PFRMAT SS
TARGET T0155
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0155.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0155.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0155.t2k.str.rdb  (weight 1.53983)
METHOD T0155.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 T0155.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0155
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 T0155.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 49
METHOD
METHOD ============================================
METHOD Comments from T0155.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0155
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 T0155.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 49
METHOD
METHOD ============================================
METHOD Comments from T0155.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0155
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 T0155.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 49
METHOD
METHOD ============================================
METHOD Comments from T0155.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0155
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 T0155.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 49
METHOD
METHOD ============================================
MODEL 1
M C 0.88
A C 0.75
D C 0.66
R E 0.71
I E 0.87
E E 0.90
L E 0.87
R E 0.62
G C 0.50
L E 0.79
T E 0.90
V E 0.92
H E 0.89
G E 0.88
R E 0.85
H E 0.68
G C 0.55
V C 0.69
Y C 0.76
D H 0.65
H H 0.79
E H 0.84
R H 0.76
V H 0.63
A C 0.69
G C 0.92
Q C 0.88
R C 0.57
F E 0.79
V E 0.90
I E 0.91
D E 0.91
V E 0.91
T E 0.90
V E 0.87
W E 0.81
I E 0.67
D C 0.61
L H 0.48
A H 0.61
E H 0.67
A H 0.56
A C 0.53
N C 0.60
S C 0.66
D C 0.68
D C 0.67
L H 0.61
A H 0.67
D H 0.65
T H 0.49
Y C 0.49
D C 0.60
Y H 0.93
V H 0.95
R H 0.96
L H 0.96
A H 0.96
S H 0.96
R H 0.96
A H 0.96
A H 0.96
E H 0.95
I H 0.93
V H 0.89
A H 0.69
G C 0.69
P C 0.84
P C 0.62
R H 0.72
K H 0.78
L H 0.83
I H 0.94
E H 0.95
T H 0.95
V H 0.95
G H 0.95
A H 0.95
E H 0.95
I H 0.95
A H 0.94
D H 0.93
H H 0.90
V H 0.84
M H 0.61
D C 0.62
D C 0.82
Q C 0.84
R C 0.81
V C 0.61
H E 0.59
A E 0.87
V E 0.91
E E 0.92
V E 0.91
A E 0.91
V E 0.84
H E 0.57
K C 0.68
P C 0.83
Q C 0.86
A C 0.86
P C 0.83
I C 0.76
P C 0.71
Q C 0.66
T C 0.62
F C 0.58
D C 0.65
D C 0.66
V E 0.53
A E 0.75
V E 0.91
V E 0.92
I E 0.92
R E 0.88
R E 0.78
S E 0.52
R C 0.73
R C 0.84
G C 0.85
G C 0.80
R C 0.68
G E 0.49
W E 0.68
V E 0.74
V E 0.62
P C 0.60
A C 0.77
G C 0.83
G C 0.82
A C 0.79
V C 0.90
END