PFRMAT SS
TARGET T0154
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0154.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0154.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0154.t2k.str.rdb  (weight 1.53983)
METHOD T0154.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 T0154.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0154
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 T0154.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 44
METHOD
METHOD ============================================
METHOD Comments from T0154.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0154
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 T0154.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 44
METHOD
METHOD ============================================
METHOD Comments from T0154.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0154
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 T0154.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 44
METHOD
METHOD ============================================
METHOD Comments from T0154.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0154
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 T0154.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 44
METHOD
METHOD ============================================
MODEL 1
M C 0.89
T C 0.75
I C 0.74
P C 0.72
A C 0.65
F C 0.67
H C 0.81
P C 0.79
G C 0.78
E C 0.70
L C 0.63
N E 0.51
V E 0.66
Y E 0.65
S C 0.45
A C 0.76
P H 0.91
G H 0.93
D H 0.95
V H 0.96
A H 0.96
D H 0.96
V H 0.95
S H 0.95
R H 0.95
A H 0.94
L H 0.94
R H 0.92
L H 0.85
T C 0.59
G C 0.95
R C 0.88
R E 0.58
V E 0.83
M E 0.85
L E 0.87
V E 0.67
P C 0.55
T C 0.62
M C 0.50
G H 0.57
A H 0.69
L H 0.75
H H 0.78
E H 0.82
G H 0.83
H H 0.94
L H 0.96
A H 0.96
L H 0.96
V H 0.96
R H 0.96
A H 0.95
A H 0.93
K H 0.85
R H 0.63
V C 0.58
P C 0.81
G C 0.89
S C 0.87
V E 0.73
V E 0.92
V E 0.93
V E 0.92
S E 0.89
I E 0.78
F E 0.70
V C 0.52
N C 0.77
P C 0.54
M C 0.47
Q C 0.42
F C 0.75
G C 0.86
A C 0.78
G C 0.74
E C 0.71
D C 0.66
L H 0.65
D H 0.54
A C 0.56
Y C 0.81
P C 0.82
R C 0.81
T C 0.84
P H 0.82
D H 0.93
D H 0.94
D H 0.94
L H 0.95
A H 0.95
Q H 0.95
L H 0.95
R H 0.94
A H 0.91
E C 0.58
G C 0.94
V C 0.88
E C 0.52
I E 0.91
A E 0.92
F E 0.90
T E 0.77
P C 0.77
T C 0.87
T H 0.75
A H 0.79
A H 0.79
M H 0.48
Y C 0.74
P C 0.79
D C 0.86
G C 0.88
L C 0.77
R C 0.50
T E 0.70
T E 0.80
V E 0.75
Q E 0.56
P C 0.70
G C 0.73
P C 0.63
L C 0.49
A H 0.49
A H 0.51
E H 0.54
L C 0.50
E C 0.68
G C 0.82
G C 0.83
P C 0.81
R C 0.83
P C 0.79
T C 0.73
H C 0.58
F C 0.49
A H 0.57
G H 0.68
V H 0.82
L H 0.85
T H 0.85
V H 0.86
V H 0.90
L H 0.91
K H 0.91
L H 0.87
L H 0.82
Q H 0.64
I H 0.49
V C 0.71
R C 0.86
P C 0.75
D C 0.68
R E 0.37
V E 0.46
F E 0.46
F C 0.55
G C 0.77
E C 0.60
K C 0.51
D H 0.75
Y H 0.88
Q H 0.93
Q H 0.94
L H 0.96
V H 0.96
L H 0.96
I H 0.96
R H 0.96
Q H 0.96
L H 0.95
V H 0.94
A H 0.89
D H 0.75
F C 0.52
N C 0.86
L C 0.86
D C 0.72
V E 0.67
A E 0.88
V E 0.89
V E 0.82
G E 0.69
V C 0.54
P C 0.52
T E 0.61
V E 0.71
R E 0.68
E C 0.59
A C 0.76
D C 0.88
G C 0.83
L C 0.60
A E 0.56
M E 0.52
S C 0.46
S C 0.52
R C 0.60
N C 0.62
R C 0.63
Y C 0.68
L C 0.88
D C 0.91
P H 0.90
A H 0.91
Q H 0.92
R H 0.94
A H 0.93
A H 0.91
A H 0.91
V H 0.93
A H 0.93
L H 0.95
S H 0.96
A H 0.96
A H 0.96
L H 0.96
T H 0.95
A H 0.95
A H 0.95
A H 0.95
H H 0.95
A H 0.95
A H 0.93
T H 0.86
A C 0.53
G C 0.84
A C 0.77
Q C 0.66
A C 0.66
A H 0.88
L H 0.93
D H 0.95
A H 0.95
A H 0.95
R H 0.95
A H 0.94
V H 0.93
L H 0.91
D H 0.78
A H 0.66
A C 0.66
P C 0.77
G C 0.86
V C 0.82
A C 0.58
V C 0.52
D E 0.64
Y E 0.88
L E 0.92
E E 0.92
L E 0.91
R E 0.77
D C 0.55
I C 0.68
G C 0.73
L C 0.68
G C 0.85
P C 0.83
M C 0.73
P C 0.74
L C 0.76
N C 0.79
G C 0.81
S C 0.74
G E 0.62
R E 0.86
L E 0.91
L E 0.91
V E 0.90
A E 0.85
A E 0.81
R E 0.70
L E 0.48
G C 0.79
T C 0.78
T C 0.50
R E 0.70
L E 0.76
L E 0.71
D E 0.57
N C 0.53
I E 0.53
A E 0.67
I E 0.58
E C 0.67
I C 0.73
G C 0.72
T C 0.58
F C 0.54
A C 0.63
G C 0.76
T C 0.78
D C 0.79
R C 0.87
P C 0.70
D C 0.59
G H 0.59
Y H 0.76
R H 0.81
A H 0.83
I H 0.81
L H 0.79
E H 0.76
S H 0.68
H H 0.54
W C 0.45
R C 0.70
N C 0.92
END