Welcome to SubSeqer
SubSeqer is a webtool aimed at uncovering meaningful sequence motifs in low complexity protein sequences. It uses a novel subsequence visualization method to build motifs by identifying relationships between small subsequences within the larger sequence. SubSeqer differs from traditional sequence motif finding tools through the application of a unique graph based approach similar to that employed to visualise protein-protein interaction networks. In graphs generated by SubSeqer, nodes represent subsequences while edges represent connections between adjacent subsequences. This approach enables the identification of key "hub" (i.e. highly connected) subsequences that likely mediate important structural and/or functional roles within a variety of different sequence contexts. Further details of its operation and examples of its application are provided in the Overview and Applications sections respectively.
SubSeqer is simple to use, and can be completed in four steps illustrated in the graphic below: sequence submission; preliminary analysis and parameter refinement; network visualizaion; and motif extension using sequence logos. For more information on how to use SubSeqer, please see the Documentation page.