PFRMAT SS
TARGET T0149
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0149.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0149.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0149.t2k.str.rdb  (weight 1.53983)
METHOD T0149.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 T0149.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0149
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 T0149.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 106
METHOD
METHOD ============================================
METHOD Comments from T0149.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0149
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 T0149.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 106
METHOD
METHOD ============================================
METHOD Comments from T0149.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0149
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 T0149.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 106
METHOD
METHOD ============================================
METHOD Comments from T0149.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0149
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 T0149.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 106
METHOD
METHOD ============================================
MODEL 1
M C 0.91
N C 0.85
P C 0.74
I C 0.74
A C 0.54
V E 0.89
T E 0.91
L E 0.92
L E 0.87
T E 0.68
G C 0.66
F C 0.76
L C 0.83
G C 0.86
A C 0.82
G C 0.81
K H 0.80
T H 0.91
T H 0.95
L H 0.95
L H 0.96
R H 0.96
H H 0.95
I H 0.94
L H 0.91
N H 0.79
E H 0.51
Q C 0.79
H C 0.86
G C 0.91
Y C 0.81
K E 0.59
I E 0.87
A E 0.92
V E 0.93
I E 0.92
E E 0.86
N E 0.68
E C 0.53
F C 0.67
G C 0.73
E C 0.61
V C 0.53
S C 0.64
V C 0.60
D C 0.54
D H 0.83
Q H 0.87
L H 0.85
I H 0.77
G H 0.67
D H 0.48
R C 0.68
A C 0.87
T C 0.69
Q E 0.55
I E 0.79
K E 0.82
T E 0.82
L E 0.64
T C 0.58
N C 0.79
G C 0.81
C C 0.65
I C 0.49
C C 0.51
C C 0.60
S C 0.71
R C 0.60
S H 0.57
N H 0.76
E H 0.81
L H 0.89
E H 0.94
D H 0.94
A H 0.95
L H 0.95
L H 0.95
D H 0.94
L H 0.93
L H 0.90
D H 0.85
N H 0.79
L H 0.72
D H 0.70
K H 0.53
G C 0.57
N C 0.72
I C 0.80
Q C 0.85
F C 0.83
D C 0.71
R E 0.91
L E 0.93
V E 0.93
I E 0.91
E E 0.72
C C 0.63
T C 0.77
G C 0.77
M C 0.73
A C 0.75
D C 0.79
P C 0.59
G H 0.68
P H 0.77
I H 0.89
I H 0.90
Q H 0.89
T H 0.85
F H 0.73
F H 0.62
S H 0.47
H C 0.59
E C 0.50
V C 0.54
L C 0.60
C C 0.60
Q C 0.57
R C 0.52
Y C 0.48
L E 0.49
L C 0.46
D C 0.62
G E 0.53
V E 0.86
I E 0.91
A E 0.92
L E 0.92
V E 0.85
D E 0.63
A C 0.52
V H 0.49
H H 0.60
A H 0.51
D C 0.50
E C 0.59
Q C 0.69
M C 0.65
N C 0.59
Q H 0.55
F H 0.73
T H 0.79
I H 0.79
A H 0.79
Q H 0.88
S H 0.87
Q H 0.85
V H 0.78
G H 0.72
Y C 0.47
A C 0.67
D C 0.77
R E 0.88
I E 0.93
L E 0.93
L E 0.88
T E 0.58
K C 0.69
T C 0.62
D C 0.58
V C 0.70
A C 0.77
G C 0.81
E C 0.53
A H 0.60
E H 0.75
K H 0.84
L H 0.90
H H 0.94
E H 0.95
R H 0.95
L H 0.94
A H 0.92
R H 0.84
I H 0.63
N C 0.84
A C 0.83
R C 0.87
A C 0.80
P E 0.55
V E 0.83
Y E 0.84
T E 0.77
V C 0.48
T C 0.75
H C 0.77
G C 0.80
D C 0.74
I C 0.72
D C 0.86
L H 0.79
G H 0.84
L H 0.85
L H 0.73
F H 0.55
N C 0.60
T C 0.65
N C 0.69
G C 0.61
F C 0.59
M C 0.63
L C 0.67
E C 0.69
E C 0.66
N C 0.63
V C 0.57
V C 0.57
S C 0.53
T C 0.54
K C 0.60
P C 0.64
R C 0.66
F C 0.66
H C 0.71
F C 0.71
I C 0.56
A C 0.52
D C 0.50
K C 0.53
Q C 0.62
N C 0.72
D C 0.82
I C 0.65
S C 0.56
S E 0.62
I E 0.78
V E 0.86
V E 0.85
E E 0.75
L C 0.50
D C 0.76
Y C 0.82
P C 0.79
V C 0.76
D C 0.87
I H 0.90
S H 0.93
E H 0.94
V H 0.95
S H 0.95
R H 0.94
V H 0.94
M H 0.92
E H 0.86
N H 0.78
L H 0.73
L H 0.69
L H 0.67
E H 0.57
S C 0.55
A C 0.73
D C 0.77
K C 0.71
L E 0.49
L E 0.74
R E 0.83
Y E 0.85
K E 0.76
G E 0.76
M E 0.86
L E 0.88
W E 0.84
I E 0.64
D C 0.76
G C 0.88
E C 0.82
P C 0.72
N C 0.54
R E 0.72
L E 0.85
L E 0.88
F E 0.87
Q E 0.79
G E 0.67
V E 0.55
Q C 0.50
R C 0.50
L E 0.51
Y E 0.55
S C 0.54
A C 0.64
D C 0.76
W C 0.73
D C 0.72
R C 0.70
P C 0.66
W C 0.69
G C 0.75
D C 0.74
E C 0.81
K C 0.80
P C 0.73
H C 0.73
S C 0.64
T E 0.77
M E 0.90
V E 0.92
F E 0.92
I E 0.83
G C 0.50
I C 0.77
Q C 0.83
L C 0.86
P C 0.91
E H 0.89
E H 0.94
E H 0.95
I H 0.95
R H 0.95
A H 0.93
A H 0.91
F H 0.89
A H 0.85
G H 0.72
L H 0.50
R C 0.65
K C 0.91
END