PFRMAT SS
TARGET T0186
AUTHOR 4069-6308-1312
METHOD This file is the result of combining several RDB files, specifically
METHOD T0186.t2k.dssp-ebghstl.rdb (weight 1.53986)
METHOD T0186.t2k.stride-ebghtl.rdb (weight 1.24869)
METHOD T0186.t2k.str.rdb (weight 1.53983)
METHOD T0186.t2k.alpha.rdb (weight 0.659012)
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 T0186.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0186
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 T0186.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 185
METHOD
METHOD ============================================
METHOD Comments from T0186.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0186
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 T0186.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 185
METHOD
METHOD ============================================
METHOD Comments from T0186.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0186
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 T0186.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 185
METHOD
METHOD ============================================
METHOD Comments from T0186.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0186
METHOD Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net
METHOD This is a 4-layer network, with
METHOD window units
METHOD 5 15
METHOD 7 15
METHOD 9 15
METHOD 13 11 (1 ABCDEFGHIST )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0186.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 185
METHOD
METHOD ============================================
MODEL 1
M C 0.71
I E 0.63
V E 0.74
E E 0.63
K E 0.57
V E 0.67
L E 0.86
I E 0.89
V E 0.85
D C 0.60
P C 0.84
I C 0.89
D C 0.87
G C 0.69
E E 0.69
F E 0.72
T E 0.69
G E 0.67
D E 0.84
V E 0.91
E E 0.92
I E 0.90
E E 0.71
E C 0.92
G C 0.91
K E 0.76
I E 0.91
V E 0.86
K E 0.87
V E 0.78
E E 0.71
K E 0.75
R E 0.77
E E 0.77
C C 0.50
I C 0.78
P C 0.90
R C 0.89
G C 0.68
V E 0.78
L E 0.81
M E 0.72
P C 0.49
G C 0.58
F E 0.54
V E 0.55
D C 0.47
P C 0.48
H C 0.46
I C 0.47
H C 0.49
G C 0.59
V C 0.63
V C 0.66
G C 0.61
A C 0.58
D C 0.55
T C 0.65
M C 0.72
N C 0.64
C C 0.51
D C 0.51
F H 0.72
S H 0.82
E H 0.89
M H 0.91
E H 0.94
E H 0.95
F H 0.94
L H 0.94
Y H 0.90
S H 0.77
Q C 0.63
G C 0.88
V C 0.73
T E 0.65
T E 0.76
F E 0.79
L E 0.69
A E 0.50
T C 0.58
T C 0.63
V C 0.71
S C 0.77
T C 0.82
S C 0.70
L H 0.63
E H 0.81
K H 0.84
M H 0.89
K H 0.93
E H 0.93
I H 0.94
L H 0.94
R H 0.94
K H 0.94
A H 0.94
R H 0.93
D H 0.92
Y H 0.89
I H 0.82
L H 0.73
E H 0.61
N C 0.49
P C 0.55
S C 0.57
T C 0.50
S C 0.47
L C 0.38
L E 0.42
G E 0.52
V E 0.62
H E 0.67
L E 0.63
E E 0.50
G C 0.65
P C 0.72
Y C 0.74
I C 0.76
S C 0.77
K H 0.52
E H 0.54
K H 0.49
K C 0.56
G C 0.69
A C 0.69
H C 0.74
S C 0.79
E C 0.54
K H 0.49
H C 0.49
I C 0.58
R C 0.58
P C 0.50
P C 0.50
S C 0.51
E H 0.85
R H 0.85
E H 0.86
L H 0.83
S H 0.80
E H 0.74
I H 0.62
D H 0.50
S C 0.59
P C 0.67
A C 0.70
K C 0.55
M E 0.53
L E 0.52
T E 0.51
F C 0.49
A C 0.70
P C 0.61
E C 0.63
I C 0.61
E C 0.63
S C 0.54
S H 0.60
E H 0.76
L H 0.83
L H 0.88
L H 0.90
R H 0.92
L H 0.92
V H 0.91
K H 0.84
R C 0.59
D C 0.93
I C 0.82
V E 0.55
L E 0.54
S E 0.48
A C 0.51
G C 0.64
H C 0.71
S C 0.69
I C 0.70
A C 0.74
T C 0.74
F H 0.88
E H 0.93
E H 0.94
F H 0.95
M H 0.95
K H 0.95
F H 0.94
Y H 0.93
K H 0.91
E H 0.70
G C 0.57
V C 0.49
K H 0.52
R H 0.61
I H 0.59
T H 0.54
H H 0.51
F H 0.49
P C 0.58
N C 0.76
G C 0.72
L C 0.66
K C 0.62
P C 0.56
L C 0.45
H C 0.47
H C 0.50
R C 0.58
E C 0.69
I C 0.59
G C 0.63
I C 0.41
T H 0.37
G H 0.39
A H 0.40
G H 0.39
L H 0.35
L C 0.50
L C 0.71
D C 0.70
D C 0.62
V E 0.50
K E 0.58
L E 0.68
E E 0.73
L E 0.73
I E 0.65
C E 0.47
D C 0.55
G C 0.51
V E 0.48
H E 0.48
L C 0.66
S C 0.86
R H 0.88
E H 0.90
M H 0.91
V H 0.93
K H 0.91
L H 0.90
V H 0.87
Y H 0.83
K H 0.73
V H 0.52
K C 0.68
K C 0.78
A C 0.77
N C 0.78
G C 0.71
I C 0.67
V C 0.56
L C 0.45
V C 0.46
T C 0.49
D C 0.45
S C 0.47
I C 0.52
S C 0.63
A C 0.66
A C 0.71
G C 0.68
L C 0.61
K C 0.56
D C 0.48
G C 0.47
T C 0.46
T C 0.42
T C 0.46
L C 0.60
G C 0.75
D C 0.76
L C 0.49
V E 0.66
V E 0.74
K E 0.74
V E 0.62
K C 0.53
D C 0.70
G C 0.70
V C 0.58
P C 0.49
R C 0.48
L C 0.58
E C 0.72
D C 0.80
G C 0.82
T C 0.79
L C 0.67
A C 0.57
G C 0.52
S H 0.51
T H 0.57
L H 0.54
F H 0.50
F H 0.91
S H 0.95
Q H 0.96
A H 0.96
V H 0.96
K H 0.95
N H 0.95
F H 0.94
R H 0.92
K H 0.87
F H 0.58
T C 0.74
G C 0.89
C C 0.88
S C 0.89
I H 0.92
T H 0.95
E H 0.95
L H 0.95
A H 0.95
K H 0.95
V H 0.92
S H 0.86
S H 0.74
Y H 0.66
N H 0.57
S H 0.91
C H 0.94
V H 0.93
E H 0.89
L C 0.50
G C 0.90
L C 0.88
D C 0.84
D C 0.77
R C 0.70
G C 0.58
R E 0.56
I E 0.58
A C 0.62
E C 0.74
G C 0.81
T C 0.72
R C 0.66
A C 0.65
D C 0.54
L E 0.90
V E 0.93
L E 0.93
L E 0.87
D C 0.62
E C 0.86
D C 0.89
L C 0.85
N C 0.73
V E 0.71
V E 0.82
M E 0.89
T E 0.91
I E 0.89
K E 0.77
E C 0.80
G C 0.84
E E 0.67
V E 0.88
V E 0.84
F E 0.77
R E 0.50
S C 0.75
R C 0.93
END