PFRMAT SS
TARGET T0558
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0558.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0558.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0558.t2k.str.rdb  (weight 1.53983)
METHOD These files were combined by translating their predictions into EHL
METHOD predictions with tables generated by compare-real, and then combining
METHOD those predictions with weights proportional to their mutual information
METHOD with the EHL alphabet.  The comments from the individual files follow.
METHOD
METHOD Comments from T0558.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0558
METHOD Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	    7 (1 EBGHSTL )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0558.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 97
METHOD
METHOD ============================================
METHOD Comments from T0558.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0558
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	    6 (1 EBGHTL )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0558.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 97
METHOD
METHOD ============================================
METHOD Comments from T0558.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0558
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	   13 (1 str )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0558.t2k-thin90.a2m.gz
METHOD with weighted counts, using HenikoffWeight(-1 bits/column, 1)
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 97
METHOD
METHOD ============================================
MODEL 1
M C 0.88
K H 0.55
N H 0.78
F H 0.88
I H 0.92
L H 0.94
L H 0.94
V H 0.94
A H 0.93
L H 0.92
F H 0.90
L H 0.85
V H 0.79
A H 0.65
P H 0.54
F H 0.51
A H 0.53
Q H 0.50
G C 0.41
S C 0.50
S C 0.68
P C 0.77
Q C 0.84
H C 0.77
L E 0.56
L E 0.85
V E 0.91
G E 0.92
G E 0.90
S E 0.80
G C 0.49
W C 0.80
N C 0.85
K C 0.50
I E 0.89
A E 0.95
I E 0.97
I E 0.96
N E 0.94
K E 0.71
D C 0.59
T C 0.86
K C 0.80
E E 0.64
I E 0.93
V E 0.93
W E 0.93
E E 0.89
Y E 0.81
P E 0.55
L C 0.64
E C 0.77
K C 0.81
G C 0.68
W E 0.48
E E 0.67
C E 0.73
N E 0.71
S E 0.77
V E 0.85
A E 0.90
A E 0.86
T E 0.50
K C 0.91
A C 0.93
G C 0.61
E E 0.81
I E 0.96
L E 0.97
F E 0.96
S E 0.87
Y E 0.50
S C 0.86
K C 0.84
G E 0.73
A E 0.93
K E 0.97
M E 0.97
I E 0.95
T E 0.56
R C 0.93
D C 0.97
G C 0.93
R C 0.62
E E 0.92
L E 0.94
W E 0.92
N E 0.85
I E 0.74
A E 0.50
A C 0.75
P C 0.86
A C 0.88
G C 0.81
C C 0.63
E E 0.55
M E 0.71
Q E 0.73
T E 0.81
A E 0.85
R E 0.89
I E 0.88
L C 0.65
P C 0.93
D C 0.96
G C 0.94
N C 0.74
A E 0.93
L E 0.97
V E 0.97
A E 0.95
W E 0.89
C E 0.55
G C 0.88
H C 0.90
P C 0.88
S C 0.62
T E 0.85
I E 0.96
L E 0.97
E E 0.97
V E 0.95
N C 0.60
M C 0.95
K C 0.97
G C 0.92
E C 0.52
V E 0.94
L E 0.96
S E 0.95
K E 0.94
T E 0.90
E E 0.73
F C 0.56
E C 0.75
T C 0.80
G C 0.82
I C 0.79
E C 0.77
R C 0.77
P C 0.69
H C 0.59
A C 0.57
Q C 0.54
F C 0.41
R E 0.53
Q E 0.66
I E 0.77
N E 0.84
K E 0.87
N C 0.64
K C 0.94
K C 0.97
G C 0.92
N C 0.65
Y E 0.94
L E 0.96
V E 0.96
P E 0.93
L E 0.80
F C 0.60
A C 0.79
T C 0.89
S C 0.77
E E 0.82
V E 0.96
R E 0.97
E E 0.97
I E 0.96
A C 0.56
P C 0.95
N C 0.97
G C 0.94
Q C 0.61
L E 0.95
L E 0.96
N E 0.96
S E 0.95
V E 0.93
K E 0.78
L C 0.54
S C 0.83
G C 0.88
T C 0.73
P E 0.56
F E 0.78
S E 0.88
S E 0.92
A E 0.94
F E 0.94
L E 0.62
D C 0.89
N C 0.95
G C 0.92
D C 0.63
C E 0.93
L E 0.97
V E 0.97
A E 0.96
C E 0.87
G C 0.58
D C 0.89
A C 0.94
H C 0.86
C E 0.79
F E 0.96
V E 0.98
Q E 0.98
L E 0.97
N E 0.94
L C 0.71
E C 0.94
S C 0.96
N C 0.93
R E 0.72
I E 0.95
V E 0.97
R E 0.97
R E 0.94
V E 0.86
N C 0.56
A C 0.84
N C 0.86
D C 0.85
I C 0.85
E C 0.83
G C 0.76
V C 0.60
Q E 0.50
L E 0.65
F E 0.66
F E 0.57
V C 0.51
A C 0.54
Q E 0.52
L E 0.76
F E 0.88
P E 0.90
L C 0.62
Q C 0.92
N C 0.95
G C 0.90
G C 0.70
L E 0.93
Y E 0.97
I E 0.96
C E 0.88
N E 0.62
W C 0.78
Q C 0.89
G C 0.86
H C 0.76
D C 0.47
R E 0.64
E E 0.68
A E 0.60
G C 0.50
K C 0.71
G C 0.84
K C 0.88
H C 0.79
P C 0.53
Q E 0.84
L E 0.94
V E 0.96
E E 0.96
I E 0.91
D C 0.61
S C 0.94
E C 0.96
G C 0.88
K C 0.61
V E 0.92
V E 0.95
W E 0.96
Q E 0.95
L E 0.87
N E 0.55
D C 0.80
K C 0.80
V C 0.81
K C 0.76
F C 0.54
G E 0.68
M E 0.87
I E 0.91
S E 0.86
T E 0.85
I E 0.87
C E 0.85
P E 0.74
I C 0.54
R C 0.85
E C 0.97
END