PFRMAT SS
TARGET T0632
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0632.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0632.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0632.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 T0632.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0632
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 T0632.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 1373
METHOD
METHOD ============================================
METHOD Comments from T0632.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0632
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 T0632.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 1373
METHOD
METHOD ============================================
METHOD Comments from T0632.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0632
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 T0632.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 1373
METHOD
METHOD ============================================
MODEL 1
M C 0.93
D C 0.66
K C 0.48
R H 0.57
L H 0.58
Q H 0.55
Q C 0.53
D C 0.71
R H 0.47
I H 0.65
V H 0.69
D H 0.75
K H 0.70
M H 0.65
E H 0.53
R C 0.57
F C 0.86
L C 0.74
S C 0.70
T C 0.56
A C 0.50
N H 0.50
E H 0.50
E H 0.51
E H 0.58
K H 0.59
D C 0.51
V C 0.64
L C 0.77
S C 0.78
S H 0.70
I H 0.83
V H 0.86
D H 0.88
G H 0.90
L H 0.90
L H 0.87
A H 0.86
K H 0.79
Q H 0.63
E C 0.55
R C 0.60
R C 0.66
Y C 0.74
A C 0.79
T C 0.74
Y C 0.57
L H 0.61
A H 0.64
S H 0.61
L H 0.46
T C 0.73
Q C 0.85
I E 0.53
E E 0.90
S E 0.95
Q E 0.96
E E 0.95
R E 0.81
E E 0.52
D C 0.93
G C 0.95
R E 0.76
F E 0.95
E E 0.97
V E 0.98
R E 0.97
L E 0.87
P E 0.63
I C 0.66
G C 0.89
P C 0.53
L H 0.55
V H 0.56
N C 0.66
N C 0.84
P C 0.82
L C 0.74
N C 0.63
M H 0.47
V H 0.55
H H 0.74
G H 0.86
G H 0.94
I H 0.97
T H 0.97
A H 0.97
T H 0.97
L H 0.97
L H 0.97
D H 0.96
T H 0.96
A H 0.95
M H 0.94
G H 0.94
Q H 0.95
M H 0.94
V H 0.91
N H 0.86
R H 0.68
Q C 0.52
L C 0.87
P C 0.91
D C 0.92
G C 0.93
Q C 0.78
S E 0.55
A E 0.84
V E 0.90
T E 0.93
S E 0.94
E E 0.96
L E 0.94
N E 0.93
I E 0.93
H E 0.90
Y E 0.92
V E 0.89
K E 0.85
P E 0.68
G C 0.60
M C 0.84
G C 0.96
T C 0.84
Y E 0.69
L E 0.94
R E 0.97
A E 0.98
V E 0.98
A E 0.98
S E 0.98
I E 0.96
V E 0.94
H E 0.83
Q C 0.64
G C 0.74
K C 0.62
Q E 0.68
R E 0.95
I E 0.97
V E 0.98
V E 0.98
E E 0.98
G E 0.98
K E 0.98
V E 0.97
Y E 0.95
T E 0.62
D C 0.96
Q C 0.98
G C 0.91
E E 0.56
T E 0.95
V E 0.97
A E 0.98
M E 0.98
G E 0.98
T E 0.98
G E 0.97
S E 0.97
F E 0.97
F E 0.96
V E 0.93
L E 0.71
R C 0.67
S C 0.85
R C 0.91
G C 0.98
END