PFRMAT SS
TARGET T0441
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0441.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0441.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0441.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 T0441.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0441
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 T0441.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 1219
METHOD
METHOD ============================================
METHOD Comments from T0441.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0441
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 T0441.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 1219
METHOD
METHOD ============================================
METHOD Comments from T0441.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0441
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 T0441.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 1219
METHOD
METHOD ============================================
MODEL 1
M C 0.93
S C 0.85
E C 0.87
P C 0.85
R C 0.73
K C 0.74
R C 0.83
R C 0.85
S C 0.87
T C 0.91
G C 0.93
N C 0.87
V C 0.74
T C 0.72
L H 0.95
A H 0.96
D H 0.97
V H 0.97
A H 0.97
K H 0.96
Q H 0.92
A H 0.59
G C 0.95
V C 0.95
G C 0.92
T H 0.86
M H 0.91
T H 0.92
V H 0.94
S H 0.93
R H 0.95
A H 0.92
L H 0.79
R C 0.61
T C 0.89
P C 0.87
E C 0.80
L C 0.78
V C 0.88
S C 0.95
D H 0.94
K H 0.96
L H 0.97
R H 0.98
E H 0.98
K H 0.98
I H 0.98
Q H 0.98
Q H 0.98
V H 0.98
V H 0.98
D H 0.97
E H 0.93
L C 0.50
G C 0.97
Y C 0.96
I C 0.83
P C 0.79
N C 0.74
K H 0.91
A H 0.94
A H 0.96
G H 0.96
A H 0.95
L H 0.93
A H 0.84
S H 0.52
A C 0.84
E C 0.89
S C 0.81
Y C 0.70
S E 0.74
I E 0.92
A E 0.96
L E 0.97
I E 0.94
I E 0.79
P C 0.63
S C 0.90
L C 0.88
F C 0.84
E C 0.78
K H 0.75
A H 0.84
C H 0.96
A H 0.97
H H 0.97
F H 0.97
L H 0.97
P H 0.97
S H 0.97
F H 0.97
Q H 0.97
Q H 0.97
A H 0.97
L H 0.97
N H 0.96
K H 0.88
A C 0.63
G C 0.98
Y C 0.93
Q E 0.74
L E 0.96
L E 0.98
L E 0.97
G E 0.89
Y C 0.53
S C 0.87
D C 0.92
Y C 0.93
S C 0.89
I H 0.91
E H 0.95
Q H 0.96
E H 0.97
E H 0.97
K H 0.97
L H 0.97
L H 0.97
S H 0.97
T H 0.97
F H 0.97
L H 0.94
E H 0.73
S C 0.63
R C 0.94
P C 0.94
A C 0.83
G E 0.97
V E 0.98
V E 0.98
L E 0.97
F E 0.73
G C 0.75
S C 0.83
E C 0.82
H C 0.91
S C 0.93
Q H 0.87
R H 0.93
T H 0.95
H H 0.96
Q H 0.96
L H 0.97
L H 0.96
E H 0.95
A H 0.83
S C 0.59
N C 0.97
T C 0.96
P C 0.79
V E 0.95
L E 0.98
E E 0.98
I E 0.94
A E 0.57
E C 0.73
L C 0.83
S C 0.85
S C 0.87
K C 0.86
A C 0.83
S C 0.79
Y C 0.71
L C 0.65
N E 0.68
I E 0.83
G E 0.78
V E 0.54
D C 0.79
H H 0.64
F H 0.94
E H 0.97
V H 0.97
G H 0.98
K H 0.98
A H 0.98
C H 0.98
T H 0.98
R H 0.97
H H 0.97
L H 0.97
I H 0.97
E H 0.89
Q C 0.64
G C 0.89
F C 0.93
K C 0.67
N E 0.84
V E 0.96
G E 0.97
F E 0.96
I E 0.86
G C 0.50
A C 0.83
R C 0.88
G C 0.82
N C 0.81
H C 0.71
S H 0.58
T H 0.76
L H 0.91
Q H 0.94
R H 0.94
Q H 0.95
L H 0.95
H H 0.95
G H 0.94
W H 0.97
Q H 0.97
S H 0.98
A H 0.98
M H 0.98
I H 0.97
E H 0.93
N C 0.55
Y C 0.98
L C 0.97
T C 0.89
P C 0.80
D C 0.89
H C 0.50
F H 0.46
L H 0.43
T E 0.48
T E 0.49
H C 0.57
E C 0.85
A C 0.85
P C 0.82
S C 0.82
S H 0.77
Q H 0.86
L H 0.88
G H 0.92
A H 0.96
E H 0.97
G H 0.97
L H 0.97
A H 0.97
K H 0.97
L H 0.96
L H 0.92
L H 0.78
R H 0.51
D C 0.91
S C 0.93
S C 0.92
L C 0.86
N C 0.63
A E 0.95
L E 0.98
V E 0.97
C E 0.91
S C 0.59
H C 0.80
E H 0.85
E H 0.95
I H 0.96
A H 0.97
I H 0.97
G H 0.97
A H 0.98
L H 0.98
F H 0.98
E H 0.98
C H 0.98
H H 0.97
R H 0.91
R C 0.63
V C 0.98
L C 0.95
K C 0.73
V C 0.71
P C 0.82
T C 0.81
D C 0.65
I E 0.71
A E 0.90
I E 0.95
I E 0.92
C E 0.72
L C 0.59
E C 0.86
G C 0.82
S H 0.49
S H 0.66
M H 0.78
G H 0.78
E H 0.74
H H 0.58
A C 0.62
Y C 0.87
P C 0.87
S C 0.80
L C 0.60
T E 0.61
S E 0.67
A E 0.56
E C 0.54
F C 0.73
D C 0.85
Y H 0.82
E H 0.89
R H 0.94
M H 0.95
G H 0.96
T H 0.97
K H 0.97
A H 0.98
A H 0.98
E H 0.98
K H 0.97
L H 0.98
L H 0.97
H H 0.96
A H 0.93
I H 0.85
K C 0.56
G C 0.90
E C 0.94
P C 0.89
E C 0.88
E C 0.89
R C 0.79
P C 0.68
T E 0.57
S E 0.77
M E 0.74
G E 0.53
F C 0.76
K C 0.67
L E 0.60
K E 0.81
R E 0.79
R E 0.73
A C 0.47
S C 0.72
T C 0.76
A C 0.84
I C 0.91
N C 0.98
END