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dialign

Name dialign
Description Segment-based multiple sequence alignment DIALIGN2 is a command line tool to perform multiple alignment of protein or DNA sequences. It constructs alignments from gapfree pairs of simi lar segments of the sequences. This scoring scheme for alignments is the basic difference between DIALIGN and other global or local alignment methods. Note that DIALIGN does not employ any kind of gap penalty. It has been published by Morgenstern B. in Bioinformatics. 1999 Mar;15(3):211-8. Note: The -stdo option must be used to send the output to stdout so that it can be redirected to your desired location.
Homepage http://bibiserv.techfak.uni-bielefeld.de/dialign/  
Remote Documentation
 
Local Documentation
Dialign Manual

Dialign Readme

Dialign User Guide