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Bioinformatics. 2001 Aug;17(8):744-5.

Multi-query sequence BLAST output examination with MuSeqBox.

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Department of Zoology and Genetics, Iowa State University, Ames, IA 50011, USA.



MuSeqBox is a program to parse BLAST output and store attributes of BLAST hits in tabular form. The user can apply a number of selection criteria to filter out hits with particular attributes. MuSeqBox provides a powerful annotation tool for large sets of query sequences that are simultaneously compared against a database with any of the standard stand-alone or network-client BLAST programs. We discuss such application to the problem of annotation and analysis of EST collections.


The program was written in standard C++ and is freely available to noncommercial users by request from the authors. The program is also available over the web at

[Indexed for MEDLINE]

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