PFRMAT SS
TARGET T0518
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0518.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0518.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0518.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 T0518.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0518
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 T0518.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 363
METHOD
METHOD ============================================
METHOD Comments from T0518.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0518
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 T0518.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 363
METHOD
METHOD ============================================
METHOD Comments from T0518.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0518
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 T0518.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 363
METHOD
METHOD ============================================
MODEL 1
M C 0.97
K C 0.84
K C 0.81
V C 0.78
F C 0.74
Y C 0.51
P H 0.47
L H 0.55
A H 0.57
C H 0.56
C H 0.49
C H 0.41
L C 0.47
A C 0.61
A C 0.81
G C 0.90
V C 0.80
F C 0.59
A E 0.49
S C 0.51
C C 0.54
G C 0.63
G C 0.68
Q C 0.48
K E 0.65
K E 0.70
A E 0.63
N E 0.49
A H 0.35
Q C 0.43
E H 0.47
E H 0.59
P H 0.75
S H 0.83
K H 0.86
V H 0.89
A H 0.91
L H 0.92
S H 0.92
Y H 0.91
S H 0.89
K H 0.87
S H 0.85
L H 0.85
K H 0.84
A H 0.79
P H 0.74
E H 0.66
T H 0.60
D H 0.52
S C 0.49
L C 0.54
N C 0.58
L C 0.51
P C 0.49
V C 0.55
D C 0.55
E C 0.58
N C 0.66
G C 0.81
Y C 0.60
I E 0.45
T E 0.54
I E 0.41
F C 0.55
D C 0.81
G C 0.81
E C 0.70
T C 0.66
F C 0.69
N C 0.73
G C 0.66
W C 0.48
R E 0.57
G E 0.59
Y C 0.56
G C 0.76
K C 0.81
D C 0.82
R C 0.80
V C 0.78
P C 0.75
T C 0.72
K C 0.49
W E 0.79
T E 0.94
I E 0.87
E E 0.57
D C 0.83
G C 0.76
C E 0.86
I E 0.95
K E 0.94
F E 0.90
N E 0.62
G C 0.71
S C 0.87
G C 0.86
G C 0.78
G C 0.67
E C 0.63
A C 0.67
Q C 0.70
D C 0.80
G C 0.80
D C 0.80
G C 0.79
G C 0.60
D E 0.62
L E 0.86
I E 0.87
F E 0.77
A E 0.52
H C 0.55
K C 0.49
F C 0.54
K C 0.75
N C 0.55
F E 0.90
E E 0.96
L E 0.98
E E 0.98
L E 0.98
E E 0.97
W E 0.96
K E 0.94
V E 0.77
A C 0.76
K C 0.95
G C 0.93
S C 0.87
N C 0.71
S E 0.54
G E 0.79
I E 0.92
L E 0.96
Y E 0.96
L E 0.89
A E 0.68
Q C 0.55
E C 0.75
V C 0.80
T C 0.80
S C 0.80
K C 0.73
D C 0.76
K C 0.71
D C 0.74
G C 0.75
N C 0.73
D C 0.73
V C 0.70
L C 0.70
E C 0.73
P C 0.71
I C 0.65
Y C 0.61
I C 0.60
S C 0.62
A C 0.54
P E 0.61
E E 0.83
Y E 0.89
Q E 0.89
I E 0.82
L E 0.56
D C 0.79
N C 0.89
A C 0.88
N C 0.86
H C 0.80
P C 0.62
D C 0.58
A C 0.55
K C 0.59
L C 0.65
G C 0.79
K C 0.77
D C 0.77
N C 0.71
N C 0.66
R C 0.56
Q C 0.44
S C 0.44
A C 0.53
S C 0.50
L C 0.46
Y C 0.50
D C 0.65
M C 0.69
I C 0.74
P C 0.81
A C 0.83
V C 0.77
P C 0.67
Q C 0.67
N C 0.73
S C 0.74
K C 0.84
P C 0.89
F C 0.91
G C 0.89
E C 0.58
W E 0.66
N E 0.81
K E 0.89
A E 0.95
K E 0.97
I E 0.98
M E 0.98
V E 0.97
Y E 0.88
K C 0.77
G C 0.88
T E 0.69
V E 0.96
V E 0.98
H E 0.98
G E 0.98
Q E 0.95
N C 0.82
D C 0.91
E E 0.78
N E 0.93
V E 0.95
L E 0.93
E E 0.85
Y E 0.60
H C 0.61
L C 0.74
W C 0.85
T C 0.82
K H 0.52
Q H 0.59
W H 0.69
T H 0.74
D H 0.73
M H 0.73
L H 0.71
Q H 0.59
A C 0.51
S C 0.70
K C 0.70
F C 0.67
S C 0.70
E C 0.76
D C 0.82
K C 0.81
W C 0.77
P C 0.67
L C 0.56
A C 0.46
F H 0.45
E C 0.47
L C 0.54
L C 0.65
N C 0.73
N C 0.76
C C 0.75
G C 0.83
G C 0.77
E C 0.75
N C 0.82
H C 0.81
E C 0.79
G C 0.72
F E 0.54
I E 0.86
G E 0.89
L E 0.90
Q E 0.82
D E 0.65
H C 0.69
G C 0.88
D C 0.88
D C 0.64
V E 0.74
W E 0.89
F E 0.90
R E 0.77
N E 0.74
I E 0.79
R E 0.87
V E 0.87
K E 0.76
V C 0.51
L C 0.89
D C 0.98
END