PFRMAT SS
TARGET T0470
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0470.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0470.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0470.t2k.str.rdb  (weight 1.53983)
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 T0470.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0470
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 T0470.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 240
METHOD
METHOD ============================================
METHOD Comments from T0470.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0470
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 T0470.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 240
METHOD
METHOD ============================================
METHOD Comments from T0470.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0470
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 T0470.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 240
METHOD
METHOD ============================================
MODEL 1
M C 0.96
T C 0.85
K H 0.78
Q H 0.92
E H 0.94
K H 0.95
I H 0.97
E H 0.97
K H 0.97
T H 0.97
I H 0.97
T H 0.97
F H 0.97
V H 0.97
K H 0.97
H H 0.94
I H 0.90
L H 0.73
E H 0.50
K C 0.70
D C 0.81
A C 0.86
S C 0.80
G C 0.75
H C 0.72
D C 0.58
W H 0.91
Y H 0.96
H H 0.97
I H 0.98
R H 0.98
R H 0.98
V H 0.98
H H 0.98
K H 0.98
M H 0.97
A H 0.97
I H 0.97
S H 0.97
L H 0.96
S H 0.95
E H 0.91
Q H 0.83
E H 0.54
G C 0.93
G C 0.95
N C 0.93
R H 0.92
F H 0.96
I H 0.97
I H 0.97
E H 0.97
M H 0.97
A H 0.97
A H 0.95
L H 0.90
L H 0.82
H H 0.68
D H 0.53
V H 0.50
A C 0.60
D C 0.73
E C 0.62
K C 0.61
L C 0.66
N C 0.78
E C 0.83
S C 0.71
E C 0.58
E H 0.55
A H 0.69
G H 0.77
M H 0.92
K H 0.95
K H 0.96
V H 0.97
S H 0.97
D H 0.96
W H 0.96
L H 0.96
E H 0.93
E H 0.81
L C 0.63
H C 0.97
V C 0.98
E C 0.98
E H 0.90
E H 0.94
E H 0.97
S H 0.97
K H 0.98
H H 0.97
V H 0.98
L H 0.98
H H 0.97
I H 0.97
I H 0.97
A H 0.94
N H 0.84
M H 0.67
S C 0.56
Y C 0.60
K C 0.63
G C 0.66
G C 0.74
H C 0.76
G C 0.79
G C 0.81
K C 0.88
V C 0.88
E C 0.84
S C 0.85
I H 0.89
E H 0.94
G H 0.94
K H 0.93
L H 0.91
V H 0.89
Q H 0.81
D H 0.73
A H 0.87
D H 0.78
R H 0.87
L H 0.87
D H 0.82
A H 0.77
L H 0.57
G C 0.74
A C 0.58
I H 0.78
G H 0.89
I H 0.94
A H 0.94
R H 0.96
T H 0.96
F H 0.96
A H 0.94
Y H 0.89
G H 0.78
G H 0.55
A C 0.54
K C 0.74
G C 0.89
R C 0.85
L C 0.66
M C 0.69
Y C 0.70
D C 0.90
P C 0.88
T C 0.89
I C 0.90
P C 0.87
P C 0.60
R C 0.52
E C 0.53
V C 0.64
M C 0.70
T C 0.72
K H 0.71
D H 0.72
E H 0.68
Y H 0.61
R H 0.53
K C 0.61
N C 0.78
N C 0.62
D H 0.50
P H 0.59
S H 0.77
L H 0.91
N H 0.94
H H 0.94
F H 0.96
Y H 0.97
E H 0.96
K H 0.96
L H 0.95
L H 0.92
K H 0.75
L H 0.76
K H 0.86
D H 0.78
L H 0.77
M C 0.49
N C 0.73
T C 0.81
N H 0.93
A H 0.96
A H 0.97
K H 0.97
Q H 0.97
E H 0.97
A H 0.96
E H 0.97
V H 0.95
R H 0.96
H H 0.97
R H 0.97
Y H 0.97
M H 0.97
E H 0.98
Q H 0.97
F H 0.97
I H 0.97
E H 0.97
Q H 0.97
F H 0.97
M H 0.96
K H 0.92
E H 0.85
W H 0.72
N C 0.55
A C 0.71
Q C 0.66
I C 0.64
L C 0.61
E C 0.66
H C 0.63
H C 0.65
H C 0.62
H C 0.69
H C 0.81
H C 0.98
END