An Interactive System for Sequence Analysis

Abstract

Sequence Analysis Tool (SAT) is an X-window (OPEN LOOK version) based interactive system developed for sequence analysis. In this first version, it provides a friendly graphical user interface and convenient functions for performing various tasks required in sequence alignment. In particular, space-efficient algorithms for pairwise alignment and 3-star alignment are implemented as functionalities, which can be used to serve most sequence alignment tasks and therefore provide a basis for further improvement of this tool. SAT is also targeted at providing a testing platform for performance analysis of various alignment-related algorithms. A set of procedures is developed to provide an application programming interface with which other related programs can be easily connected to SAT. SAT is programmed in C/Xlib/OLIT. The object-oriented style makes further maintenance and improvement easy.