segName='   A'
seq="""
GLY SER MET THR ALA GLU LEU GLN GLN ASP 
ASP ALA ALA GLY ALA ALA ASP GLY HIS GLY 
SER SER CYS GLN MET LEU LEU ASN GLN LEU 
ARG GLU ILE THR GLY ILE GLN ASP PRO SER 
PHE LEU HIS GLU ALA LEU LYS ALA SER ASN 
GLY ASP ILE THR GLN ALA VAL SER LEU LEU 
THR ASP GLU ARG VAL LYS GLU PRO SER GLN 
ASP THR VAL ALA THR GLU PRO SER GLU VAL 
GLU GLY SER ALA ALA ASN LYS GLU VAL LEU 
ALA LYS VAL ILE ASP LEU THR HIS ASP ASN 
LYS ASP ASP LEU GLN ALA ALA ILE ALA LEU 
SER LEU LEU GLU SER PRO LYS ILE GLN ALA 
ASP GLY VAL ASP LYS LEU ALA ALA ALA LEU 
GLU HIS HIS HIS HIS HIS HIS
"""
patch_list=[]
seqType='prot'
seqSplit = seq.split()
#print "finished reading ["+`len(seqSplit)`+"] residue(s) for a ["+seqType+"] type segi: ["+segName+"]"
