PFRMAT SS
TARGET T0148
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0148.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0148.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0148.t2k.str.rdb  (weight 1.53983)
METHOD T0148.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 T0148.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0148
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 T0148.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 17
METHOD
METHOD ============================================
METHOD Comments from T0148.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0148
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 T0148.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 17
METHOD
METHOD ============================================
METHOD Comments from T0148.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0148
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 T0148.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 17
METHOD
METHOD ============================================
METHOD Comments from T0148.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0148
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 T0148.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 17
METHOD
METHOD ============================================
MODEL 1
M C 0.91
P C 0.86
S C 0.75
F C 0.65
D C 0.58
I C 0.45
V C 0.47
S C 0.51
E C 0.61
I C 0.78
T C 0.80
L H 0.87
H H 0.93
E H 0.94
V H 0.95
R H 0.94
N H 0.94
A H 0.93
V H 0.95
E H 0.94
N H 0.94
A H 0.94
N H 0.90
R H 0.86
V H 0.77
L H 0.65
S H 0.48
T C 0.57
R C 0.54
Y C 0.52
D C 0.59
F C 0.70
R C 0.83
G C 0.89
V C 0.71
E E 0.52
A E 0.75
V E 0.87
I E 0.89
E E 0.90
L E 0.79
N C 0.60
E C 0.81
K C 0.86
N C 0.81
E E 0.56
T E 0.88
I E 0.91
K E 0.90
I E 0.87
T E 0.74
T C 0.56
E C 0.79
S C 0.78
D H 0.60
F H 0.70
Q H 0.76
L H 0.90
E H 0.91
Q H 0.92
L H 0.94
I H 0.95
E H 0.95
I H 0.95
L H 0.94
I H 0.94
G H 0.94
S H 0.94
C H 0.93
I H 0.92
K H 0.86
R C 0.55
G C 0.91
I C 0.89
E C 0.84
H H 0.60
S H 0.64
S H 0.62
L C 0.40
D C 0.54
I C 0.65
P C 0.72
A C 0.63
E C 0.53
S C 0.49
E C 0.50
H C 0.57
H C 0.74
G C 0.83
K C 0.74
L E 0.59
Y E 0.77
S E 0.83
K E 0.85
E E 0.86
I E 0.83
K E 0.84
L E 0.74
K E 0.45
Q C 0.63
G C 0.76
I C 0.69
E C 0.72
T H 0.85
E H 0.89
M H 0.92
A H 0.94
K H 0.94
K H 0.94
I H 0.95
T H 0.95
K H 0.95
L H 0.94
V H 0.90
K H 0.85
D H 0.71
S H 0.51
K C 0.85
I C 0.79
K C 0.52
V E 0.64
Q E 0.68
T E 0.72
Q E 0.71
I E 0.59
Q C 0.61
G C 0.82
E C 0.64
Q E 0.75
V E 0.84
R E 0.84
V E 0.76
T C 0.49
G C 0.72
K C 0.75
S C 0.71
R H 0.75
D H 0.84
D H 0.87
L H 0.95
Q H 0.96
A H 0.96
V H 0.96
I H 0.96
Q H 0.95
L H 0.92
V H 0.82
K H 0.61
S H 0.56
A C 0.54
E C 0.63
L C 0.75
G C 0.86
Q C 0.87
P C 0.77
F C 0.49
Q E 0.54
F E 0.56
N E 0.45
N C 0.51
F C 0.60
R C 0.75
D C 0.91
END