PFRMAT SS
TARGET T0412
AUTHOR SAM-T02-server 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0412.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0412.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0412.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 T0412.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0412
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 T0412.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 365
METHOD
METHOD ============================================
METHOD Comments from T0412.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0412
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 T0412.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 365
METHOD
METHOD ============================================
METHOD Comments from T0412.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0412
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 T0412.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 365
METHOD
METHOD ============================================
MODEL 1
S C 0.87
N C 0.76
A C 0.76
L C 0.76
F C 0.75
S H 0.85
S H 0.90
R H 0.92
D H 0.91
I H 0.90
L H 0.93
E H 0.97
V H 0.97
L H 0.98
Q H 0.98
D H 0.98
I H 0.97
H H 0.97
M H 0.93
E H 0.86
T H 0.61
G C 0.95
E C 0.92
T E 0.51
V E 0.82
A E 0.92
I E 0.94
A E 0.94
T E 0.92
K E 0.77
N C 0.71
D C 0.93
I C 0.79
Y E 0.80
L E 0.96
Q E 0.98
Y E 0.98
I E 0.96
Q E 0.93
I E 0.86
I E 0.77
E E 0.54
S C 0.70
V C 0.81
H C 0.78
A C 0.56
L E 0.74
R E 0.86
F E 0.87
H E 0.80
V E 0.56
D C 0.67
E C 0.85
N C 0.90
A C 0.72
I E 0.51
R C 0.51
P C 0.56
L C 0.44
T C 0.42
M C 0.43
S C 0.49
S H 0.62
N H 0.69
G H 0.79
W H 0.89
M H 0.92
L H 0.88
M H 0.81
S H 0.56
T C 0.74
M C 0.94
N C 0.96
D H 0.90
K H 0.95
A H 0.96
I H 0.97
D H 0.97
N H 0.96
T H 0.94
V H 0.92
R H 0.80
R H 0.65
A C 0.60
N C 0.83
T C 0.82
I C 0.77
T C 0.78
Q C 0.84
K C 0.89
D C 0.81
G C 0.81
I C 0.77
R C 0.78
F C 0.82
E C 0.88
V H 0.95
D H 0.96
D H 0.97
M H 0.97
M H 0.97
A H 0.97
R H 0.97
I H 0.97
R H 0.97
Q H 0.97
V H 0.96
R H 0.95
E H 0.89
Q H 0.53
G C 0.92
Y C 0.83
A C 0.49
S E 0.52
A C 0.61
E C 0.58
H C 0.59
I C 0.54
P C 0.64
F C 0.73
V C 0.84
G C 0.89
G C 0.54
G E 0.83
T E 0.94
I E 0.95
C E 0.95
V E 0.89
L E 0.87
L E 0.77
P E 0.75
M C 0.78
T C 0.94
I C 0.96
Q C 0.94
G C 0.73
Q E 0.82
P E 0.93
V E 0.97
T E 0.98
M E 0.97
G E 0.96
L E 0.86
G E 0.67
G C 0.65
A C 0.71
L C 0.56
D C 0.55
R C 0.66
I C 0.85
K C 0.90
Q H 0.82
N H 0.84
Y H 0.90
D H 0.91
R H 0.90
Y H 0.87
L H 0.91
E H 0.95
L H 0.97
L H 0.97
L H 0.97
N H 0.97
G H 0.97
V H 0.97
Q H 0.96
Q H 0.95
L H 0.95
K H 0.95
K H 0.92
S H 0.89
D H 0.82
S C 0.50
F C 0.89
H C 0.89
Q C 0.86
P C 0.92
I C 0.98
END