PFRMAT SS
TARGET T0157
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0157.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0157.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0157.t2k.str.rdb  (weight 1.53983)
METHOD T0157.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 T0157.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0157
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 T0157.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 56
METHOD
METHOD ============================================
METHOD Comments from T0157.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0157
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 T0157.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 56
METHOD
METHOD ============================================
METHOD Comments from T0157.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0157
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 T0157.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 56
METHOD
METHOD ============================================
METHOD Comments from T0157.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0157
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 T0157.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 56
METHOD
METHOD ============================================
MODEL 1
M C 0.89
S C 0.84
G C 0.68
T E 0.69
L E 0.87
L E 0.89
A E 0.90
F E 0.86
D E 0.59
F C 0.75
G C 0.86
T C 0.76
K C 0.51
S E 0.78
I E 0.84
G E 0.85
V E 0.90
A E 0.88
V E 0.81
G E 0.56
Q C 0.76
R C 0.68
I C 0.67
T C 0.65
G C 0.63
T C 0.50
A E 0.44
R C 0.48
P C 0.50
L C 0.40
P E 0.40
A E 0.54
I E 0.65
K E 0.61
A C 0.48
Q C 0.68
D C 0.81
G C 0.82
T C 0.69
P H 0.53
D H 0.60
W H 0.93
N H 0.95
I H 0.95
I H 0.96
E H 0.96
R H 0.95
L H 0.95
L H 0.94
K H 0.92
E H 0.76
W C 0.49
Q C 0.86
P C 0.83
D C 0.59
E E 0.89
I E 0.93
I E 0.92
V E 0.85
G E 0.60
L C 0.68
P C 0.68
L C 0.48
N C 0.81
M C 0.86
D C 0.91
G C 0.93
T C 0.85
E C 0.65
Q C 0.73
P H 0.60
L H 0.84
T H 0.93
A H 0.95
R H 0.95
A H 0.96
R H 0.96
K H 0.96
F H 0.96
A H 0.96
N H 0.96
R H 0.95
I H 0.94
H H 0.90
G H 0.79
R H 0.64
F C 0.66
G C 0.92
V C 0.88
E C 0.57
V E 0.86
K E 0.91
L E 0.88
H E 0.76
D C 0.51
E C 0.75
R C 0.72
L C 0.61
S C 0.53
T H 0.80
V H 0.94
E H 0.96
A H 0.96
R H 0.96
S H 0.95
G H 0.95
L H 0.94
F H 0.93
E H 0.87
Q C 0.60
G C 0.93
G C 0.88
Y C 0.79
R H 0.57
A H 0.66
L H 0.65
N H 0.57
K H 0.50
G C 0.51
K H 0.57
V H 0.71
D H 0.82
S H 0.95
A H 0.96
S H 0.96
A H 0.96
V H 0.96
I H 0.96
I H 0.96
L H 0.95
E H 0.94
S H 0.92
Y H 0.90
F H 0.84
E H 0.70
Q C 0.57
G C 0.81
Y C 0.92
END