TRUST repeat detection method

TRUST is a method for ab-initio determination of internal repeats in proteins. The high sensitivity and accuracy of the method is achieved by exploiting the concept of transitivity of alignments. Reference: ISMB/ECCB 2004 conference (Glasgow, UK), appeared in Bioinformatics. 2004 Aug 4;20 Suppl 1:i311-i317. PubMed Preprint Source: Available to download here.

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Select Gap Penalties:  Open     Extension

Select a substitution matrix: BLOSUM62 PAM250 BLOSUM50 GONNET

Force including local alinments in analysis (relax statistical significance constraints): no yes

Seg low-complexity filtering: yes no

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Interface written by Radek Szklarczyk, Victor A. Simossis and Jaap Heringa