PFRMAT SS
TARGET T0183
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0183.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0183.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0183.t2k.str.rdb  (weight 1.53983)
METHOD T0183.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 T0183.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0183
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 T0183.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 52
METHOD
METHOD ============================================
METHOD Comments from T0183.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0183
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 T0183.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 52
METHOD
METHOD ============================================
METHOD Comments from T0183.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0183
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 T0183.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 52
METHOD
METHOD ============================================
METHOD Comments from T0183.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0183
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 T0183.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 52
METHOD
METHOD ============================================
MODEL 1
M C 0.89
I C 0.82
E H 0.71
Y H 0.86
R H 0.93
I H 0.94
E H 0.94
E H 0.94
A H 0.93
V H 0.91
A H 0.85
K H 0.72
Y H 0.64
R H 0.60
E H 0.55
F C 0.47
Y C 0.50
E C 0.49
F C 0.65
K C 0.77
P C 0.50
V H 0.68
R H 0.66
E H 0.67
S H 0.74
A H 0.73
G H 0.80
I H 0.90
E H 0.92
D H 0.93
V H 0.93
K H 0.93
S H 0.90
A H 0.88
I H 0.82
E H 0.77
H H 0.70
T H 0.52
N C 0.68
L C 0.80
K C 0.88
P C 0.78
F C 0.86
A C 0.88
T C 0.91
P H 0.92
D H 0.95
D H 0.95
I H 0.96
K H 0.96
K H 0.96
L H 0.96
C H 0.96
L H 0.95
E H 0.95
A H 0.93
R H 0.89
E H 0.73
N C 0.62
R C 0.90
F C 0.81
H E 0.59
G E 0.87
V E 0.91
C E 0.89
V E 0.68
N C 0.76
P C 0.56
C H 0.58
Y H 0.69
V H 0.86
K H 0.95
L H 0.95
A H 0.95
R H 0.95
E H 0.95
E H 0.92
L H 0.85
E H 0.75
G C 0.54
T C 0.80
D C 0.90
V C 0.67
K E 0.77
V E 0.91
V E 0.91
T E 0.88
V E 0.81
V C 0.48
G C 0.72
F C 0.78
P C 0.79
L C 0.83
G C 0.87
A C 0.82
N C 0.76
E H 0.47
T H 0.78
R H 0.90
T H 0.91
K H 0.94
A H 0.95
H H 0.96
E H 0.96
A H 0.96
I H 0.96
F H 0.95
A H 0.94
V H 0.92
E H 0.83
S C 0.62
G C 0.86
A C 0.85
D C 0.69
E E 0.57
I E 0.69
D E 0.73
M E 0.83
V E 0.73
I E 0.58
N C 0.62
V H 0.72
G H 0.80
M H 0.84
L H 0.83
K H 0.69
A C 0.53
K C 0.84
E C 0.70
W H 0.88
E H 0.93
Y H 0.94
V H 0.95
Y H 0.96
E H 0.96
D H 0.96
I H 0.96
R H 0.96
S H 0.96
V H 0.96
V H 0.95
E H 0.93
S H 0.86
V H 0.55
K C 0.75
G C 0.88
K C 0.73
V E 0.63
V E 0.85
K E 0.86
V E 0.88
I E 0.84
I E 0.75
E E 0.62
T C 0.45
C C 0.56
Y C 0.61
L C 0.78
D C 0.87
T H 0.85
E H 0.92
E H 0.94
K H 0.96
I H 0.96
A H 0.96
A H 0.96
C H 0.96
V H 0.96
I H 0.96
S H 0.96
K H 0.95
L H 0.91
A H 0.52
G C 0.90
A C 0.89
H C 0.77
F E 0.62
V E 0.68
K E 0.65
T C 0.56
S C 0.75
T C 0.81
G C 0.86
F C 0.81
G C 0.78
T C 0.79
G C 0.83
G C 0.88
A C 0.86
T C 0.82
A H 0.94
E H 0.96
D H 0.96
V H 0.96
H H 0.96
L H 0.96
M H 0.96
K H 0.96
W H 0.95
I H 0.90
V H 0.75
G H 0.55
D C 0.56
E C 0.68
M C 0.74
G C 0.76
V E 0.50
K E 0.57
A C 0.50
S C 0.70
G C 0.81
G C 0.77
I C 0.68
R C 0.73
T C 0.85
F H 0.93
E H 0.95
D H 0.95
A H 0.96
V H 0.96
K H 0.96
M H 0.96
I H 0.95
M H 0.94
Y H 0.89
G H 0.84
A H 0.82
D H 0.81
R H 0.75
I H 0.57
G C 0.59
T C 0.52
S H 0.54
S H 0.72
G H 0.84
V H 0.92
K H 0.93
I H 0.94
V H 0.91
Q H 0.84
G H 0.70
G H 0.68
E H 0.66
E H 0.66
R H 0.50
Y C 0.66
G C 0.87
G C 0.93
END