This page provides the facility to the users to align their sequence with the peptides in CPPsite 2.0. User can submit its multiple sequences which he wants to align in the sequence alignment box in the FASTA format. Also, user can give the IDs of the peptides present in the CPPsite 2.0 if he wants to align his sequences with the peptides present in CPPsite 2.0. This page utilizes ClustalWS program for alignment. Please install JAVA in your browser for proper functioning and display of this module. For more information see HELP page.