Maximum Parsimony tree (MP) of indels in Rag1 sequences. Maximum Parsimony strict consensus tree (MP) of the indels, using a 572 sequences dataset of 1076 amino acids. Different colors correspond to different vertebrate lineages, as indicated in the text of this figure and in Figure 3. The scale bar next to each tree refers to the branch length and indicates the numbers of amino acid substitutions per site. a) MP based on the entire analyzed fragment. b) MP based on the 5'-end of the gene. c) MP based on the 3'-end of the gene.