Practice 1. Definitions EMBL - UPF course 2001
   
 

Consensus sequence:
Given a collection of known binding sites, a consensus sequence is developed by giving the most preferred base at each position within a site. Then, this pattern can be used to search in other sequences for new sites.

Disadvantage:
Exact matching means a loss of information so that a fixed number of mismatches is usually allowed to express some degree of ambiguity.

sequence 1 TACGAT
sequence 2 TATAAT
sequence 3 TATAAT
sequence 4 GATACT
sequence 5 TATGAT
sequence 6 TATGTT
consensus sequence TATAAT
consensus (IUPAC code) TATRNT



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Enrique Blanco, Sergi Castellano and Genis Parra © 2001