PFRMAT SS
TARGET T0448
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0448.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0448.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0448.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 T0448.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0448
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 T0448.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 124
METHOD
METHOD ============================================
METHOD Comments from T0448.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0448
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 T0448.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 124
METHOD
METHOD ============================================
METHOD Comments from T0448.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0448
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 T0448.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 124
METHOD
METHOD ============================================
MODEL 1
M C 0.96
I C 0.63
A C 0.48
M C 0.41
I H 0.35
V E 0.36
K H 0.35
G H 0.40
G H 0.50
L H 0.60
A H 0.66
M H 0.69
A H 0.64
I H 0.58
S H 0.53
N C 0.55
G C 0.68
H C 0.73
V C 0.79
S C 0.84
F C 0.86
K C 0.67
R E 0.84
P E 0.96
A E 0.97
W E 0.96
L E 0.85
G C 0.52
D C 0.80
S C 0.71
I C 0.58
T C 0.55
A C 0.62
N C 0.73
N C 0.78
G C 0.81
L C 0.81
A C 0.82
T C 0.82
V C 0.76
H C 0.66
Y C 0.60
H H 0.74
D H 0.91
I H 0.93
L H 0.94
A H 0.94
A H 0.93
D H 0.85
W H 0.72
D C 0.62
V C 0.89
E C 0.74
R E 0.67
S E 0.88
D E 0.90
N E 0.81
L E 0.55
G C 0.57
I C 0.66
S C 0.73
G C 0.65
S C 0.48
T H 0.54
I H 0.70
G H 0.64
S H 0.63
R H 0.66
Y H 0.67
D H 0.65
A H 0.64
M H 0.59
A H 0.56
V H 0.49
R H 0.56
Y H 0.63
Q H 0.66
A H 0.65
I H 0.60
P C 0.56
E C 0.75
D C 0.89
A C 0.94
D C 0.84
F E 0.96
I E 0.98
A E 0.98
V E 0.98
F E 0.87
G C 0.51
G C 0.67
V C 0.66
N C 0.62
D C 0.63
Y C 0.63
G C 0.66
R C 0.73
D C 0.77
Q C 0.77
P C 0.74
L C 0.70
G C 0.74
Q C 0.75
Y C 0.77
G C 0.84
D C 0.84
C C 0.81
D C 0.88
M H 0.91
T H 0.93
T H 0.94
F H 0.94
Y H 0.96
G H 0.96
A H 0.97
L H 0.98
M H 0.98
M H 0.97
L H 0.98
L H 0.98
T H 0.97
G H 0.96
L H 0.95
Q H 0.91
T H 0.73
N C 0.55
W C 0.92
P C 0.92
T C 0.80
V E 0.59
P E 0.90
K E 0.97
L E 0.97
F E 0.95
I E 0.82
S C 0.51
A C 0.69
I C 0.74
H C 0.76
I C 0.79
G C 0.77
S C 0.62
D C 0.57
F C 0.59
G C 0.70
G C 0.75
S C 0.71
F C 0.68
S C 0.63
A C 0.56
V H 0.52
T H 0.57
N H 0.57
G H 0.60
L H 0.66
G H 0.71
Y H 0.79
R H 0.82
Q H 0.90
S H 0.91
D H 0.92
Y H 0.95
E H 0.97
A H 0.97
A H 0.97
I H 0.97
A H 0.97
Q H 0.97
M H 0.97
T H 0.96
A H 0.94
D H 0.86
Y C 0.57
G C 0.97
V C 0.94
P C 0.71
H E 0.73
L E 0.82
S E 0.67
L C 0.46
Y C 0.53
R H 0.52
D H 0.56
A H 0.51
G C 0.49
M C 0.51
T C 0.59
F C 0.58
A C 0.62
I C 0.61
P H 0.51
A H 0.52
Q H 0.57
A H 0.65
A H 0.60
I H 0.51
Y C 0.58
S C 0.74
V C 0.79
D C 0.84
T C 0.86
L C 0.79
H C 0.81
P C 0.84
N C 0.90
N H 0.93
A H 0.96
G H 0.96
H H 0.97
R H 0.98
V H 0.97
I H 0.97
A H 0.98
R H 0.97
K H 0.97
L H 0.97
Q H 0.97
S H 0.97
F H 0.96
L H 0.95
D H 0.90
S H 0.80
H H 0.68
F H 0.50
L C 0.56
E C 0.61
H C 0.69
H C 0.71
H C 0.75
H C 0.77
H C 0.86
H C 0.98
END