The intersite distances between pattern occurrences in strings generated by general discrete- and continuous-time models: an algorithmic approach

The formation of patterns from letters of a finite alphabet is considered. The strings of letters are generated by general discrete- and continuous-time models which embrace as particular cases all models considered in the literature. The letters of the alphabet are identified by the states of either discrete- or continuous-time semi-Markov processes. A new and unifying method is introduced for evaluation of the generating functions of both the intersite distance between occurrences of an arbitrary, but fixed, pattern and the waiting time until the first occurrence of that pattern. Our method also covers in a unified way relevant and important joint generating functions. Furthermore, our results lead to an easy and efficient implementation of the relevant evaluations.