PFRMAT SS 
TARGET T0048 
AUTHOR 1751-3146-3362 
METHOD Using neural net fssp-12345-IDaa1-9-6-11-9-3-8-7-ehl-seeded4-trained.net 
METHOD This is a 4-layer network, with  
METHOD	window	units 
METHOD	    9	    6 
METHOD	   11	    9 
METHOD	    3	    8 
METHOD	    7	    3 (1 EHL ) 
METHOD The input amino acid frequencies were determined from 
METHOD alignment t48.t98_6.a2m.gz 
METHOD with weighted counts, using HenikoffWeight(1 bits/column, 0.5) 
METHOD The weighting was determined by the posterior distribution 
METHOD after regularizing with recode3.20comp. 
METHOD Counts were regularized to probabilities using 
METHOD /projects/compbio/lib/recode3.20comp 
METHOD Total sequence weight for alignment was 5.47553 
METHOD 
MODEL 1 
M C 0.82 
T C 0.77 
A C 0.62 
L C 0.55 
T C 0.52 
Q C 0.51 
A C 0.66 
H C 0.64 
C C 0.60 
E H 0.50 
A H 0.43 
C H 0.40 
R C 0.41 
A C 0.51 
D C 0.52 
A H 0.50 
P H 0.52 
H C 0.47 
V C 0.77 
S C 0.84 
D H 0.72 
E H 0.94 
E H 0.90 
L H 0.93 
P H 0.97 
V H 0.97 
L H 0.95 
L H 0.83 
R C 0.59 
Q H 0.50 
I C 0.66 
P C 0.81 
D C 0.75 
W C 0.79 
N C 0.67 
I C 0.47 
E E 0.46 
V E 0.40 
R C 0.50 
D C 0.79 
G C 0.89 
I C 0.71 
M C 0.52 
Q C 0.57 
L C 0.49 
E C 0.50 
K C 0.43 
V E 0.45 
Y E 0.45 
L E 0.41 
F C 0.36 
K C 0.43 
N C 0.58 
F H 0.87 
K H 0.96 
H H 0.97 
A H 0.97 
L H 0.97 
A H 0.96 
F H 0.95 
T H 0.98 
N H 0.98 
A H 0.98 
V H 0.99 
G H 0.99 
E H 0.99 
I H 0.99 
S H 0.99 
E H 0.98 
A H 0.97 
E H 0.90 
G H 0.54 
H C 0.73 
H C 0.85 
P C 0.59 
G H 0.56 
L H 0.60 
L H 0.52 
T C 0.43 
E C 0.50 
W C 0.75 
G C 0.68 
K E 0.79 
V E 0.92 
T E 0.95 
V E 0.94 
T E 0.91 
W E 0.81 
W E 0.59 
S C 0.55 
H C 0.73 
S C 0.60 
I C 0.67 
K C 0.89 
G C 0.80 
L C 0.73 
H C 0.68 
R C 0.52 
N H 0.49 
D H 0.77 
F H 0.90 
I H 0.90 
M H 0.93 
A H 0.95 
A H 0.95 
R H 0.88 
T H 0.96 
D H 0.98 
E H 0.98 
V H 0.97 
A H 0.95 
K H 0.93 
T H 0.89 
A H 0.74 
E C 0.49 
G C 0.69 
R C 0.79 
K C 0.80 
END 
