Differential frameshifts correction by Pilon and iCORN2. ACT visualization of a section of the Pf3D7 reference genome sequence, the corresponding section of an uncorrected P. falciparum 3D7 PacBio genome assembly, and the Pilon-corrected and iCORN2-corrected sequences. Syntenic regions (BLAST) are indicated in gray bars between the reference and the uncorrected assembly. Annotated genes in the reference are colored. Black vertical lines mark the absence of open reading frames (ORFs). Red squares mark the frameshifts within ORFs in the uncorrected genome sequences. These are differentially processed by Pilon and iCORN2, with multiple iterations of iCORN2 correcting more frameshifts than a single Pilon run. Green squares mark the correct and successively corrected ORFs, which based on the reference could be annotated as correct gene models instead of an excessive and incorrect annotation of pseudogenes.