Whole mirror duplication-random loss model and pattern avoiding permutations

a r t i c l e i n f o a b s t r a c t Keywords: Algorithms Combinatorial problems Pattern avoiding permutation Whole duplication-random loss model Genome Generating algorithm Binary reflected Gray code In this paper we study the problem of the whole mirror duplication-random loss model in terms of pattern avoiding permutations. We prove that the class of permutations obtained with this model after a given number p of duplications of the identity is the class of permutations avoiding the alternating permutations of length 2 p + 1. We also compute the number of duplications necessary and sufficient to obtain any permutation of length n. We provide two efficient algorithms to reconstitute a possible scenario of whole mirror duplications from identity to any permutation of length n. One of them uses the well-known binary reflected Gray code (Gray, 1953) [10]. Other relative models are also considered.