User:Ilya/BioBrick aligner

Description
BioBrick aligner - aligns sequence reads (fragments) to Biobrick sequence

Requirements

 * based on Sim4 - a similarity-based tool for aligning an expressed DNA sequence (EST, cDNA, mRNA) with a genomic sequence for the gene Miller-1998
 * Bio::Tools::Run::Alignment::Sim4 - wrapper for Sim4 program that allows for alignment of cdna to genomic sequences
 * Bio::SearchIO::sim4 - parser for Sim4 alignments
 * Bio::Tools::Sim4::Exon - a single exon determined by an alignment
 * Bio::Tools::Sim4::Results - results of one Sim4 run
 * Sim4.pm - CVS log (latest version)
 * also requires a version of Bio::Graphics::Panel module (CPAN documentation) that has image_and_map function