PFRMAT SS
TARGET T0403
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0403.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0403.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0403.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 T0403.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0403
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 T0403.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 539
METHOD
METHOD ============================================
METHOD Comments from T0403.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0403
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 T0403.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 539
METHOD
METHOD ============================================
METHOD Comments from T0403.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0403
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 T0403.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 539
METHOD
METHOD ============================================
MODEL 1
M C 0.66
G C 0.49
R E 0.46
D C 0.60
L C 0.72
Q C 0.67
V E 0.53
T E 0.84
L E 0.92
Y E 0.89
G E 0.86
T E 0.89
I E 0.85
K E 0.70
A E 0.54
G E 0.58
V E 0.81
E E 0.85
V E 0.84
S E 0.73
R C 0.50
V C 0.74
K C 0.79
D C 0.82
A C 0.81
G C 0.77
T C 0.75
Y C 0.73
K C 0.71
A C 0.70
Q C 0.74
G C 0.77
G C 0.71
K C 0.53
S E 0.67
K E 0.77
T E 0.77
A E 0.74
T E 0.66
Q E 0.53
I C 0.55
A C 0.61
D C 0.65
F C 0.72
G C 0.70
S C 0.64
K C 0.56
I C 0.60
G C 0.61
F E 0.52
K E 0.49
G E 0.48
Q E 0.47
E E 0.50
D E 0.48
L C 0.69
G C 0.88
N C 0.91
G C 0.81
M E 0.54
K E 0.90
A E 0.97
I E 0.98
W E 0.98
Q E 0.98
L E 0.94
E E 0.79
Q C 0.49
K C 0.64
A C 0.52
S C 0.57
I C 0.72
A C 0.86
G C 0.90
T C 0.89
N C 0.86
S C 0.81
G C 0.69
W C 0.51
G C 0.50
N C 0.52
R E 0.52
Q E 0.71
S E 0.80
F E 0.84
I E 0.81
G E 0.75
L E 0.62
K C 0.52
G C 0.76
G C 0.84
F C 0.65
G E 0.62
T E 0.89
V E 0.93
R E 0.92
A E 0.79
G E 0.50
N C 0.60
L C 0.65
N C 0.73
T C 0.81
V H 0.66
L H 0.72
K H 0.76
D H 0.70
S H 0.60
G C 0.47
D C 0.68
N C 0.71
V C 0.69
N C 0.84
A C 0.74
W C 0.73
E C 0.71
S C 0.70
G C 0.69
S C 0.67
N C 0.66
T C 0.65
E C 0.65
D C 0.70
V C 0.64
L C 0.65
G C 0.61
L C 0.59
G C 0.61
T C 0.65
I C 0.69
G C 0.78
R C 0.79
V C 0.71
E C 0.55
S E 0.46
R E 0.49
E C 0.60
I C 0.53
S E 0.79
V E 0.93
R E 0.94
Y E 0.86
D E 0.76
S C 0.63
P C 0.73
V C 0.71
F C 0.62
A C 0.77
G C 0.62
F E 0.68
S E 0.92
G E 0.96
S E 0.97
V E 0.97
Q E 0.97
Y E 0.95
V E 0.85
P E 0.57
R C 0.76
D C 0.79
N C 0.73
A C 0.72
N C 0.75
D C 0.71
V C 0.71
D C 0.75
K C 0.80
Y C 0.83
K C 0.79
H C 0.59
T E 0.77
K E 0.89
S E 0.94
S E 0.94
R E 0.94
E E 0.94
S E 0.92
Y E 0.86
H E 0.62
A C 0.63
G C 0.80
L C 0.61
K E 0.44
Y E 0.54
E E 0.55
N E 0.56
A E 0.56
G E 0.54
F E 0.52
F H 0.52
G H 0.49
Q H 0.38
Y C 0.61
A C 0.80
G C 0.77
S C 0.73
F C 0.67
A C 0.64
K C 0.62
Y C 0.65
A C 0.67
D C 0.64
L C 0.61
N C 0.61
T C 0.61
D C 0.62
A C 0.64
E C 0.66
R C 0.66
V C 0.66
A C 0.63
V C 0.55
N C 0.55
T C 0.61
A C 0.67
N C 0.67
A C 0.62
H C 0.62
P C 0.65
V C 0.53
K C 0.54
D C 0.48
Y E 0.57
Q E 0.77
V E 0.92
H E 0.94
R E 0.96
V E 0.95
V E 0.94
A E 0.95
G E 0.94
Y E 0.93
D E 0.88
A E 0.66
N C 0.71
D C 0.56
L E 0.76
Y E 0.89
V E 0.93
S E 0.93
V E 0.94
A E 0.94
G E 0.93
Q E 0.90
Y E 0.84
E E 0.72
A E 0.60
A E 0.46
K C 0.63
N C 0.74
N C 0.74
E C 0.71
V C 0.68
G C 0.67
S C 0.64
I C 0.63
K C 0.66
G C 0.71
K C 0.71
K C 0.62
H C 0.47
E E 0.60
Q E 0.66
T E 0.63
Q E 0.84
V E 0.93
A E 0.96
A E 0.96
T E 0.94
A E 0.94
A E 0.95
Y E 0.94
R E 0.87
F E 0.67
G C 0.73
N C 0.63
V H 0.41
T H 0.44
P H 0.40
R E 0.49
V E 0.65
S E 0.65
Y E 0.72
A E 0.74
H E 0.74
G E 0.72
F E 0.66
K E 0.54
A C 0.50
K C 0.57
V C 0.59
N C 0.72
G C 0.76
V C 0.72
K C 0.72
D C 0.78
A C 0.79
N C 0.79
Y C 0.80
Q C 0.76
Y C 0.53
D E 0.55
Q E 0.91
V E 0.95
I E 0.97
V E 0.95
G E 0.90
A E 0.86
D E 0.81
Y E 0.79
D E 0.66
F C 0.48
S C 0.72
K C 0.68
R C 0.55
T H 0.45
S H 0.51
A H 0.53
L E 0.50
V E 0.52
S E 0.52
A H 0.49
G E 0.48
W E 0.50
L E 0.49
K E 0.44
Q C 0.48
G C 0.82
K C 0.89
G C 0.87
A C 0.81
G C 0.84
K C 0.69
V E 0.51
E E 0.73
Q E 0.76
T E 0.60
A C 0.50
S C 0.73
M C 0.91
END