PFRMAT SS
TARGET T0162
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0162.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0162.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0162.t2k.str.rdb  (weight 1.53983)
METHOD T0162.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 T0162.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0162
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 T0162.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 21
METHOD
METHOD ============================================
METHOD Comments from T0162.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0162
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 T0162.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 21
METHOD
METHOD ============================================
METHOD Comments from T0162.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0162
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 T0162.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 21
METHOD
METHOD ============================================
METHOD Comments from T0162.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0162
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 T0162.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 21
METHOD
METHOD ============================================
MODEL 1
M C 0.84
A C 0.72
D C 0.75
F C 0.51
E C 0.51
D C 0.58
R C 0.59
V C 0.74
S C 0.83
D H 0.88
E H 0.95
E H 0.95
K H 0.96
V H 0.96
R H 0.96
I H 0.95
A H 0.95
A H 0.95
K H 0.95
F H 0.93
I H 0.89
T H 0.74
H C 0.49
A C 0.80
P C 0.92
P C 0.69
G C 0.55
E H 0.66
F H 0.79
N H 0.83
E H 0.86
V H 0.88
F H 0.90
N H 0.92
D H 0.93
V H 0.95
R H 0.95
L H 0.94
L H 0.89
L H 0.74
N C 0.56
N C 0.70
D H 0.73
N H 0.83
L H 0.87
L H 0.85
R H 0.82
E H 0.81
G H 0.78
A H 0.86
A H 0.91
H H 0.91
A H 0.92
F H 0.92
A H 0.91
Q H 0.85
Y H 0.71
N C 0.57
M C 0.66
D C 0.81
Q C 0.76
F C 0.71
T E 0.49
P E 0.71
V E 0.81
K E 0.83
I E 0.69
E C 0.59
G C 0.81
Y C 0.76
D C 0.77
D C 0.79
Q C 0.52
V E 0.87
L E 0.91
I E 0.90
T E 0.63
E C 0.62
H C 0.76
G C 0.78
D C 0.71
L C 0.73
G C 0.85
N C 0.86
G C 0.68
R E 0.68
F E 0.80
L E 0.76
D C 0.56
P C 0.75
R C 0.77
N C 0.64
K C 0.59
I E 0.65
S E 0.85
F E 0.87
K E 0.86
F E 0.69
D E 0.50
H E 0.45
L H 0.46
R H 0.48
K H 0.52
E H 0.51
A H 0.49
S C 0.53
D C 0.75
P C 0.75
Q C 0.79
P C 0.72
E C 0.69
D C 0.71
T C 0.63
E C 0.50
S H 0.53
A H 0.62
L H 0.79
K H 0.87
Q H 0.88
W H 0.90
R H 0.93
D H 0.95
A H 0.95
C H 0.95
D H 0.96
S H 0.96
A H 0.96
L H 0.96
R H 0.96
A H 0.95
Y H 0.94
V H 0.93
K H 0.91
D H 0.80
H H 0.62
Y C 0.84
P C 0.85
N C 0.90
G C 0.87
F C 0.65
C E 0.60
T E 0.72
V E 0.80
Y E 0.86
G E 0.83
K E 0.82
S E 0.68
I C 0.58
D C 0.83
G C 0.83
Q C 0.60
Q E 0.74
T E 0.90
I E 0.92
I E 0.93
A E 0.93
C E 0.92
I E 0.90
E E 0.78
S E 0.54
H C 0.56
Q C 0.60
F C 0.59
Q C 0.81
P C 0.79
K C 0.77
N C 0.66
F C 0.64
W C 0.61
N C 0.72
G C 0.72
R E 0.49
W E 0.74
R E 0.74
S E 0.84
E E 0.89
W E 0.90
K E 0.90
F E 0.89
T E 0.84
I E 0.65
T C 0.66
P C 0.85
P C 0.86
T C 0.69
A C 0.49
Q E 0.76
V E 0.86
A E 0.83
A E 0.86
V E 0.91
L E 0.92
K E 0.92
I E 0.92
Q E 0.90
V E 0.90
H E 0.85
Y E 0.83
Y E 0.66
E C 0.60
D C 0.78
G C 0.75
N E 0.50
V E 0.86
Q E 0.88
L E 0.89
V E 0.83
S E 0.69
H C 0.54
K C 0.65
D C 0.56
I C 0.46
Q C 0.53
D C 0.51
S C 0.52
V E 0.53
Q E 0.58
V E 0.44
S C 0.64
S C 0.77
D H 0.52
V H 0.69
Q H 0.75
T H 0.81
A H 0.93
K H 0.95
E H 0.95
F H 0.96
I H 0.96
K H 0.96
I H 0.96
I H 0.96
E H 0.95
N H 0.92
A H 0.91
E H 0.92
N H 0.93
E H 0.93
Y H 0.94
Q H 0.95
T H 0.95
A H 0.94
I H 0.93
S H 0.91
E H 0.85
N H 0.74
Y H 0.61
Q H 0.55
T C 0.49
M C 0.66
S C 0.66
D H 0.70
T H 0.76
T H 0.76
F H 0.81
K H 0.86
A H 0.87
L H 0.85
R H 0.83
R H 0.68
Q C 0.49
L C 0.84
P C 0.86
V C 0.65
T C 0.50
R E 0.43
T E 0.44
K E 0.51
I C 0.49
D C 0.71
W H 0.50
N C 0.54
K C 0.47
I C 0.56
L E 0.47
S E 0.71
Y E 0.72
K E 0.69
I E 0.48
G C 0.47
K H 0.49
E H 0.50
M H 0.45
Q C 0.58
N C 0.80
A C 0.92
END