PFRMAT SS
TARGET T0133
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0133.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0133.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0133.t2k.str.rdb  (weight 1.53983)
METHOD T0133.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 T0133.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0133
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 T0133.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 13
METHOD
METHOD ============================================
METHOD Comments from T0133.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0133
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 T0133.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 13
METHOD
METHOD ============================================
METHOD Comments from T0133.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0133
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 T0133.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 13
METHOD
METHOD ============================================
METHOD Comments from T0133.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0133
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 T0133.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 13
METHOD
METHOD ============================================
MODEL 1
M C 0.89
N C 0.79
S C 0.70
I C 0.57
K C 0.60
N C 0.60
V C 0.68
P C 0.61
A H 0.39
R H 0.40
V H 0.43
L C 0.35
S C 0.52
R C 0.65
R C 0.84
P C 0.85
G C 0.88
H C 0.77
S C 0.60
L H 0.49
E H 0.62
A H 0.68
E H 0.69
R H 0.79
E H 0.81
Q H 0.80
F H 0.80
D H 0.85
K H 0.91
T H 0.89
Q H 0.92
A H 0.94
I H 0.94
S H 0.94
I H 0.93
S H 0.91
K H 0.83
A H 0.75
I C 0.50
N C 0.77
S C 0.54
Q C 0.51
E C 0.54
A C 0.81
P C 0.87
V C 0.84
K C 0.73
E H 0.54
K H 0.48
H H 0.43
A H 0.49
R H 0.55
R H 0.50
I E 0.48
I E 0.55
L E 0.54
G E 0.50
T C 0.55
H C 0.64
H C 0.64
E H 0.56
K H 0.66
G H 0.71
A H 0.81
F H 0.87
T H 0.88
F H 0.88
W H 0.87
S H 0.86
Y H 0.85
A H 0.72
I H 0.56
G C 0.48
L C 0.67
P C 0.76
L C 0.76
P C 0.76
S C 0.80
S C 0.76
S H 0.49
I H 0.73
L H 0.86
S H 0.94
W H 0.95
K H 0.96
F H 0.96
C H 0.96
H H 0.96
V H 0.96
L H 0.96
H H 0.96
K H 0.95
V H 0.94
L H 0.92
R H 0.83
D H 0.62
G C 0.74
H C 0.86
P H 0.51
N H 0.51
V H 0.65
L H 0.71
H H 0.83
D H 0.83
C H 0.79
Q H 0.75
R H 0.66
Y H 0.59
R H 0.72
S H 0.68
N H 0.76
I H 0.78
R H 0.77
E H 0.73
I H 0.80
G H 0.78
D H 0.73
L H 0.60
W C 0.51
G C 0.71
H C 0.76
L C 0.77
R C 0.73
D C 0.66
Q C 0.66
Y H 0.49
G H 0.67
H H 0.85
L H 0.91
V H 0.95
N H 0.95
I H 0.96
Y H 0.96
T H 0.96
K H 0.95
L H 0.95
L H 0.94
L H 0.94
T H 0.92
K H 0.88
I H 0.83
S H 0.79
F H 0.73
H H 0.60
L C 0.52
K C 0.60
H C 0.82
P C 0.81
Q C 0.75
F C 0.80
P C 0.80
A C 0.81
G C 0.75
L C 0.71
E C 0.63
V C 0.59
T C 0.67
D H 0.66
E H 0.70
V H 0.66
L H 0.61
E H 0.57
K H 0.61
A H 0.50
A C 0.56
G C 0.70
T C 0.73
D C 0.82
V C 0.74
N C 0.78
N C 0.70
I C 0.53
F E 0.46
Q E 0.62
L E 0.58
T E 0.63
V E 0.54
E E 0.42
M H 0.73
F H 0.81
D H 0.82
Y H 0.83
M H 0.83
D H 0.77
C H 0.69
E H 0.86
L H 0.90
K H 0.92
L H 0.94
S H 0.95
E H 0.95
S H 0.95
V H 0.95
F H 0.94
R H 0.92
Q H 0.89
L H 0.77
N H 0.51
T C 0.60
A C 0.65
I C 0.68
A C 0.65
V C 0.64
S C 0.64
Q C 0.62
M C 0.73
S C 0.75
S C 0.79
G C 0.81
Q C 0.51
C E 0.62
R E 0.56
L E 0.39
A H 0.60
P H 0.71
L H 0.88
I H 0.93
Q H 0.94
V H 0.95
I H 0.95
Q H 0.93
D H 0.88
C H 0.82
S H 0.80
H H 0.83
L H 0.92
Y H 0.95
H H 0.96
Y H 0.96
T H 0.96
V H 0.96
K H 0.96
L H 0.96
M H 0.95
F H 0.93
K H 0.87
L H 0.78
H H 0.63
S C 0.52
C C 0.66
L C 0.82
P C 0.85
A H 0.74
D H 0.79
T H 0.85
L H 0.84
Q H 0.85
G H 0.86
H H 0.87
R H 0.91
D H 0.89
R H 0.90
F H 0.91
H H 0.92
E H 0.92
Q H 0.93
F H 0.94
H H 0.92
S H 0.92
L H 0.94
R H 0.95
N H 0.94
F H 0.93
F H 0.91
R H 0.83
R H 0.69
A H 0.67
S H 0.57
D H 0.58
M H 0.73
L H 0.78
Y H 0.75
F H 0.72
K H 0.71
R H 0.62
L H 0.47
I C 0.45
Q C 0.55
I C 0.71
P C 0.81
R C 0.79
L C 0.85
P C 0.87
E C 0.84
G C 0.87
P C 0.87
P C 0.80
N C 0.73
F C 0.62
L C 0.59
R C 0.62
A H 0.57
S H 0.54
A H 0.51
L H 0.64
A H 0.71
E H 0.65
H H 0.49
I C 0.69
K C 0.81
P C 0.82
V C 0.82
V C 0.80
V C 0.61
I C 0.63
P C 0.76
E C 0.75
E C 0.83
A C 0.86
P C 0.86
E C 0.88
E C 0.92
END