/projects/compbio/bin/alpha.new/hmmscore T0118.t2k-2track \ -trackmod T0118.t2k-w0.5.mod,T0118.t2k-2d.mod \ -db /projects/compbio/experiments/models.97/indexes/t99.seqs,/projects/compbio/experiments/models.97/indexes/t99.2ds \ -alphabet protein,EHL2 \ -trackcoeff 0.5,0.5 \ -sw 2 -dpstyle 0 \ -select_score 4 -Emax 40. SAM: /projects/compbio/bin/alpha.new/hmmscore v3.2 (July 31, 2000) compiled 08/11/00_16:27:39 T0118.t2k-w0.5.mod(21): Reading track 0 model from MODEL -- Model from alignment file /projects/compbio/tmp/tmp-build-weighted-model-alpha-1829/tmp.a2m T0118.t2k-2d.mod(923): Reading track 1 model from MODEL -- Model from 2nd structure file T0118.t2k.2d.rdb Calculating Distances (. = 1000 sequences) .... Average NLL-Simple NULL score: -10.680760 Database has 3506 sequences with 788879 residues.