%0 Journal Article %A Layal Al Ait and Eduardo Corel and Kifah Tout and Burkhard Morgenstern %D 2011 %J International Journal of Computer and Information Engineering %B World Academy of Science, Engineering and Technology %I Open Science Index 49, 2011 %T Multiple Sequence Alignment Using Three- Dimensional Fragments %U https://publications.waset.org/pdf/4906 %V 49 %X Background: Dialign is a DNA/Protein alignment tool for performing pairwise and multiple pairwise alignments through the comparison of gap-free segments (fragments) between sequence pairs. An alignment of two sequences is a chain of fragments, i.e local gap-free pairwise alignments, with the highest total score. METHOD: A new approach is defined in this article which relies on the concept of using three-dimensional fragments – i.e. local threeway alignments -- in the alignment process instead of twodimensional ones. These three-dimensional fragments are gap-free alignments constituting of equal-length segments belonging to three distinct sequences. RESULTS: The obtained results showed good improvments over the performance of DIALIGN. %P 47 - 50