Relaxation time of $L$-reversal chains and other chromosome shuffles

N. Cancrini, P. Caputo, F. Martinelli

Published 2004-12-22, updated 2006-10-11Version 2

We prove tight bounds on the relaxation time of the so-called $L$-reversal chain, which was introduced by R. Durrett as a stochastic model for the evolution of chromosome chains. The process is described as follows. We have $n$ distinct letters on the vertices of the ${n}$-cycle (${{\mathbb{Z}}}$ mod $n$); at each step, a connected subset of the graph is chosen uniformly at random among all those of length at most $L$, and the current permutation is shuffled by reversing the order of the letters over that subset. We show that the relaxation time $\tau (n,L)$, defined as the inverse of the spectral gap of the associated Markov generator, satisfies $\tau (n,L)=O(n\vee \frac{n^3}{L^3})$. Our results can be interpreted as strong evidence for a conjecture of R. Durrett predicting a similar behavior for the mixing time of the chain.