PFRMAT SS
TARGET T0618
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0618.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0618.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0618.t2k.str.rdb  (weight 1.53983)
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 T0618.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0618
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 T0618.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 36
METHOD
METHOD ============================================
METHOD Comments from T0618.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0618
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 T0618.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 36
METHOD
METHOD ============================================
METHOD Comments from T0618.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0618
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 T0618.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 36
METHOD
METHOD ============================================
MODEL 1
M C 0.96
K C 0.67
K H 0.49
E H 0.55
S H 0.55
Q H 0.64
V H 0.69
I H 0.65
F H 0.63
D H 0.75
K H 0.93
N H 0.95
V H 0.97
I H 0.98
E H 0.98
F H 0.98
V H 0.98
T H 0.98
V H 0.98
A H 0.98
A H 0.97
E H 0.97
F H 0.95
C H 0.91
A H 0.80
F H 0.70
L H 0.62
E H 0.49
R C 0.58
A H 0.59
E H 0.51
S C 0.51
M C 0.60
K C 0.68
R H 0.79
S H 0.85
T H 0.88
F H 0.93
V H 0.96
D H 0.97
T H 0.97
T H 0.97
L H 0.96
K H 0.93
I H 0.93
L H 0.92
P H 0.93
L H 0.93
L H 0.92
Y H 0.88
L H 0.84
K H 0.82
A H 0.70
S C 0.52
M C 0.65
L C 0.86
P C 0.88
K C 0.75
C C 0.71
E C 0.75
M C 0.78
I C 0.78
G C 0.74
D C 0.74
E C 0.80
S C 0.91
P C 0.89
E C 0.84
T C 0.81
Y C 0.78
V C 0.82
T C 0.92
E H 0.89
E H 0.91
I H 0.95
Y H 0.96
E H 0.97
V H 0.96
L H 0.96
R H 0.97
I H 0.96
N H 0.96
L H 0.96
A H 0.95
S H 0.91
I H 0.85
L H 0.54
A C 0.89
E C 0.82
K C 0.71
D C 0.68
D C 0.42
Y H 0.40
L H 0.40
E E 0.40
V C 0.41
F C 0.52
L C 0.83
P C 0.59
D C 0.57
M C 0.48
A C 0.62
Y C 0.78
S C 0.90
D C 0.91
E C 0.88
P C 0.80
I C 0.66
K C 0.60
K C 0.68
N C 0.69
I H 0.71
S H 0.74
E H 0.72
D H 0.71
L H 0.96
A H 0.97
D H 0.97
I H 0.97
Y H 0.97
Q H 0.95
D H 0.93
I H 0.95
K H 0.93
D H 0.85
F H 0.87
I H 0.85
F H 0.84
V H 0.83
F H 0.75
Q H 0.66
L C 0.51
G C 0.82
L C 0.68
N C 0.55
E H 0.55
T H 0.58
M H 0.79
N H 0.94
D H 0.96
S H 0.97
L H 0.97
A H 0.97
I H 0.97
C H 0.97
Q H 0.96
E H 0.94
N H 0.85
F H 0.75
G H 0.73
L H 0.74
L H 0.72
W H 0.83
G H 0.93
Q H 0.97
K H 0.97
L H 0.98
V H 0.98
N H 0.98
T H 0.97
M H 0.97
R H 0.97
A H 0.97
L H 0.97
H H 0.96
D H 0.94
V H 0.91
K H 0.85
Y H 0.74
S H 0.55
P H 0.57
K H 0.58
A C 0.51
R C 0.62
L C 0.51
E H 0.52
H H 0.62
H H 0.61
H H 0.61
H H 0.51
H C 0.65
H C 0.90
END