PFRMAT SS
TARGET T0168
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0168.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0168.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0168.t2k.str.rdb  (weight 1.53983)
METHOD T0168.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 T0168.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0168
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 T0168.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 36
METHOD
METHOD ============================================
METHOD Comments from T0168.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0168
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 T0168.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 36
METHOD
METHOD ============================================
METHOD Comments from T0168.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0168
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 T0168.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 36
METHOD
METHOD ============================================
METHOD Comments from T0168.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0168
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 T0168.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 36
METHOD
METHOD ============================================
MODEL 1
M C 0.64
K H 0.68
E H 0.69
L H 0.69
I H 0.65
K H 0.58
E H 0.49
H C 0.50
Q C 0.62
K C 0.69
D C 0.73
I C 0.56
N C 0.50
P H 0.49
A H 0.67
L H 0.75
Q H 0.78
L H 0.90
H H 0.94
D H 0.94
W H 0.94
V H 0.93
E H 0.90
Y H 0.83
Y H 0.72
R H 0.49
P H 0.46
F C 0.50
A C 0.65
A C 0.75
N C 0.83
G C 0.84
Q C 0.65
S C 0.50
A H 0.43
N H 0.50
Y H 0.52
I H 0.44
P H 0.65
A H 0.74
L H 0.79
G H 0.62
K C 0.54
V C 0.78
N C 0.87
D C 0.77
S C 0.78
Q C 0.68
L E 0.52
G E 0.80
I E 0.91
C E 0.92
V E 0.92
L E 0.91
E E 0.62
P C 0.70
D C 0.93
G C 0.89
T E 0.60
M E 0.90
I E 0.84
H E 0.84
A E 0.59
G C 0.68
D C 0.76
W C 0.76
N C 0.80
V C 0.80
S C 0.64
F E 0.51
T E 0.61
M E 0.54
Q C 0.41
S C 0.45
I H 0.40
S H 0.44
K H 0.65
V H 0.92
I H 0.95
S H 0.96
F H 0.96
I H 0.96
A H 0.96
A H 0.95
C H 0.93
M H 0.88
S H 0.77
R H 0.57
G C 0.62
I H 0.80
P H 0.87
Y H 0.91
V H 0.91
L H 0.88
D H 0.85
R H 0.77
V C 0.51
D C 0.84
V C 0.78
E C 0.79
P C 0.82
T C 0.84
G C 0.89
D C 0.83
A C 0.65
F C 0.47
N H 0.48
S H 0.55
I H 0.63
I H 0.61
R H 0.56
L H 0.48
E H 0.45
I H 0.39
N C 0.63
K C 0.80
P C 0.88
G C 0.92
K C 0.88
P C 0.80
F C 0.82
N C 0.84
P C 0.48
M H 0.49
I H 0.53
N H 0.55
A H 0.60
G H 0.58
A H 0.62
L H 0.64
T H 0.66
I H 0.59
A H 0.53
S H 0.45
I C 0.45
L C 0.74
P C 0.85
G C 0.91
E C 0.86
S C 0.85
A H 0.81
Y H 0.89
E H 0.91
K H 0.93
L H 0.95
E H 0.95
F H 0.95
L H 0.96
Y H 0.96
S H 0.96
V H 0.96
M H 0.95
E H 0.95
T H 0.91
L H 0.84
I H 0.49
G C 0.85
K C 0.87
R C 0.78
P C 0.63
R C 0.62
I C 0.57
H C 0.79
E H 0.78
E H 0.84
V H 0.80
F H 0.74
R H 0.64
S H 0.59
E H 0.64
W H 0.59
E H 0.56
T H 0.55
A H 0.62
H H 0.77
R H 0.92
N H 0.94
R H 0.95
A H 0.96
L H 0.96
A H 0.96
Y H 0.96
Y H 0.96
L H 0.95
K H 0.94
E H 0.86
T C 0.58
N C 0.91
F C 0.86
L C 0.78
E C 0.80
A C 0.77
E C 0.70
V H 0.90
E H 0.94
E H 0.95
T H 0.95
L H 0.95
E H 0.95
V H 0.95
Y H 0.94
L H 0.92
K H 0.91
Q H 0.89
C H 0.87
A H 0.85
M H 0.84
E H 0.78
S H 0.63
T H 0.52
T H 0.90
E H 0.94
D H 0.95
I H 0.95
A H 0.96
L H 0.95
I H 0.95
G H 0.95
L H 0.95
I H 0.94
L H 0.91
A H 0.83
H H 0.50
D C 0.81
G C 0.88
Y C 0.74
H C 0.74
P C 0.79
I C 0.77
R C 0.83
H C 0.85
E C 0.69
Q E 0.52
V C 0.54
I C 0.71
P C 0.89
K H 0.81
D H 0.87
V H 0.93
A H 0.95
K H 0.95
L H 0.95
A H 0.95
K H 0.94
A H 0.93
L H 0.92
M H 0.88
L H 0.86
T H 0.81
C H 0.69
G H 0.52
M H 0.56
Y H 0.49
N H 0.56
A H 0.56
S H 0.53
G H 0.57
K H 0.65
Y H 0.69
A H 0.65
A H 0.59
F H 0.54
V C 0.48
G C 0.79
V C 0.82
P C 0.78
A C 0.72
K C 0.73
S C 0.74
G C 0.78
V C 0.76
S C 0.70
G C 0.57
G E 0.80
I E 0.88
M E 0.89
A E 0.90
L E 0.84
V E 0.71
P C 0.68
P C 0.64
S C 0.52
A H 0.55
R H 0.52
R C 0.52
E C 0.57
Q C 0.73
P C 0.72
F C 0.70
Q C 0.74
S C 0.79
G C 0.67
C E 0.57
G E 0.85
I E 0.91
G E 0.91
I E 0.88
Y E 0.71
G C 0.62
P C 0.74
A C 0.73
I C 0.70
D C 0.84
E C 0.78
Y C 0.81
G C 0.80
N C 0.68
S C 0.45
L H 0.83
T H 0.90
G H 0.94
G H 0.96
M H 0.96
L H 0.96
L H 0.96
K H 0.96
H H 0.96
M H 0.95
A H 0.95
Q H 0.92
E H 0.86
W H 0.56
E C 0.86
L C 0.85
S C 0.76
I C 0.73
F C 0.92
END