PFRMAT SS
TARGET T0150
AUTHOR 4069-6308-1312 
METHOD This file is the result of combining several RDB files, specifically
METHOD T0150.t2k.dssp-ebghstl.rdb  (weight 1.53986)
METHOD T0150.t2k.stride-ebghtl.rdb  (weight 1.24869)
METHOD T0150.t2k.str.rdb  (weight 1.53983)
METHOD T0150.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 T0150.t2k.dssp-ebghstl.rdb
METHOD ============================================
METHOD TARGET T0150
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 T0150.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 77
METHOD
METHOD ============================================
METHOD Comments from T0150.t2k.stride-ebghtl.rdb
METHOD ============================================
METHOD TARGET T0150
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 T0150.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 77
METHOD
METHOD ============================================
METHOD Comments from T0150.t2k.str.rdb
METHOD ============================================
METHOD TARGET T0150
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 T0150.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 77
METHOD
METHOD ============================================
METHOD Comments from T0150.t2k.alpha.rdb
METHOD ============================================
METHOD TARGET T0150
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 T0150.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 77
METHOD
METHOD ============================================
MODEL 1
G C 0.76
S H 0.57
V H 0.78
D H 0.81
F H 0.91
A H 0.94
F H 0.95
E H 0.96
L H 0.96
R H 0.95
K H 0.95
A H 0.95
Q H 0.93
D H 0.86
T C 0.54
G C 0.92
K C 0.84
I E 0.53
V E 0.54
M C 0.50
G C 0.61
A H 0.73
R H 0.90
K H 0.93
S H 0.94
I H 0.95
Q H 0.96
Y H 0.96
A H 0.95
K H 0.91
M C 0.59
G C 0.91
G C 0.90
A C 0.75
K E 0.56
L E 0.92
I E 0.93
I E 0.93
V E 0.88
A E 0.57
R C 0.73
N C 0.82
A C 0.88
R C 0.89
P H 0.64
D H 0.69
I H 0.79
K H 0.84
E H 0.82
D H 0.80
I H 0.91
E H 0.95
Y H 0.95
Y H 0.95
A H 0.95
R H 0.94
L H 0.86
S C 0.58
G C 0.93
I C 0.89
P C 0.64
V E 0.86
Y E 0.91
E E 0.91
F E 0.87
E E 0.57
G C 0.78
T C 0.83
S H 0.72
V H 0.82
E H 0.80
L H 0.85
G H 0.81
T H 0.81
L H 0.73
L C 0.55
G C 0.91
R C 0.86
P C 0.77
H C 0.63
T E 0.56
V E 0.85
S E 0.91
A E 0.93
L E 0.92
A E 0.91
V E 0.87
V E 0.71
D C 0.70
P C 0.80
G C 0.80
E H 0.59
S H 0.80
R H 0.85
I H 0.86
L H 0.84
A H 0.77
L H 0.70
G H 0.48
G C 0.58
K C 0.70
E C 0.91
END