Algorithm SSCA (S t : target sequence, Al: homologous sequences alignment) |
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Begin |
-Build a model according to constraints |
-For each homologous sequence S i of Al |
-Calculate the substitution matrix M i between S t and S i |
-Calculate a score for S i according to the constraints of the model and to the substitution matrix M i |
-Classify the sequences S i according to their score |
End |