PFRMAT SS
TARGET T0164
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0164.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0164.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0164.t2k.str.rdb  (weight 1.53983)
METHOD T0164.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 T0164.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0164
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 T0164.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 195
METHOD
METHOD ============================================
METHOD Comments from T0164.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0164
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 T0164.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 195
METHOD
METHOD ============================================
METHOD Comments from T0164.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0164
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 T0164.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 195
METHOD
METHOD ============================================
METHOD Comments from T0164.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0164
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 T0164.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 195
METHOD
METHOD ============================================
MODEL 1
N C 0.90
S C 0.83
T H 0.55
D H 0.73
V H 0.83
E H 0.91
E H 0.94
T H 0.95
L H 0.95
K H 0.95
R H 0.95
I H 0.93
Q H 0.90
N H 0.74
N C 0.54
D C 0.85
P C 0.83
D C 0.79
L C 0.60
E E 0.58
E E 0.84
V E 0.84
N E 0.73
L C 0.58
N C 0.67
N C 0.70
I C 0.69
M C 0.77
N C 0.81
I C 0.83
P C 0.88
V H 0.85
P H 0.93
T H 0.94
L H 0.96
K H 0.96
A H 0.96
C H 0.95
A H 0.95
E H 0.94
A H 0.90
L H 0.82
K H 0.60
T C 0.65
N C 0.83
T C 0.81
Y C 0.71
V E 0.49
K E 0.68
K E 0.87
F E 0.84
S E 0.80
I E 0.52
V C 0.68
G C 0.78
T C 0.79
R C 0.79
S C 0.80
N C 0.86
D H 0.76
P H 0.92
V H 0.94
A H 0.96
F H 0.96
A H 0.96
L H 0.96
A H 0.95
E H 0.95
M H 0.92
L H 0.88
K H 0.73
V C 0.49
N C 0.80
N C 0.81
T C 0.75
L C 0.49
K E 0.69
S E 0.88
L E 0.85
N E 0.79
V E 0.48
E C 0.68
S C 0.75
N C 0.79
F C 0.78
I C 0.78
S C 0.82
G H 0.81
S H 0.91
G H 0.94
I H 0.96
L H 0.96
A H 0.96
L H 0.96
V H 0.96
E H 0.95
A H 0.91
L H 0.83
Q H 0.60
S C 0.68
N C 0.86
T C 0.81
S C 0.65
L E 0.56
I E 0.73
E E 0.88
L E 0.83
R E 0.79
I E 0.51
D C 0.68
N C 0.79
Q C 0.81
S C 0.80
Q C 0.82
P C 0.85
L C 0.82
G C 0.84
N H 0.83
N H 0.91
V H 0.93
E H 0.95
M H 0.96
E H 0.96
I H 0.96
A H 0.96
N H 0.95
M H 0.93
L H 0.91
E H 0.78
K H 0.50
N C 0.81
T C 0.80
T C 0.73
L C 0.51
L E 0.52
K E 0.71
F E 0.63
G E 0.53
Y C 0.60
H C 0.73
F C 0.76
T C 0.76
Q C 0.76
Q C 0.77
G C 0.80
P C 0.52
R H 0.63
L H 0.71
R H 0.76
A H 0.85
S H 0.85
N H 0.87
A H 0.84
M H 0.81
M H 0.73
N H 0.58
N H 0.50
N H 0.57
D H 0.69
L H 0.80
V H 0.81
R H 0.78
K H 0.74
R H 0.61
R C 0.53
L C 0.90
END