Additional file 4: of Deep landscape update of dispersed and tandem repeats in the genome model of the red jungle fowl, Gallus gallus, using a series of de novo investigating tools

Diagram showing programs in both REPET TEdenovo and TEannot components. The programs below were run either successively or in parallel from top to bottom as indicated by the red triangles. The three programs in TEannot with blue or pink backgrounds were removed from our analyses and the outputs of the program in yellow were verified by hand. Note: RepeatMasker is part of the TEannot component. (ODT 73 kb)