ABC: software for interactive browsing of genomic multiple sequence alignment data

Background: Alignment and comparison of related genome sequences is a powerful method to identify regions likely to contain functional elements. Such analyses are data intensive, requiring the inclusion of genomic multiple sequence alignments, sequence annotations, and scores describing regional attributes of columns in the alignment. Visualization and browsing of results can be difficult, and there are currently limited software options for performing this task. Results: The Application for Browsing Constraints (ABC) is interactive Java software for intuitive and efficient exploration of multiple sequence alignments and data typically associated with alignments. It is used to move quickly from a summary view of the entire alignment via arbitrary levels of resolution to individual alignment columns. It allows for the simultaneous display of quantitative data, (e.g., sequence similarity or evolutionary rates) and annotation data (e.g. the locations of genes, repeats, and constrained el...

• Type: Journal
• Year: 2004
• Where: BMCBI
• Authors: Gregory M. Cooper, Senthil A. G. Singaravelu, Arend Sidow
• Keywords: BMCBI 2004, Functional Elements, Individual Alignment Columns, Multiple Sequence Alignments