PFRMAT SS
TARGET T0136
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0136.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0136.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0136.t2k.str.rdb  (weight 1.53983)
METHOD T0136.t2k.alpha.rdb  (weight 0.659012)
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 T0136.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0136
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 T0136.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 176
METHOD
METHOD ============================================
METHOD Comments from T0136.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0136
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 T0136.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 176
METHOD
METHOD ============================================
METHOD Comments from T0136.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0136
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 T0136.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 176
METHOD
METHOD ============================================
METHOD Comments from T0136.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0136
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   15
METHOD	    7	   15
METHOD	    9	   15
METHOD	   13	   11 (1 ABCDEFGHIST )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0136.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 176
METHOD
METHOD ============================================
MODEL 1
A C 0.91
E C 0.78
N C 0.50
N H 0.56
N H 0.64
L H 0.66
K H 0.64
L H 0.59
A H 0.81
S H 0.85
T H 0.86
M H 0.88
E H 0.89
G H 0.87
R H 0.82
V H 0.80
E H 0.90
Q H 0.89
L H 0.92
A H 0.93
E H 0.93
Q H 0.94
R H 0.93
Q H 0.93
V H 0.93
I H 0.91
E H 0.85
A H 0.68
G C 0.58
G C 0.70
G C 0.73
E H 0.52
R H 0.57
R H 0.56
V H 0.52
E H 0.72
K H 0.64
Q H 0.49
H C 0.59
S C 0.62
Q C 0.75
G C 0.80
K C 0.75
Q C 0.71
T C 0.83
A H 0.89
R H 0.92
E H 0.93
R H 0.91
L H 0.90
N H 0.87
N H 0.83
L H 0.73
L H 0.45
D C 0.86
P C 0.84
H C 0.90
S C 0.77
F C 0.49
D E 0.49
E C 0.48
V C 0.67
G C 0.73
A C 0.67
F C 0.66
R C 0.52
K C 0.51
H C 0.50
R H 0.63
T H 0.65
T H 0.73
L H 0.74
F H 0.73
G H 0.70
M H 0.64
D H 0.58
K H 0.51
A C 0.58
V C 0.72
V C 0.83
P C 0.80
A C 0.80
D C 0.74
G E 0.53
V E 0.82
V E 0.87
T E 0.80
G E 0.79
R E 0.77
G E 0.79
T E 0.82
I E 0.74
L C 0.88
G C 0.91
R E 0.59
P E 0.85
V E 0.91
H E 0.93
A E 0.93
A E 0.92
S E 0.86
Q E 0.63
D C 0.69
F C 0.63
T E 0.52
V E 0.67
M E 0.55
G C 0.53
G C 0.70
S C 0.68
A C 0.64
G C 0.57
E H 0.76
T H 0.85
Q H 0.91
S H 0.95
T H 0.95
K H 0.95
V H 0.96
V H 0.96
E H 0.96
T H 0.96
M H 0.96
E H 0.96
Q H 0.96
A H 0.95
L H 0.94
L H 0.90
T C 0.49
G C 0.93
T C 0.92
P C 0.73
F E 0.88
L E 0.93
F E 0.93
F E 0.92
Y E 0.81
D C 0.58
S C 0.80
G C 0.82
G C 0.73
A C 0.58
R C 0.48
I H 0.53
Q H 0.57
E H 0.60
G H 0.57
I H 0.74
D H 0.83
S H 0.79
L H 0.84
S H 0.83
G H 0.84
Y H 0.91
G H 0.94
K H 0.95
M H 0.96
F H 0.96
F H 0.96
A H 0.95
N H 0.94
V H 0.92
K H 0.88
L H 0.74
S C 0.50
G C 0.75
V C 0.84
V C 0.80
P C 0.67
Q E 0.85
I E 0.92
A E 0.92
I E 0.91
I E 0.85
A E 0.52
G C 0.82
P C 0.81
C C 0.75
A C 0.70
G C 0.69
G C 0.52
A C 0.38
S E 0.46
Y E 0.53
S E 0.50
P C 0.41
A C 0.54
L C 0.61
T C 0.69
D C 0.56
F E 0.83
I E 0.90
I E 0.90
M E 0.87
T E 0.58
K C 0.83
K C 0.91
A C 0.76
H E 0.52
M E 0.87
F E 0.89
I E 0.86
T E 0.62
G C 0.74
P H 0.72
Q H 0.88
V H 0.93
I H 0.92
K H 0.88
S H 0.81
V H 0.70
T C 0.52
G C 0.87
E C 0.83
D C 0.60
V C 0.61
T C 0.76
A H 0.68
D H 0.73
E H 0.67
L C 0.64
G C 0.77
G C 0.63
A H 0.47
E H 0.54
A H 0.52
H H 0.52
M H 0.48
A H 0.46
I H 0.46
S C 0.62
G C 0.69
N E 0.49
I E 0.63
H E 0.63
F E 0.67
V E 0.70
A E 0.50
E C 0.78
D C 0.87
D H 0.72
D H 0.92
A H 0.94
A H 0.95
E H 0.96
L H 0.96
I H 0.96
A H 0.96
K H 0.96
K H 0.95
L H 0.95
L H 0.92
S H 0.84
F H 0.72
L C 0.61
P C 0.73
Q C 0.68
N C 0.73
N C 0.78
T C 0.81
E C 0.84
E C 0.84
A C 0.85
S C 0.81
F C 0.69
V C 0.75
N C 0.83
P C 0.83
N C 0.85
N C 0.87
D C 0.81
V C 0.76
S C 0.74
P C 0.73
N C 0.51
T H 0.54
E H 0.53
L H 0.50
R C 0.48
D C 0.55
I C 0.59
V C 0.73
P C 0.79
I C 0.80
D C 0.85
G C 0.80
K C 0.84
K C 0.85
G C 0.74
Y C 0.68
D C 0.68
V H 0.78
R H 0.87
D H 0.86
V H 0.89
I H 0.85
A H 0.81
K H 0.74
I H 0.60
V H 0.39
D C 0.67
W C 0.60
G C 0.53
D H 0.47
Y H 0.63
L H 0.57
E H 0.51
V C 0.43
K C 0.59
A C 0.59
G C 0.72
Y C 0.73
A C 0.66
T C 0.59
N C 0.54
L E 0.49
V E 0.73
T E 0.77
A E 0.81
F E 0.81
A E 0.84
R E 0.84
V E 0.76
N C 0.88
G C 0.91
R E 0.56
S E 0.80
V E 0.88
G E 0.92
I E 0.93
V E 0.90
A E 0.85
N E 0.59
Q C 0.68
P C 0.72
S C 0.70
V C 0.65
M C 0.69
S C 0.73
G C 0.78
C C 0.70
L C 0.70
D C 0.85
I H 0.64
N H 0.78
A H 0.91
S H 0.95
D H 0.95
K H 0.96
A H 0.96
A H 0.96
E H 0.96
F H 0.96
V H 0.96
N H 0.95
F H 0.93
C H 0.89
D H 0.78
S H 0.67
F C 0.62
N C 0.91
I C 0.90
P C 0.69
L E 0.84
V E 0.92
Q E 0.93
L E 0.92
V E 0.85
D E 0.53
V C 0.77
P C 0.81
G C 0.77
F C 0.76
L C 0.77
P C 0.81
G C 0.79
V H 0.75
Q H 0.88
Q H 0.90
E H 0.89
Y H 0.89
G H 0.79
G H 0.79
I H 0.90
I H 0.95
R H 0.95
H H 0.95
G H 0.95
A H 0.96
K H 0.96
M H 0.96
L H 0.96
Y H 0.96
A H 0.96
Y H 0.94
S H 0.90
E H 0.64
A C 0.65
T C 0.84
V C 0.86
P C 0.80
K E 0.78
I E 0.92
T E 0.93
V E 0.93
V E 0.88
L E 0.65
R C 0.58
K C 0.66
A C 0.75
Y C 0.77
G C 0.75
G C 0.54
S H 0.45
Y H 0.49
L H 0.48
A H 0.41
M C 0.36
C C 0.69
N C 0.69
R C 0.55
D C 0.56
L C 0.68
G C 0.77
A C 0.76
D C 0.70
A E 0.58
V E 0.75
Y E 0.80
A E 0.76
W C 0.62
P C 0.83
S C 0.87
A C 0.66
E E 0.60
I E 0.82
A E 0.82
V E 0.77
M C 0.51
G C 0.82
A H 0.69
E H 0.75
G H 0.83
A H 0.86
A H 0.85
N H 0.82
V H 0.79
I H 0.72
F H 0.55
R C 0.54
K C 0.70
E H 0.66
I H 0.71
K H 0.69
A H 0.70
A H 0.71
D H 0.73
D H 0.73
P H 0.76
D H 0.80
A H 0.83
M H 0.83
R H 0.83
A H 0.86
E H 0.88
K H 0.89
I H 0.93
E H 0.94
E H 0.94
Y H 0.93
Q H 0.91
N H 0.84
A H 0.66
F C 0.62
N C 0.79
T C 0.86
P H 0.89
Y H 0.93
V H 0.95
A H 0.95
A H 0.94
A H 0.88
R C 0.54
G C 0.89
Q C 0.80
V C 0.67
D C 0.59
D C 0.56
V C 0.53
I C 0.56
D C 0.82
P H 0.67
A H 0.85
D H 0.86
T H 0.81
R H 0.93
R H 0.95
K H 0.96
I H 0.96
A H 0.96
S H 0.96
A H 0.96
L H 0.95
E H 0.94
M H 0.91
Y H 0.86
A H 0.76
T H 0.50
K C 0.49
R H 0.50
Q C 0.50
T C 0.61
R C 0.79
P C 0.81
A C 0.66
K C 0.62
K C 0.63
H C 0.73
G C 0.84
N C 0.81
F C 0.79
P C 0.85
C C 0.91
END