
Dear List,
we are trying to compare more than 600 amino acid sequences in clustal format (or FASTA format too) with BLOSUM62 matrix to achieve homology score. We used pairwise alignment but we aren't able to compare our sequences with BLOSUM matrix because pairwise command is used to match only two strings (and not a set of sequences) with the matrix. How can we iterate these command to perform all sequences alignments?
We also performed Multiple Alignment but we obtain a cramped dendogram. Is it possible to modify dendogram's sizes to make it readable?
Thanks,
Dr Falisi
                                                                                                                                                                                                                                                                                                                        
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