PFRMAT SS
TARGET T0621
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0621.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0621.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0621.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 T0621.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0621
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 T0621.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 5
METHOD
METHOD ============================================
METHOD Comments from T0621.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0621
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 T0621.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 5
METHOD
METHOD ============================================
METHOD Comments from T0621.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0621
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 T0621.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 5
METHOD
METHOD ============================================
MODEL 1
N C 0.98
P C 0.93
N C 0.90
P C 0.78
I E 0.54
S E 0.67
I E 0.59
P E 0.53
I C 0.55
D C 0.73
L C 0.50
S C 0.53
Q C 0.53
A C 0.78
G C 0.87
S C 0.74
V E 0.47
V E 0.55
E E 0.59
K E 0.61
E E 0.73
V E 0.75
K E 0.71
I C 0.51
E C 0.60
E C 0.49
S C 0.50
W E 0.38
S E 0.50
Y E 0.68
H E 0.80
L E 0.91
I E 0.93
L E 0.92
Q E 0.89
F E 0.80
A E 0.74
V E 0.63
H E 0.47
D E 0.37
R H 0.44
K H 0.48
E H 0.48
D C 0.66
G C 0.77
G C 0.78
L C 0.61
D C 0.60
G H 0.50
K H 0.56
R H 0.57
V H 0.59
W H 0.58
K H 0.57
F H 0.52
L C 0.41
G C 0.62
F C 0.71
N C 0.73
S C 0.73
Y C 0.65
D C 0.79
P C 0.81
R C 0.83
D C 0.86
G C 0.87
K C 0.72
Q C 0.49
V C 0.57
G C 0.68
Y C 0.58
V C 0.56
D C 0.58
Y H 0.65
R H 0.77
L H 0.81
A H 0.76
K H 0.74
S H 0.71
E H 0.68
L H 0.57
G C 0.51
D C 0.47
L C 0.50
I C 0.60
D C 0.72
E C 0.69
T C 0.60
Y E 0.47
D C 0.55
C C 0.65
D C 0.89
G C 0.80
T E 0.69
V E 0.85
V E 0.82
P E 0.86
I E 0.91
K E 0.97
I E 0.97
T E 0.98
I E 0.97
H E 0.95
Q E 0.92
I E 0.84
N C 0.54
Q C 0.85
D C 0.94
N C 0.91
T C 0.66
K E 0.70
K E 0.89
L E 0.94
I E 0.92
A E 0.88
D E 0.83
N E 0.87
L E 0.93
Y E 0.93
M E 0.87
T E 0.60
K C 0.81
G C 0.88
N C 0.87
G C 0.85
S C 0.68
G C 0.60
A H 0.47
Y H 0.47
T H 0.60
R H 0.62
D H 0.58
I H 0.49
T H 0.38
T E 0.49
I E 0.59
S E 0.55
L C 0.65
D C 0.77
K C 0.85
G C 0.84
K C 0.54
Y E 0.88
I E 0.95
F E 0.96
R E 0.96
I E 0.93
E E 0.79
N E 0.55
I C 0.51
E H 0.49
A H 0.60
F H 0.55
S H 0.66
E H 0.70
M H 0.70
I H 0.54
G C 0.76
R C 0.87
K C 0.86
V E 0.62
D E 0.90
F E 0.97
T E 0.97
I E 0.96
Y E 0.89
I E 0.76
N E 0.52
K C 0.61
R C 0.78
D C 0.90
K C 0.97
END