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