Phylogenetic analysis of pepper and tomato Ty3/Gypsy -like elements. Pepper and tomato RTs of the Ty3/Gypsy-like elements were used to generate the phylogenetic tree. The pepper and tomato Ty3/Gypsy-like elements are depicted by red and blue lines, respectively. Classified subgroups Tat, Athila and Del, are depicted by green letters. The RTs used as FISH probes are marked with triangles (purple, yellow, and green). The FISH result for each of the probes is indicated by the dotted lines (see text for details). The black arrows indicate the RTs found from the compared pepper gene-rich sequences. The empty black triangles indicate the RTs of the representative elements of each subgroup which are acquired from the GyDB. The bootstrap values were produced by a replication of 1000.