AI Article Synopsis
- Analyzing protein sequences using BLAST and FASTA can be tedious due to the large amount of data and difficult-to-read formats, making manual interpretation impractical.
- To address this, two user-friendly programs, Visual BLAST and Visual FASTA, were developed for Windows systems to facilitate interactive analysis of protein sequence alignments.
- These programs feature an intuitive graphical interface with tools for viewing, searching, editing, and automating the analysis process, significantly enhancing the ease of browsing and interpreting BLAST/FASTA results.
Article Abstract
Motivation: When routinely analysing protein sequences, detailed analysis of database search results made with BLAST and FASTA becomes exceedingly time consuming and tedious work, as the resultant file may contain a list of hundreds of potential homologies. The interpretation of these results is usually carried out with a text editor which is not a convenient tool for this analysis. In addition, the format of data within BLAST and FASTA output files makes them difficult to read.
Results: To facilitate and accelerate this analysis, we present for the first time, two easy-to-use programs designed for interactive analysis of full BLAST and FASTA output files containing protein sequence alignments. The programs, Visual BLAST and Visual FASTA, run under Microsoft Windows 95 or NT systems. They are based on the same intuitive graphical user interface (GUI) with extensive viewing, searching, editing, printing and multithreading capabilities. These programs improve the browsing of BLAST/FASTA results by offering a more convenient presentation of these results. They also implement on a computer several analytical tools which automate a manual methodology used for detailed analysis of BLAST and FASTA outputs. These tools include a pairwise sequence alignment viewer, a Hydrophobic Cluster Analysis plot alignment viewer and a tool displaying a graphical map of all database sequences aligned with the query sequence. In addition. Visual Blast includes tools for multiple sequence alignment analysis (with an amino acid patterns search engine), and Visual FASTA provides a GUI to the FASTA program.
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| http://dx.doi.org/10.1093/bioinformatics/13.4.407 | DOI Listing |
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