If you do not have a multiple alignment of complete (full-length) sequences with suitable Uniprot or PDB accession numbers, an alignment can be constructed with the PipeAlign toolkit, available here.
Previous sessions are identified by an ID number in order to let you retrieve their results later on.
Please, note that session results are kept only for a week.
If you have any problem or question, please, feel free to contact us at thompson@unistra.fr