AlignMe
Help/Examples:     

    or have a look at the 

Enter a sequence in fasta format

Enter another sequence in fasta format

...or upload a fasta file?

...or upload another fasta file?



α-helical membrane proteins

AlignMe PST
Most accurate alignments for very distantly related proteins (<15% identity)
(~9 mins for a 179 and 215-residue sequence pair)

AlignMe PS
Most accurate alignments for low-homology proteins (~15-45% identity)
(~5 mins for a 179 and 215-residue sequence pair)

AlignMe P
Most accurate alignments for very closely related proteins (>45% identity)
(~5 mins for a 179 and 215-residue sequence pair)

Fast, but less accurate alignments (~3 sec.)
based on a substitution matrix and a hydrophobicity scale

slower, but more accurate ~ 10 min
(substitution matrix, hydrophobicity scale
& secondary structure prediction)


β-barrel membrane proteins

fast ~ 3 sec.
(substitution matrix & hydrophobicity scale)


Usage of own alignment parameters

user defined parameters


         Show detailed alignment parameters!

3) Submission

Enter an e-mail address if you wish to receive an e-mail with your result
Recommended for "Most accurate alignments" and alignments with automated PSSM calculations, PsiPred or OCTOPUS predictions