a profile hidden markov model (phmm) is widely used in assigning protein sequences to protein families. in this model, the hidden states only depend on the previous hidden state and observations are independent given hidden states. in other words, in the phmm, only the information of the left side of a hidden state is considered. however, it makes sense that considering the information of the b...

Regular sequences generalize the extensively studied automatic sequences. Let S be an abstract numeration system. When language L is prefix-closed and regular, a sequence said to S-regular if module generated by its S-kernel finitely generated. In this paper, we give new characterization of such in terms underlying tree T(L) whose nodes are words L. We may decorate these interest following brea...

If a matrix .4 transforms a sequence {z„} into the sequence {z, A is said to be regular. The well known necessary and sufficient conditions for A to be regular are1 (a) X^-i |g»,*| Wo, (b) limn^oo an,k = 0 for every fixed fe, (c) XXi a»j»«A»—»1 as w-»°o. It is known2 that if a regular matrix s...

Protein sequence motifs describe, through means of enhanced regular expression syntax, regions of amino acids that have been conserved across several functionally related proteins. These regions may have an implication at the structural and functional level of the proteins. Sequence motif analysis can bring significant improvements towards a better understanding of the protein sequence-structur...

We show that the characteristic sequence of a regular language over the alphabet {a, b} is 2-automatic. keywords: finite automaton; regular language; automatic sequence MSC: 68Q45; 68Q70

‎in this paper some properties of weak regular injectivity for $s$-posets‎, ‎where $s$ is a pomonoid‎, ‎are studied‎. ‎the behaviour‎ ‎of different kinds of weak regular injectivity with products‎, ‎coproducts and direct sums is considered‎. ‎also‎, ‎some‎ ‎characterizations of pomonoids over which all $s$-posets are of‎ ‎some kind of weakly regular injective are obtained‎. ‎further‎, ‎we‎ ‎giv...