Comparisons between the current Nanopore assembly of T. gondii strain RH88 and existing long-read (using PacBio RS and Illumina technology) and short-read (Illumina only) assemblies. (A) Assembly statistics for each. (B) Circos plot of NUCmer pairwise alignments across all three assemblies for T. gondii Chromosome IV. All alignments >10,000 bp and >90% identity are shown. (C) Pairwise alignments for Chromosomes IV (top) and VI (bottom) along with locations of select tandem repeats identified either de novo (orange or blue bars on the chromosome scaffolds) or known from prior studies (above or below chromosome scaffolds). For T. gondii Chromosome IV, comparisons to both the PacBio and Illumina assemblies are shown, whereas only the long-read comparison is shown for T. gondii Chromosome VI.