MOTIF FINDING TOOL USING PERL CGI

Bioinformatics is an assimilation between biology and information technology. Computers have always played an important role in biology since their invention and development over the last few epochs. They are now extensively used to store, process and modulate biological data. Several programs have been written to develop tools and applications for gene-finding, to identify restriction sites, perform restriction digests, create restriction maps, identify exons and introns, and also create models and pathways of cellular processes. Motif finding is one of the common undertakings in bioinformatics and several motif finding programs have been formulated. A gene is a functional unit of the human genome and is found in DNA. DNA is transcribed to give mRNA which is translated to produce proteins. Proteins are made up of amino acids coded for by the mRNA. Hence, the production of proteins depends in the specific set of DNA sequences that are a part of a gene. DNA has several pattern specific and profile specific features, one of which includes motifs. A motif is a short DNA or protein sequence that contributes to the biological function of the sequence in which it resides. Thus the most fundamental studied problem is the discovery of motifs in sequences computationally. Thus, the motif finding tool was developed using Perl CGI and word based algorithms which exhaustively searches through the input sequences and protein sequences. The developed tool does not require any trained data set like the other motif finding tools. This motif finding tool has been designed to find sequence specific motifs and also generate size specific motifs with positions in nucleotide and protein sequences.