Figure 5.

Phylogenetic analysis of the reverse transcriptase (RT) domain sequences of Ty3/gypsy-class retrotransposons. The neighbor-joining tree was inferred from Kimura estimates of sequence distance. Numbers in the branches are the bootstrap values from 500 replicates. Plant elements with env or long 3′ domains are boxed by a solid line and the Athila-clade lines are in bold; gypsy-like plant elements lacking env are boxed by a broken line. A complete list of accession numbers and details for the elements is available at the EMBL European Bioinformatics Institute (EBI) public alignments Web site (http://www3.ebi.ac.uk/Services/align/listali.html) under the accession no. DS44537.