PFRMAT SS
TARGET T0179
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0179.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0179.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0179.t2k.str.rdb  (weight 1.53983)
METHOD T0179.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 T0179.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0179
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 T0179.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 135
METHOD
METHOD ============================================
METHOD Comments from T0179.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0179
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 T0179.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 135
METHOD
METHOD ============================================
METHOD Comments from T0179.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0179
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 T0179.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 135
METHOD
METHOD ============================================
METHOD Comments from T0179.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0179
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 T0179.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 135
METHOD
METHOD ============================================
MODEL 1
M C 0.89
S C 0.81
E C 0.69
L C 0.57
W E 0.48
Y E 0.61
T E 0.63
E E 0.57
K E 0.45
Q C 0.57
T C 0.79
K C 0.86
N C 0.88
F C 0.62
G E 0.68
I E 0.83
T E 0.89
M E 0.88
K E 0.87
V E 0.73
N E 0.60
K E 0.57
T E 0.55
L E 0.56
H E 0.44
T C 0.45
E C 0.62
Q C 0.75
T C 0.85
E C 0.78
F C 0.71
Q C 0.52
H E 0.72
L E 0.88
E E 0.92
M E 0.92
V E 0.89
E E 0.85
T E 0.58
E C 0.76
E C 0.78
F C 0.74
G C 0.78
N E 0.51
M E 0.87
L E 0.92
F E 0.91
L E 0.85
D C 0.57
G C 0.72
M E 0.62
V E 0.78
M E 0.76
T E 0.75
S C 0.47
E C 0.66
K C 0.67
D C 0.62
E H 0.55
F H 0.70
V H 0.76
Y H 0.83
H H 0.87
E H 0.88
M H 0.88
V H 0.85
A H 0.77
H H 0.64
V H 0.66
P H 0.66
L H 0.66
F H 0.52
T C 0.60
H C 0.81
P C 0.85
N C 0.87
P C 0.85
E C 0.80
H E 0.65
V E 0.92
L E 0.93
V E 0.92
V E 0.82
G C 0.53
G C 0.82
G C 0.82
D C 0.67
G H 0.60
G H 0.89
V H 0.93
I H 0.95
R H 0.95
E H 0.95
I H 0.93
L H 0.87
K H 0.66
H C 0.65
P C 0.84
S C 0.82
V C 0.63
K C 0.50
K E 0.77
A E 0.85
T E 0.83
L E 0.87
V E 0.85
D E 0.71
I C 0.73
D C 0.89
G H 0.90
K H 0.94
V H 0.95
I H 0.96
E H 0.96
Y H 0.95
S H 0.95
K H 0.93
K H 0.87
F H 0.77
L C 0.54
P C 0.58
S C 0.52
I C 0.58
A C 0.66
G C 0.66
K C 0.65
L C 0.69
D C 0.75
D C 0.82
P C 0.76
R C 0.59
V E 0.64
D E 0.81
V E 0.89
Q E 0.87
V E 0.74
D C 0.52
D C 0.61
G H 0.79
F H 0.88
M H 0.88
H H 0.86
I H 0.78
A H 0.72
K H 0.56
S C 0.63
E C 0.75
N C 0.81
Q C 0.79
Y C 0.67
D E 0.53
V E 0.92
I E 0.93
M E 0.93
V E 0.85
D C 0.59
S C 0.83
T C 0.85
E C 0.86
P C 0.83
V C 0.80
G C 0.83
P C 0.77
A C 0.52
V H 0.66
N H 0.69
L H 0.63
F H 0.50
T H 0.59
K H 0.93
G H 0.95
F H 0.95
Y H 0.96
A H 0.96
G H 0.95
I H 0.95
A H 0.94
K H 0.88
A H 0.67
L C 0.55
K C 0.83
E C 0.78
D C 0.79
G E 0.53
I E 0.83
F E 0.91
V E 0.90
A E 0.87
Q E 0.69
T C 0.65
D C 0.87
N C 0.85
P C 0.72
W C 0.69
F C 0.70
T C 0.62
P H 0.89
E H 0.93
L H 0.94
I H 0.95
T H 0.96
N H 0.95
V H 0.95
Q H 0.95
R H 0.94
D H 0.92
V H 0.91
K H 0.87
E H 0.76
I H 0.61
F C 0.74
P C 0.75
I C 0.46
T E 0.67
K E 0.77
L E 0.75
Y E 0.66
T E 0.65
A E 0.64
N E 0.69
I E 0.62
P C 0.50
T C 0.57
Y C 0.72
P C 0.80
S C 0.84
G C 0.79
L E 0.48
W E 0.79
T E 0.87
F E 0.89
T E 0.89
I E 0.86
G E 0.71
S C 0.52
K C 0.73
K C 0.79
Y C 0.82
D C 0.83
P C 0.52
L H 0.50
A H 0.50
V C 0.54
E C 0.66
D C 0.60
S C 0.59
R C 0.61
F C 0.53
F C 0.56
D C 0.57
I C 0.63
E C 0.67
T C 0.57
K C 0.46
Y C 0.48
Y C 0.64
T C 0.80
K H 0.60
D H 0.58
I H 0.67
H H 0.66
K H 0.65
A H 0.60
A H 0.60
F H 0.48
V C 0.46
L C 0.79
P H 0.58
K H 0.88
F H 0.91
V H 0.92
S H 0.91
D H 0.85
L H 0.75
I H 0.53
K C 0.84
END