Fig. 2
From: Identification of RAG-like transposons in protostomes suggests their ancient bilaterian origin
TIRs, TSDs, and phylogenetic tree (a) TIRs and TSDs of protostome and deuterostome RAGL transposons. Sequences of 5’-TIR and 3’-TIR (reverse complement) pairs are aligned with Transib TIRs and the consensus RSS heptamer. Protostome consensus TIR, shown at top, was generated using only nonredundant TIR sequences (asterisk). Most intact TIR sequence pairs detected in protostomes are flanked by 5 bp TSDs, displayed at right, with TIRs indicated black triangles and identities indicated with dark gray shading. b Phylogenetic trees of RAG1 and RAG1L. Phylogenetic trees were built using the Maximum Likelihood as described in Methods using MEGA X [27] and WAG with Freqs. (+) correction model [28]. The bootstrap numbers next to branches are the percentage of branches in which the associated proteins clustered together. Branches with a bootstrap value below 50% were collapsed together. Branch lengths represent the number of substitutions per site, with positions with gaps or missing data being ignored. The protein sequences used for these analyses were chosen as representative of the monophyletic group to which they belong. Bold indicates proteins from protostomes