PFRMAT SS
TARGET T0172
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0172.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0172.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0172.t2k.str.rdb  (weight 1.53983)
METHOD T0172.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 T0172.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0172
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 T0172.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 258
METHOD
METHOD ============================================
METHOD Comments from T0172.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0172
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 T0172.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 258
METHOD
METHOD ============================================
METHOD Comments from T0172.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0172
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 T0172.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 258
METHOD
METHOD ============================================
METHOD Comments from T0172.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0172
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 T0172.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 258
METHOD
METHOD ============================================
MODEL 1
M C 0.87
R C 0.70
K C 0.56
Y C 0.59
S C 0.64
Q C 0.60
R C 0.61
H C 0.53
I H 0.52
P H 0.83
V H 0.92
M H 0.94
V H 0.95
R H 0.96
E H 0.96
V H 0.95
I H 0.94
E H 0.90
F H 0.81
L C 0.53
K C 0.84
P C 0.86
E C 0.89
D C 0.85
E C 0.90
K C 0.73
I E 0.82
I E 0.91
L E 0.91
D E 0.89
C E 0.65
T C 0.55
V C 0.76
G C 0.83
E C 0.72
G C 0.53
G H 0.89
H H 0.94
S H 0.95
R H 0.96
A H 0.96
I H 0.95
L H 0.94
E H 0.87
H H 0.69
C C 0.83
P C 0.88
G C 0.93
C C 0.71
R E 0.84
I E 0.92
I E 0.91
G E 0.91
I E 0.85
D E 0.57
V C 0.88
D C 0.90
S H 0.88
E H 0.93
V H 0.95
L H 0.96
R H 0.96
I H 0.96
A H 0.95
E H 0.95
E H 0.94
K H 0.89
L H 0.86
K H 0.81
E H 0.67
F C 0.61
S C 0.87
D C 0.84
R C 0.68
V E 0.65
S E 0.85
L E 0.89
F E 0.84
K E 0.74
V C 0.61
S C 0.74
Y H 0.57
R H 0.59
E H 0.58
A C 0.52
D H 0.49
F H 0.56
L H 0.55
L H 0.56
K H 0.57
T H 0.56
L C 0.59
G C 0.76
I C 0.76
E C 0.81
K C 0.80
V C 0.66
D C 0.58
G E 0.91
I E 0.93
L E 0.92
M E 0.87
D C 0.56
L C 0.82
G C 0.80
V C 0.72
S C 0.75
T C 0.67
Y C 0.68
Q C 0.67
L C 0.67
K C 0.75
G C 0.65
E C 0.56
N C 0.54
R C 0.66
G C 0.77
F C 0.66
T C 0.54
F C 0.53
E C 0.64
R C 0.75
E C 0.82
E C 0.86
P C 0.76
L C 0.63
D C 0.57
M C 0.55
R C 0.59
M C 0.63
D C 0.84
L C 0.80
E C 0.84
S C 0.83
E C 0.85
V C 0.76
T C 0.81
A H 0.90
Q H 0.92
K H 0.92
V H 0.91
L H 0.76
N C 0.51
E C 0.71
L C 0.82
P C 0.83
E H 0.91
E H 0.92
E H 0.92
L H 0.93
A H 0.93
R H 0.93
I H 0.92
I H 0.90
F H 0.86
E H 0.78
Y H 0.59
G C 0.69
E C 0.55
E H 0.55
K H 0.73
R H 0.77
F H 0.79
A H 0.84
R H 0.90
R H 0.91
I H 0.93
A H 0.94
R H 0.94
K H 0.94
I H 0.93
V H 0.91
E H 0.81
N H 0.63
R C 0.80
P C 0.80
L C 0.68
N C 0.62
T C 0.52
T H 0.85
L H 0.93
D H 0.93
L H 0.94
V H 0.95
K H 0.96
A H 0.96
V H 0.95
R H 0.93
E H 0.86
A H 0.75
L C 0.59
P C 0.73
S C 0.58
Y H 0.50
E H 0.57
I H 0.53
R H 0.50
R C 0.56
R C 0.69
K C 0.81
R C 0.84
H C 0.84
F H 0.63
A H 0.73
T H 0.83
K H 0.87
T H 0.89
F H 0.92
Q H 0.93
A H 0.93
I H 0.93
R H 0.92
I H 0.89
Y H 0.84
V H 0.75
N H 0.61
R C 0.53
E C 0.54
L H 0.60
E H 0.72
N H 0.78
L H 0.91
K H 0.94
E H 0.95
F H 0.95
L H 0.95
K H 0.95
K H 0.95
A H 0.94
E H 0.92
D H 0.85
L H 0.61
L C 0.61
N C 0.83
P C 0.73
G C 0.80
G C 0.52
R E 0.80
I E 0.92
V E 0.93
V E 0.92
I E 0.87
S E 0.74
F C 0.61
H C 0.83
S C 0.87
L C 0.51
E H 0.55
D H 0.75
R H 0.87
I H 0.91
V H 0.94
K H 0.95
E H 0.95
T H 0.94
F H 0.93
R H 0.87
N H 0.66
S C 0.67
K C 0.70
K C 0.62
L C 0.57
R C 0.49
I E 0.46
L E 0.43
T C 0.50
E C 0.63
K C 0.76
P C 0.75
V C 0.67
R C 0.80
P C 0.89
S C 0.91
E H 0.92
E H 0.94
E H 0.93
I H 0.94
R H 0.90
E H 0.78
N C 0.70
P C 0.65
R C 0.66
A C 0.67
R C 0.60
S C 0.51
G H 0.46
R H 0.52
L H 0.45
R H 0.49
A H 0.48
A H 0.48
E H 0.47
R H 0.41
I C 0.46
E C 0.72
E C 0.84
G C 0.85
G C 0.89
D C 0.92
END