#	cobbler config file for PSI-BLAST checkpoint file output
#		Make a PSSM for each block (BL, FR, QM)
#		Select consensus residue based on highest PSSM value
#			(TY 4)
#		Embed the PSSM in the sequence in test.pro (SQ)
#		Trim the embbed PSSM to within 10 aas before the first
#			block and after the last block (TR 10)
#		Print a profile using the PSSM inside the blocks and 
#			and single55.psi outside them (MA, PF)
#	MA line triggers profile output, PF line specifies profile format
#	psi-blast.sq.cob contains the embedded sequence
#	psi-blast.sq.cob.prf contains the embedded pssm
#
#	Execute psi-blast:   
# blastpgp -i psi-blast.sq.pro -R psi-blast.sq.pro.prf -j <iter> -d <database>
#
TY	4
BL	test.blks
FR	default.amino.frq
QM	blosum55.qij
TR	10
SQ	test.pro
MA	single55.psi
PF	PSI
OU	psi-blast.sq.cob
