hPATM

Sequence 1

• Paste your sequence here (in FASTA format, sequence >name less than 6 characters) [Help]:

And declare the transmembrane segments for sequence 1 (e.g. 25-45,67-87,...,346-365) [Help]:

And declare the transmembrane segments for sequence 2 (e.g. 25-45,67-87,...,346-365) [Help]:

Choose substitution matrix [Help]: BLOSUM62 PAM250 PHAT T70 B66

Set the gap opening penalty [Help]:
Set the gap extension penalty [Help]:

Set the heuristic bonus penalty [Help]:
Set the heuristic penalty penalty [Help]:

Type of alignment [Help]:

Heuristc Global Alignment

Heuristic Local Alignment

Global Alignment (Needleman & Wunsch)

Local Alignment (Smith & Waterman)