Fig. 2.

Proof of concept for ORF detection using Potato Latent virus as an example. (A) Schematic of genomic structure for the Potato Latent virus. This virus contains a known overlapping gene I870_gp1 in Frame 2+. (B) The expected distribution of ORF lengths in frame 1+ (shaded area) calculated by the permutation test, and the actual open reading frame (ORF) lengths in frame 1+ (black dots). (C) The expected distribution of ORF lengths in frame 2+ (shaded area) calculated by permutation test, and the actual ORF lengths on frame 1+ (black dots). The known frameshifted gene, I870_gp1, was clearly identified using the permutation test as its length was much larger than that expected by chance alone (P < 0.0001).