PFRMAT SS 
TARGET T0055 
AUTHOR 1751-3146-3362 
METHOD Using neural net fssp-12345-IDaa1-9-6-11-9-3-8-7-ehl-seeded3-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 t55.t98_5.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 22.8034 
METHOD 
MODEL 1 
M C 0.88 
D C 0.68 
Y E 0.67 
E E 0.85 
I E 0.88 
L E 0.85 
F E 0.65 
S C 0.64 
D C 0.71 
E C 0.64 
T C 0.58 
M C 0.55 
N C 0.46 
Y H 0.83 
A H 0.95 
D H 0.97 
A H 0.98 
G H 0.97 
T H 0.96 
Y H 0.92 
C H 0.85 
Q H 0.80 
S H 0.57 
R C 0.69 
G C 0.80 
M C 0.83 
A C 0.62 
L E 0.58 
V E 0.61 
S E 0.57 
S E 0.46 
A C 0.46 
M C 0.58 
R C 0.70 
D H 0.54 
S H 0.92 
T H 0.97 
M H 0.98 
V H 0.99 
K H 0.99 
A H 0.98 
I H 0.98 
L H 0.96 
A H 0.90 
F H 0.81 
T H 0.62 
E C 0.53 
V C 0.65 
K C 0.85 
G C 0.91 
H C 0.91 
D C 0.71 
Y E 0.71 
W E 0.86 
V E 0.84 
G E 0.66 
A C 0.51 
D C 0.71 
N C 0.70 
L C 0.74 
Q C 0.76 
D C 0.78 
G C 0.73 
A C 0.67 
Y C 0.62 
N E 0.55 
F E 0.81 
L E 0.89 
W E 0.86 
N E 0.70 
D C 0.72 
G C 0.93 
V C 0.93 
S C 0.78 
L C 0.66 
P C 0.62 
T C 0.54 
D C 0.47 
S E 0.46 
D E 0.46 
L E 0.45 
W C 0.50 
S C 0.70 
P C 0.86 
N C 0.93 
E C 0.94 
P C 0.93 
S C 0.94 
N C 0.89 
P C 0.82 
Q C 0.89 
S C 0.95 
W C 0.88 
Q C 0.73 
L C 0.76 
C C 0.52 
V E 0.74 
Q E 0.88 
I E 0.89 
W E 0.76 
S C 0.55 
K C 0.78 
Y C 0.91 
N C 0.93 
L C 0.75 
L C 0.72 
D C 0.82 
D C 0.67 
V C 0.57 
G C 0.71 
C C 0.73 
G C 0.74 
G C 0.66 
A C 0.70 
R C 0.64 
R E 0.46 
V E 0.67 
I E 0.69 
C E 0.55 
E C 0.43 
K C 0.45 
E C 0.51 
L C 0.68 
D C 0.86 
D C 0.88 
END 
