other MGEs

As a common class of transposable elements, long terminal repeat (LTR) retroelements play important roles in shaping the structures of their host genomes. The identification and genome-wide comparative analysis of LTR retroelements from multiple genomes are useful for a better understanding of the genome evolution. Our de novo computational method identifies new LTR retrotransposons without relying on a library of known elements. Specifically, our method identifies intact LTR retrotransposons by using an approximate string matching technique and protein domain analysis. We conducted a genome-wide identification of LTR retroelements in four genomes of C.elegans, C. briggsae, D.melanogaster, and D. pseudoobscure.