PFRMAT SS
TARGET T0137
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0137.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0137.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0137.t2k.str.rdb  (weight 1.53983)
METHOD T0137.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 T0137.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0137
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 T0137.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 111
METHOD
METHOD ============================================
METHOD Comments from T0137.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0137
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 T0137.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 111
METHOD
METHOD ============================================
METHOD Comments from T0137.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0137
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 T0137.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 111
METHOD
METHOD ============================================
METHOD Comments from T0137.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0137
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 T0137.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 111
METHOD
METHOD ============================================
MODEL 1
M C 0.90
E C 0.80
A C 0.74
F C 0.59
L C 0.54
G E 0.63
T E 0.79
W E 0.86
K E 0.87
M E 0.84
E E 0.71
K E 0.62
S C 0.57
E C 0.65
G C 0.66
F H 0.83
D H 0.94
K H 0.95
I H 0.95
M H 0.95
E H 0.95
R H 0.90
L C 0.60
G C 0.94
V C 0.92
D C 0.88
F H 0.90
V H 0.94
T H 0.94
R H 0.93
K H 0.93
M H 0.92
G H 0.87
N H 0.74
L H 0.47
V C 0.71
K C 0.84
P C 0.77
N E 0.59
L E 0.90
I E 0.92
V E 0.92
T E 0.87
D E 0.57
L C 0.79
G C 0.88
G C 0.88
G C 0.81
K E 0.75
Y E 0.88
K E 0.91
M E 0.92
R E 0.89
S E 0.82
E E 0.63
S C 0.53
T C 0.66
F C 0.62
K E 0.49
T E 0.62
T E 0.82
E E 0.89
C E 0.89
S E 0.88
F E 0.86
K E 0.77
L E 0.50
G C 0.74
E C 0.58
K E 0.60
F E 0.67
K E 0.73
E E 0.73
V E 0.78
T C 0.53
P C 0.79
D C 0.92
S C 0.91
R C 0.61
E E 0.82
V E 0.86
A E 0.88
S E 0.90
L E 0.92
I E 0.92
T E 0.90
V E 0.79
E C 0.65
N C 0.93
G C 0.91
V E 0.76
M E 0.92
K E 0.91
H E 0.92
E E 0.91
Q E 0.89
D E 0.69
D C 0.68
K C 0.84
T C 0.85
K C 0.70
V E 0.60
T E 0.82
Y E 0.89
I E 0.91
E E 0.92
R E 0.91
V E 0.91
V E 0.89
E E 0.59
G C 0.92
N C 0.85
E E 0.80
L E 0.92
K E 0.92
A E 0.93
T E 0.93
V E 0.92
K E 0.89
V E 0.75
D C 0.89
E C 0.86
V E 0.83
V E 0.90
C E 0.91
V E 0.91
R E 0.88
T E 0.85
Y E 0.81
S E 0.76
K E 0.64
V C 0.67
A C 0.93
END