Matrix Alignment and COparison
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MACO is a Position Frequency Matrix(PFM) comparing application that implements a gap-allowed alignment algorithm. You may compare your PFM with those collected in our dataset. Currently we have 506 PFMs collected from Transfac Public 7.0 and Jaspar.

MACO compares the input PFM with those stored in our dataset and outputs alignment, score and clusters which are associated with the output PFMs. You may specify parameters such as cutoff score, length of the overlap and flanking core shift for specific needs.

Other programs are accessory to MACO. You may retrieve a certain PFM by MORE(MOtif REtrieval) , or check whether there is a specific binding to a short DNA fragment with MOSE(MOtif SEarch).
Source code
Source code is available upon request.

Interface and CGI developed by G.Su Email!
Last maintained: 03/22/2006