Markov and semi-Markov processes with block tridiagonal transition matrices for their embedded discrete-time Markov chains are underlying stochastic models in many applied probability problems. In particular, identity-by-descent (IBD) problems for uncle-type and cousin-type relationships fall into this class. More specifically, the exact distributions of relevant IBD statistics for two individuals in either an uncle-type or cousin-type relationship are of interest. Such statistics are the amount of genome shared IBD by the two related individuals on a chromosomal segment and the number of IBD pieces on such a segment. These lead to special reward distributions associated with block tridiagonal transition matrices for continuous-time Markov chains. A method is provided for calculating explicit, closed-form expressions for Laplace transforms of general reward functions for such Markov chains. Some calculation results on the cumulative probabilities of relevant IBD statistics via a numerical inversion of the Laplace transforms are also provided for uncle/nephew and first-cousin relationships.

A method is provided for numerical evaluation, with any given accuracy, of the probability that at least p% of the genetic material from an individual's chromosomal segment survives to the next generation. Relevant MAPLE® V codes, for automated implementation of such evaluation, are also provided. The genomic continuum model, with Haldane's model for the crossover process, is assumed.