Abstract: In this work we present the development of a bioinformatics tool aiming at the individuation of discriminating sequence patterns between two populations of sequences. Some examples in which it could be used are easy to find in genomics and proteomics: introns/exons in gene sequences, coding/non-coding in transcript sequences, proteins that are transported in some subcellular localization and those that are not. Once the patterns are detected they could be searched over non-annotated sequences from some program especially developed to find degenerated patterns. We expect that such a method, used jointly with other more traditional methods could lead to a better predictive power in annotation processes.