Structural features of LiSIDER2 elements. (A) The sequence homology between LiSIDER2s elements from different subfamilies is restricted to segments of varying sizes. Pairwise alignments among the indicated LiSIDER2s sequences were obtained using the BLAST two sequences tool available at the NCBI Web Page . The retrieved matches are depicted by coloured boxes. (B) The 556-nucleotide long consensus sequence was derived from the ClustalW alignment of the 54 LiSIDER2 sequences identified in chromosome 32. A nucleotide was given a consensus status when was present in at least 50% of the sequences. Positions conserved in more than 60% of the sequences are shaded in red, and those conserved in more than 80% of the sequences are shaded in green. The underlined sequence corresponds to the "79-bp signature" sequence of trypanosomatid retroposons. (C) Comparison of the "79-bp signatures" present in the T. brucei RIME element, T. cruzi NARTc element, LmjSIDER2 elements (LmSIDER2a and LmSIDER2b), and LiSIDER2-32 consensus sequence. Conserved residues are boxed and shaded in grey; gaps (-) were introduced to maximize the alignments.