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 133
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 133
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 133
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 133
METHOD
METHOD ============================================
MODEL 1
M C 0.89
A C 0.80
G C 0.78
D C 0.75
T C 0.71
T E 0.67
I E 0.90
T E 0.91
I E 0.90
V E 0.80
G E 0.71
N E 0.63
L C 0.47
T C 0.63
A C 0.75
D C 0.85
P C 0.65
E C 0.47
L E 0.59
R E 0.68
F E 0.77
T C 0.70
P C 0.85
S C 0.93
G C 0.93
A C 0.73
A E 0.78
V E 0.89
A E 0.92
N E 0.92
F E 0.93
T E 0.92
V E 0.91
A E 0.82
S E 0.69
T C 0.53
P C 0.64
R C 0.59
I C 0.56
Y C 0.60
D C 0.74
R C 0.80
Q C 0.85
T C 0.83
G C 0.73
E C 0.48
W E 0.45
K C 0.49
D C 0.63
G C 0.64
E C 0.57
A E 0.49
L E 0.61
F E 0.79
L E 0.84
R E 0.86
C E 0.86
N E 0.85
I E 0.72
W C 0.52
R C 0.56
E H 0.62
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 0.59
T C 0.61
R C 0.78
G C 0.91
A C 0.84
R E 0.65
V E 0.88
I E 0.91
V E 0.91
S E 0.83
G E 0.82
R E 0.85
L E 0.84
K E 0.82
Q E 0.81
R E 0.65
S E 0.72
F E 0.76
E E 0.79
T C 0.59
R C 0.81
E C 0.91
G C 0.89
E C 0.55
K E 0.87
R E 0.86
T E 0.88
V E 0.88
I E 0.90
E E 0.92
V E 0.92
E E 0.91
V E 0.86
D E 0.66
E E 0.52
I C 0.62
G C 0.70
P C 0.47
S H 0.46
L H 0.45
R H 0.48
Y H 0.40
A C 0.58
T C 0.80
A C 0.92
END