PFRMAT SS
TARGET T0142
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0142.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0142.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0142.t2k.str.rdb  (weight 1.53983)
METHOD T0142.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 T0142.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0142
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 T0142.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 61
METHOD
METHOD ============================================
METHOD Comments from T0142.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0142
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 T0142.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 61
METHOD
METHOD ============================================
METHOD Comments from T0142.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0142
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 T0142.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 61
METHOD
METHOD ============================================
METHOD Comments from T0142.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0142
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 T0142.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 61
METHOD
METHOD ============================================
MODEL 1
G C 0.80
S C 0.80
P C 0.80
P C 0.69
A C 0.64
Q C 0.49
L E 0.74
S E 0.87
V E 0.93
H E 0.92
T E 0.91
V E 0.88
S E 0.78
W E 0.64
N E 0.50
S C 0.64
G C 0.81
H C 0.84
E C 0.78
R C 0.78
A C 0.84
P C 0.73
T C 0.63
N C 0.54
L H 0.53
E H 0.62
E H 0.69
L H 0.68
L H 0.58
G C 0.55
L C 0.71
N C 0.76
S C 0.72
G C 0.78
E C 0.83
T C 0.81
P C 0.76
D C 0.59
V E 0.86
I E 0.92
A E 0.92
V E 0.88
A E 0.79
V E 0.67
Q E 0.62
G E 0.59
F C 0.47
G C 0.52
F C 0.54
Q C 0.58
T C 0.60
D C 0.54
K C 0.54
P C 0.57
Q C 0.59
Q C 0.63
G C 0.62
P H 0.66
A H 0.77
C H 0.89
V H 0.92
K H 0.93
N H 0.94
F H 0.94
Q H 0.93
S H 0.90
L H 0.82
L C 0.49
T C 0.75
S C 0.80
K C 0.83
G C 0.77
Y E 0.65
T E 0.82
K E 0.85
L E 0.79
K E 0.70
N E 0.59
T E 0.52
I E 0.50
T E 0.54
E E 0.49
T E 0.61
M E 0.71
G E 0.75
L E 0.79
T E 0.81
V E 0.82
Y E 0.82
C E 0.72
L E 0.49
E H 0.57
K H 0.53
H H 0.54
L C 0.57
D C 0.60
Q C 0.50
N C 0.48
T C 0.54
L C 0.59
K C 0.64
N C 0.64
E C 0.52
T C 0.48
I C 0.46
I E 0.46
V C 0.45
T C 0.43
V C 0.47
D C 0.54
D C 0.55
Q C 0.68
K C 0.79
K C 0.79
S C 0.69
G C 0.55
G E 0.71
I E 0.88
V E 0.92
T E 0.92
S E 0.93
F E 0.92
T E 0.91
I E 0.85
Y C 0.54
N C 0.81
K C 0.55
R E 0.80
F E 0.89
S E 0.90
F E 0.91
T E 0.86
T E 0.76
S E 0.50
R C 0.40
M C 0.44
S C 0.55
D C 0.66
E C 0.79
D C 0.59
V C 0.54
T C 0.49
S H 0.67
T H 0.73
N H 0.73
T H 0.77
K H 0.86
Y H 0.88
A H 0.90
Y H 0.95
D H 0.95
T H 0.95
R H 0.95
L H 0.93
D H 0.84
Y H 0.65
S C 0.51
K C 0.64
K C 0.72
D C 0.76
D C 0.81
P C 0.82
S C 0.77
D C 0.62
F E 0.84
L E 0.92
F E 0.92
W E 0.89
I E 0.64
G C 0.53
D C 0.65
L C 0.61
N C 0.51
V C 0.45
R E 0.51
V C 0.53
E C 0.74
T C 0.80
N C 0.77
A H 0.65
T H 0.83
H H 0.88
A H 0.91
K H 0.92
S H 0.92
L H 0.91
V H 0.87
D H 0.79
Q H 0.61
N C 0.62
N C 0.66
I H 0.81
D H 0.86
G H 0.86
L H 0.83
M H 0.81
A H 0.84
F H 0.83
D H 0.80
Q H 0.86
L H 0.88
K H 0.89
K H 0.84
A H 0.80
K H 0.71
E C 0.55
Q C 0.78
K C 0.76
L C 0.63
F C 0.65
D C 0.67
G C 0.68
W C 0.58
T C 0.51
E C 0.53
P C 0.64
Q C 0.65
V C 0.68
T C 0.71
F C 0.73
K C 0.85
P C 0.84
T C 0.66
Y C 0.51
K E 0.49
F C 0.52
K C 0.69
P C 0.83
N C 0.88
T C 0.83
D C 0.78
E C 0.76
Y C 0.75
D C 0.76
L C 0.80
S C 0.77
A C 0.63
T C 0.68
P C 0.67
S C 0.57
W C 0.47
T C 0.46
D E 0.45
R E 0.66
A E 0.72
L E 0.74
Y E 0.72
K C 0.49
S C 0.76
G C 0.84
T C 0.82
G C 0.74
K C 0.62
T C 0.51
I E 0.52
Q E 0.60
P E 0.62
L E 0.56
S E 0.52
Y C 0.43
N C 0.51
S C 0.61
L C 0.66
T C 0.70
N C 0.62
Y C 0.53
K E 0.53
Q C 0.54
T C 0.71
E C 0.76
H C 0.76
R C 0.75
P C 0.56
V E 0.72
L E 0.86
A E 0.90
K E 0.91
F E 0.90
R E 0.88
V E 0.80
T E 0.63
L C 0.89
END