Active motif finder - a bio-tool based on mutational structures in DNA sequences

Active Motif Finder (AMF) is a novel algorithmic tool, designed based on mutations in DNA sequences. Tools available at present for finding motifs are based on matching a given motif in the query sequence. AMF describes a new algorithm that identifies the occurrences of patterns which possess all kinds of mutations like insertion, de-letion and mismatch. The algorithm is mainly based on the Alignment Score Matrix (ASM) computation by com-paring input motif with full length sequence. Much of the effort in bioinformatics is directed to identify these mo-tifs in the sequences of newly discovered genes. The proposed bio-tool serves as an open resource for analysis and useful for studying polymorphisms in DNA sequences. AMF can be searched via a user-friendly interface. This tool is intended to serve the scientific community working in the areas of chemical and structural biology, and is freely available to all users, at http://www.sastra.edu/scbt/amf/.