PFRMAT SS
TARGET T0151
AUTHOR 4069-6308-1312
METHOD This file is the result of combining several RDB files, specifically
METHOD T0151.t2k.dssp-ebghstl.rdb (weight 1.53986)
METHOD T0151.t2k.stride-ebghtl.rdb (weight 1.24869)
METHOD T0151.t2k.str.rdb (weight 1.53983)
METHOD T0151.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 T0151.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0151
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 T0151.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 147
METHOD
METHOD ============================================
METHOD Comments from T0151.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0151
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 T0151.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 147
METHOD
METHOD ============================================
METHOD Comments from T0151.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0151
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 T0151.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 147
METHOD
METHOD ============================================
METHOD Comments from T0151.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0151
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 T0151.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 147
METHOD
METHOD ============================================
MODEL 1
M C 0.81
A C 0.73
G C 0.70
D C 0.69
T C 0.64
T E 0.72
I E 0.91
T E 0.92
I E 0.92
V E 0.81
G E 0.70
N E 0.58
L C 0.54
T C 0.68
A C 0.78
D C 0.86
P C 0.66
E C 0.51
L E 0.57
R E 0.67
F E 0.76
T C 0.70
P C 0.84
S C 0.93
G C 0.93
A C 0.73
A E 0.77
V E 0.89
A E 0.92
N E 0.92
F E 0.92
T E 0.92
V E 0.90
A E 0.80
S E 0.66
T C 0.56
P C 0.65
R C 0.60
I C 0.56
Y C 0.58
D C 0.70
R C 0.79
Q C 0.85
T C 0.85
G C 0.79
E C 0.51
W E 0.51
K E 0.46
D C 0.45
G C 0.58
E C 0.59
A C 0.49
L E 0.60
F E 0.76
L E 0.82
R E 0.84
C E 0.85
N E 0.86
I E 0.73
W C 0.51
R C 0.57
E H 0.60
A H 0.86
A H 0.92
E H 0.94
N H 0.93
V H 0.93
A H 0.93
E H 0.90
S H 0.82
L H 0.62
T C 0.58
R C 0.79
G C 0.91
A C 0.84
R E 0.64
V E 0.87
I E 0.91
V E 0.91
S E 0.83
G E 0.83
R E 0.86
L E 0.85
K E 0.82
Q E 0.81
R E 0.62
S E 0.70
F E 0.74
E E 0.77
T C 0.59
R C 0.81
E C 0.91
G C 0.88
E C 0.53
K E 0.87
R E 0.85
T E 0.87
V E 0.86
I E 0.89
E E 0.92
V E 0.92
E E 0.91
V E 0.87
D E 0.74
E E 0.73
I E 0.68
G E 0.67
P E 0.54
S C 0.49
L C 0.58
R C 0.62
Y C 0.61
A C 0.64
T C 0.65
A C 0.64
K C 0.67
V C 0.69
N C 0.71
K C 0.71
A C 0.69
S C 0.71
R C 0.69
S C 0.70
G C 0.70
G C 0.70
F C 0.68
G C 0.71
S C 0.72
G C 0.71
S C 0.72
R C 0.71
P C 0.71
A C 0.72
P C 0.70
A C 0.68
Q C 0.69
T C 0.70
S C 0.67
S C 0.66
A C 0.67
S C 0.69
G C 0.71
D C 0.73
D C 0.75
P C 0.74
W C 0.73
G C 0.70
S C 0.72
A C 0.73
P C 0.77
A C 0.76
S C 0.79
G C 0.80
S C 0.74
F C 0.72
G C 0.73
G C 0.71
G C 0.72
D C 0.68
D C 0.74
E C 0.78
P C 0.83
P C 0.85
F C 0.91
END