%  SAM: /projects/compbio/bin/i686/hmmscore v3.4 (July 31, 2003) compiled 09/03/03_16:30:36
%  (c) 1992-2001 Regents of the University of California, Santa Cruz
%
%          Sequence Alignment and Modeling Software System
%         http://www.cse.ucsc.edu/research/compbio/sam.html
%
% ----------------- Citations (SAM, SAM-T2K, HMMs) --------------------
% R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
%  Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
% K. Karplus, et al., What is the value added by human intervention in protein
%  structure prediction, Proteins: Stucture, Function, Genetics 45(S5):86--91, 2001.
% A. Krogh et al., Hidden Markov models in computational biology:
%  Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
% ---------------------------------------------------------------------
%  CB_burial_14_7foo.1.YGR212W.t2k-100-30-CB_burial_14_7   Host: cc50    Sun Oct 12 01:40:01 2003
%  karplus                                                 Dir:  /projects/compbio/experiments/protein-predict/yeast/YGR2/YGR212W
% ---------------------------------------------------------------------
% Inserted Files: 
% Database Files:  /projects/compbio/experiments/models.97/indexes/t2k.x-seqs,/projects/compbio/experiments/models.97/indexes/t2k.CB-burial-14-7s
%
% Subsequence-submodel (local) (SW = 2)
% Simple scores adjusted by ln(seq len) (adjust_score = 2)
% Track 0 FIMs added (geometric mean of match probabilities (6))
% Track 0 Coeff 1.000 File YGR212W.t2k-w0.5.mod
% Track 1 FIMs added (the generic node (5))
% Track 1 Coeff 0.300 File YGR212W.t2k.CB_burial_14_7.mod
% Score DP Method: forward all-paths (dpstyle = 0)
% Align DP Method: viterbi (adpstyle = 1)
% 8763 sequences, 2072585 residues, 469 nodes, 437.98 seconds
%
% Sequence scores selected if better than:
%	 E-value (Emax 4.0e+01) (select_score=4)
%
% Simple: NLL-NULL using FIM probabilities
% Reverse: NLL-NULL for the reverse sequence NULL model
%    Calculated when Simple < simple_threshold (0.00)
% E-value on N (=8162) sequences:
%    N / (1 + exp(-(lambda(=1.5473) * Reverse)^tau(=0.7636)))
%    Calculated when Simple < simple_threshold (0.00)
%    Rescale E-values or use -dbsize for multiple scoring runs.
% Scores sorted by E-value, best first
%
% Sequence ID   Length      Simple     Reverse     E-value      X count
1jk0B             345       -38.81      -13.72     2.72e-01
1fgyA             127       -32.20       -9.48     3.43e+00
1mr7A             209       -34.31       -9.10     4.35e+00
1kk6A             209       -34.68       -8.69     5.67e+00
1jb2A             127       -30.65       -8.03     8.64e+00
1ldjB              90       -29.03       -7.71     1.06e+01
4ubpB             126       -33.39       -7.69     1.08e+01
1ubpB             122       -32.93       -7.44     1.28e+01
7ahlA             293       -35.57       -7.20     1.50e+01
7icd              416       -30.43       -7.10     1.59e+01
1a4kA             217       -32.36       -6.99     1.73e+01
1mxiA             160       -30.32       -6.64     2.18e+01
1wjbA              55       -26.48       -6.58     2.27e+01
1o54A             277       -30.47       -6.58     2.27e+01
1k87A             669       -34.26       -6.53     2.35e+01
1iso              416       -29.68       -6.50     2.40e+01
1lvl              458       -30.82       -6.50     2.40e+01
1dkzA             219       -33.17       -6.42     2.53e+01
1dkxA             219       -32.92       -6.37     2.63e+01
1g6oA             330       -30.65       -6.27     2.81e+01
1pb1A             416       -29.51       -6.20     2.94e+01
1jm4B             118       -28.17       -6.07     3.22e+01
1b5fA             239       -32.77       -6.06     3.25e+01
1gy6A             127       -28.98       -6.04     3.28e+01
1flcB             175       -33.36       -5.99     3.41e+01
1bd2D             204       -30.20       -5.98     3.42e+01
1kxoA             184       -28.71       -5.97     3.44e+01
1f4qA             165       -29.37       -5.89     3.65e+01
1jn5B             250       -31.06       -5.84     3.79e+01
1g3p              217       -29.01       -5.81     3.86e+01
1obpA             159       -31.08       -5.80     3.89e+01