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