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REPRO protein repeats analysis

logo The program REPRO (Heringa and Argos, 1993) is able to recognise distant repeats in a single query sequence. The technique relies on a variation of the Smith-Waterman local alignment strategy to find non-overlapping top-scoring local alignments, followed by a graph-based iterative clustering procedure to delineate the repeat set(s) based on consistency of the pairwise top-alignments. The REPRO program operates in two steps:
  1. Calculation of a list of N top-scoring non-overlapping local alignments. This is the SLOW step. The parameter N should be specified by the user.
  2. Graph-based clustering of M top-alignments to assemble the repeat sets. If you have completed step 1, then continue to Step 2

Documentation: an introduction to repro as well as a user guide, sample results, who to ask for help and references can be found here.

George RA. and Heringa J. (2000) The REPRO server: finding protein internal sequence repeats through the web. Trends Biochem. Sci. 25, 515-517.

Step 1. Paste in a Protein sequence:

Or upload a sequence:

Gap Penalties:
 Open.     Extension
 N local Alignments.   

      

 

The REPRO web server was developed by Richard George.

(c) IBIVU 2014. If you are experiencing problems with the site, please contact the webmaster.