PFAAT version 2.0: A tool for editing, annotating, and analyzing multiple sequence alignments

Background: By virtue of their shared ancestry, homologous sequences are similar in their structure and function. Consequently, multiple sequence alignments are routinely used to identify trends that relate to function. This type of analysis is particularly productive when it is combined with structural and phylogenetic analysis. Results: Here we describe the release of PFAAT version 2.0, a tool for editing, analyzing, and annotating multiple sequence alignments. Support for multiple annotations is a key component of this release as it provides a framework for most of the new functionalities. The sequence annotations are accessible from the alignment and tree, where they are typically used to label sequences or hyperlink them to related databases. Sequence annotations can be created manually or extracted automatically from UniProt entries. Once a multiple sequence alignment is populated with sequence annotations, sequences can be easily selected and sorted through a sophisticated sear...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Daniel R. Caffrey, Paul H. Dana, Vidhya Mathur, Marco Ocano, Eun-Jong Hong, Yaoyu E. Wang, Shyamal Somaroo, Brian E. Caffrey, Shobha Potluri, Enoch S. Huang
• Keywords: BMCBI 2007, Multiple Sequence Alignment, Sequence Annotations, Sequences