Assemblies for each PfSPZ strain reconstruct entire chromosomes in one to three continuous pieces. To determine the likely position of each non-reference contig on the 3D7 reference genome, MUMmer’s show-tiling program was used with relaxed settings (-g 100000 -v 50 -i 50) to align contigs to 3D7 chromosomes (top). 3D7 nuclear chromosomes [1,2,3,4,5,6,7,8,9,10,11,12,13,14] are shown in gray, arranged from smallest to largest, along with organelle genomes (M = mitochondrion, A = apicoplast). Contigs from each PfSPZ assembly (NF54: black, 7G8: green, NF166.C8: orange, NF135.C10: hot pink) are shown aligned to their best 3D7 match. A small number of contigs could not be unambiguously mapped to the 3D7 reference genome (unmapped)