Evolutionary analysis of Eh_SINE3/Ed_SINE1 in E. histolytica and E. dispar. A) and B) All-vs-all dot-plot analyses of the first (A) or last (B) 240 bp of Eh_SINE1, Eh_SINE2, Eh_SINE3 and Ed_SINE1. Each dot represents at least 60 identical nucleotides between sequences using a sliding window 100 bp wide. Numbers above or at the left of each dot-plot represent nucleotide positions for each sequence. Comparisons between Eh_SINE1 and either Eh_SINE3 or Ed_SINE1 are highlighted in red, while plots between Eh_SINE2 and either Eh_SINE3 and Ed_SINE1 are highlighted in green. C) and D) Phylogenetic trees showing the relationships between the first 240 bp (B) or last 240 bp (C) of Eh_SINE3/Ed_SINE1 and Eh_SINE1, Eh_SINE2, Eh_LINE1 and Eh_LINE2. Branches supported by bootstrap values between 500 and 750 or above 750 are depicted in grey or black, respectively.