PFRMAT SS
TARGET T0147
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0147.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0147.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0147.t2k.str.rdb  (weight 1.53983)
METHOD T0147.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 T0147.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0147
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 T0147.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 80
METHOD
METHOD ============================================
METHOD Comments from T0147.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0147
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 T0147.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 80
METHOD
METHOD ============================================
METHOD Comments from T0147.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0147
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 T0147.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 80
METHOD
METHOD ============================================
METHOD Comments from T0147.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0147
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 T0147.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 80
METHOD
METHOD ============================================
MODEL 1
M C 0.90
Y C 0.73
P C 0.60
V C 0.56
D C 0.50
L E 0.69
H E 0.73
M E 0.74
H E 0.65
T C 0.53
V C 0.54
A C 0.71
S C 0.82
T C 0.81
H C 0.82
A C 0.75
Y C 0.74
S C 0.80
T C 0.84
L H 0.93
S H 0.95
D H 0.96
Y H 0.96
I H 0.96
A H 0.96
Q H 0.96
A H 0.95
K H 0.95
Q H 0.90
K C 0.61
G C 0.94
I C 0.88
K C 0.52
L E 0.92
F E 0.93
A E 0.93
I E 0.89
T E 0.60
D C 0.74
H C 0.81
G C 0.77
P C 0.69
D C 0.65
M C 0.68
E C 0.68
D C 0.53
A H 0.56
P H 0.57
H H 0.68
H H 0.76
W H 0.78
H H 0.84
F H 0.87
I H 0.87
N H 0.88
M H 0.87
R H 0.86
I H 0.84
W H 0.79
P H 0.81
R H 0.77
V H 0.66
V C 0.48
D C 0.74
G C 0.88
V C 0.70
G E 0.63
I E 0.73
L E 0.58
R C 0.51
G E 0.57
I E 0.81
E E 0.89
A E 0.87
N E 0.88
I E 0.86
K E 0.79
N C 0.57
V C 0.86
D C 0.88
G C 0.69
E E 0.56
I E 0.73
D E 0.62
C E 0.48
S C 0.62
G C 0.48
K H 0.53
M H 0.49
F H 0.47
D C 0.57
S C 0.53
L C 0.62
D C 0.64
L E 0.53
I E 0.73
I E 0.83
A E 0.81
G E 0.78
F E 0.68
H E 0.56
E C 0.45
P C 0.50
V C 0.60
F C 0.70
A C 0.70
P C 0.72
H C 0.62
D C 0.57
K H 0.60
A H 0.65
T H 0.68
N H 0.82
T H 0.92
Q H 0.95
A H 0.95
M H 0.96
I H 0.96
A H 0.95
T H 0.95
I H 0.92
A H 0.84
S H 0.53
G C 0.80
N C 0.88
V C 0.72
H C 0.51
I E 0.72
I E 0.66
S E 0.50
H C 0.70
P C 0.76
G C 0.76
N C 0.64
P C 0.46
K H 0.47
Y H 0.44
E C 0.47
I C 0.54
D C 0.59
V C 0.57
K C 0.65
A C 0.52
V C 0.42
A H 0.52
E H 0.51
A H 0.91
A H 0.93
A H 0.94
K H 0.93
H H 0.93
Q H 0.92
V H 0.92
A H 0.91
L H 0.89
E H 0.82
I H 0.51
N C 0.84
N C 0.78
S C 0.59
S C 0.47
F E 0.41
L C 0.44
H C 0.60
S C 0.76
R C 0.82
K C 0.72
G C 0.70
S C 0.65
E C 0.67
D C 0.73
N C 0.73
C H 0.56
R H 0.94
E H 0.95
V H 0.96
A H 0.96
A H 0.96
A H 0.96
V H 0.96
R H 0.95
D H 0.92
A C 0.56
G C 0.94
G C 0.89
W E 0.63
V E 0.87
A E 0.90
L E 0.85
G E 0.58
S C 0.78
D C 0.77
S C 0.71
H C 0.75
T C 0.81
A C 0.56
F C 0.55
T C 0.52
M H 0.55
G H 0.58
E H 0.68
F H 0.91
E H 0.95
E H 0.96
C H 0.96
L H 0.96
K H 0.96
I H 0.96
L H 0.96
D H 0.95
A H 0.90
V C 0.50
D C 0.93
F C 0.93
P C 0.91
P H 0.68
E H 0.75
R H 0.75
I H 0.65
L H 0.60
N H 0.50
V C 0.53
S C 0.66
P H 0.53
R H 0.79
R H 0.85
L H 0.90
L H 0.93
N H 0.93
F H 0.94
L H 0.93
E H 0.92
S H 0.85
R H 0.51
G C 0.83
M C 0.84
A C 0.78
P C 0.68
I H 0.54
A H 0.66
E H 0.65
F C 0.50
A C 0.68
D C 0.81
L C 0.92
END