# command:# Prefix for input files set to /projects/compbio/experiments/undertaker/atoms-inputs/ # command:# reading dunbrack-2191.atoms # #computed average backbone with maximum peptide_sq_deviance = 0.002 # computed average trans backbone unit from 53157 examples # computed average trans backbone unit before proline from 2010 examples # computed average cis backbone unit from 97 examples # trans (non-proline) backbone unit: # CA= -2.2087 1.0126 -0.0030 # O= -0.1499 2.2440 0.0016 # C= -0.6889 1.1368 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4581 -0.0000 0.0000 # cis backbone unit: # CA= -0.1436 2.4534 -0.0002 # O= -2.0284 0.9742 0.0015 # C= -0.8018 1.0771 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4668 0.0000 0.0000 # trans backbone unit before proline: # CA= -2.2100 1.0631 -0.0014 # O= -0.1236 2.2458 0.0075 # C= -0.6872 1.1517 -0.0000 # N+1= 0.0000 0.0000 0.0000 # CA+1= 1.4660 0.0000 0.0000 # After reading dunbrack-2191.atoms have 2191 chains in training database # Count of chains,residues,atoms: 2191,500310,3902258 # 493341 residues have no bad marker # 3226 residues lack atoms needed to compute omega # 1453 residues have cis peptide # number of each bad type: # NON_STANDARD_RESIDUE 4 # HAS_OXT 1167 # TOO_MANY_ATOMS 1 # TOO_FEW_ATOMS 3052 # HAS_UNKNOWN_ATOMS 9 # HAS_DUPLICATE_ATOMS 0 # CHAIN_BREAK_BEFORE 979 # NON_PLANAR_PEPTIDE 888 # BAD_PEPTIDE 2680 # Note: may sum to more than number of residues, # because one residue may have multiple problems # command:# Reading rotamer library from dunbrack-2191.rot # command:# Prefix for input files set to /projects/compbio/experiments/undertaker/spots/ # command:# ReadAtomType exp-pdb.types Read AtomType exp-pdb with 49 types. # command:# ReadClashTable exp-pdb-2191-2symm.clash # Read ClashTable exp-pdb-2191-2symm checking bonds symmetric at MaxSep 2 # command:# command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0290/ # command:# Making conformation for sequence T0290 numbered 1 through 173 Created new target T0290 from T0290.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0290/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0290/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0290//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0290/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0290/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0290/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xyhA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1xyhA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1xyhA/merged-good-all-a2m.gz for input Trying 1xyhA/merged-good-all-a2m Error: Couldn't open file 1xyhA/merged-good-all-a2m or 1xyhA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2rmcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2rmcA expands to /projects/compbio/data/pdb/2rmc.pdb.gz 2rmcA:# T0290 read from 2rmcA/merged-good-all-a2m # 2rmcA read from 2rmcA/merged-good-all-a2m # adding 2rmcA to template set # found chain 2rmcA in template set T0290 6 :FDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 2rmcA 42 :FDVRIGDKDVGRIVIGLFGNVVPKTVENFVALATGEKGYG # choosing archetypes in rotamer library T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGELI 2rmcA 82 :YKGSIFHRVIKDFMIQGGDFTARDGTGGMSIYGETFPDENFKLKHYGIGWVSMANAGPDTNGSQFFITLTKPTWLDGKHVVFGKVLDGMTVVHSIELQATDGHDRPLTDCTIVNSGKID Number of specific fragments extracted= 2 number of extra gaps= 0 total=2 Number of alignments=1 # 2rmcA read from 2rmcA/merged-good-all-a2m # found chain 2rmcA in template set T0290 5 :FFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 2rmcA 41 :FFDVRIGDKDVGRIVIGLFGNVVPKTVENFVALATGEKGYG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGELI 2rmcA 82 :YKGSIFHRVIKDFMIQGGDFTARDGTGGMSIYGETFPDENFKLKHYGIGWVSMANAGPDTNGSQFFITLTKPTWLDGKHVVFGKVLDGMTVVHSIELQATDGHDRPLTDCTIVNSGKID Number of specific fragments extracted= 2 number of extra gaps= 0 total=4 Number of alignments=2 # 2rmcA read from 2rmcA/merged-good-all-a2m # found chain 2rmcA in template set T0290 4 :CFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2rmcA 40 :VFFDVRIGDKDVGRIVIGLFGNVVPKTVENFVALATGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGELI 2rmcA 78 :KGYGYKGSIFHRVIKDFMIQGGDFTARDGTGGMSIYGETFPDENFKLKHYGIGWVSMANAGPDTNGSQFFITLTKPTWLDGKHVVFGKVLDGMTVVHSIELQATDGHDRPLTDCTIVNSGKID Number of specific fragments extracted= 2 number of extra gaps= 0 total=6 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1awqA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1awqA expands to /projects/compbio/data/pdb/1awq.pdb.gz 1awqA:# T0290 read from 1awqA/merged-good-all-a2m # 1awqA read from 1awqA/merged-good-all-a2m # adding 1awqA to template set # found chain 1awqA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awqA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1awqA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1awqA 1048 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1awqA 1147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=9 Number of alignments=4 # 1awqA read from 1awqA/merged-good-all-a2m # found chain 1awqA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awqA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1awqA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1awqA 1048 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1awqA 1147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=12 Number of alignments=5 # 1awqA read from 1awqA/merged-good-all-a2m # found chain 1awqA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awqA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1awqA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1awqA 1044 :KGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERF T0290 153 :TDAASKPFAEVRILSCGEL 1awqA 1146 :GSRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=15 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qngA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1qngA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1qngA/merged-good-all-a2m.gz for input Trying 1qngA/merged-good-all-a2m Error: Couldn't open file 1qngA/merged-good-all-a2m or 1qngA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1lopA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1lopA expands to /projects/compbio/data/pdb/1lop.pdb.gz 1lopA:# T0290 read from 1lopA/merged-good-all-a2m # 1lopA read from 1lopA/merged-good-all-a2m # adding 1lopA to template set # found chain 1lopA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1lopA)E164 T0290 9 :AINNQPAGRVVFELFSDVCPKTCENFRCLC 1lopA 2 :VTFHTNHGDIVIKTFDDKAPETVKNFLDYC T0290 41 :EKG 1lopA 32 :REG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGE 1lopA 35 :FYNNTIFHRVINGFMIQGGGFEPGMKQKAT T0290 86 :GGFFEDESFAVKHNAAFLLSMANRG 1lopA 65 :KEPIKNEANNGLKNTRGTLAMARTQ T0290 111 :KDTNGSQFFITTKPTPHLD 1lopA 91 :PHSATAQFFINVVDNDFLN T0290 130 :GHHVVFGQVISGQEVVREIENQKT 1lopA 118 :WGYCVFAEVVDGMDEVDKIKGVAT T0290 155 :A 1lopA 146 :M T0290 156 :ASKPFAEVRILSCGEL 1lopA 148 :QDVPKEDVIIESVTVS Number of specific fragments extracted= 8 number of extra gaps= 0 total=23 Number of alignments=7 # 1lopA read from 1lopA/merged-good-all-a2m # found chain 1lopA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1lopA)E164 T0290 9 :AINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1lopA 2 :VTFHTNHGDIVIKTFDDKAPETVKNFLDYCREGF T0290 54 :YKSCLFHRVVKDFMVQGGDF 1lopA 36 :YNNTIFHRVINGFMIQGGGF T0290 76 :GNGRGGESI 1lopA 56 :EPGMKQKAT T0290 86 :GGFFEDESFAVKHNAAFLLSMANRG 1lopA 65 :KEPIKNEANNGLKNTRGTLAMARTQ T0290 111 :KDTNGSQFFITTKPTPHLDGH 1lopA 91 :PHSATAQFFINVVDNDFLNFS T0290 132 :HVVFGQVISGQEVVREIENQKTDA 1lopA 120 :YCVFAEVVDGMDEVDKIKGVATGR T0290 156 :ASKPFAEVRILSCGEL 1lopA 148 :QDVPKEDVIIESVTVS Number of specific fragments extracted= 7 number of extra gaps= 0 total=30 Number of alignments=8 # 1lopA read from 1lopA/merged-good-all-a2m # found chain 1lopA in template set T0290 9 :AINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1lopA 2 :VTFHTNHGDIVIKTFDDKAPETVKNFLDYCREG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGES 1lopA 35 :FYNNTIFHRVINGFMIQGGGFEPGMKQKATK T0290 86 :GGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLD 1lopA 66 :EPIKNEANNGLKNTRGTLAMARTQAPHSATAQFFINVVDNDFLN T0290 130 :GHHVVFGQVISGQEVVREIENQKTDA 1lopA 118 :WGYCVFAEVVDGMDEVDKIKGVATGR T0290 156 :ASKPFAEVRILSCGEL 1lopA 148 :QDVPKEDVIIESVTVS Number of specific fragments extracted= 5 number of extra gaps= 0 total=35 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zmfA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1zmfA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1zmfA/merged-good-all-a2m.gz for input Trying 1zmfA/merged-good-all-a2m Error: Couldn't open file 1zmfA/merged-good-all-a2m or 1zmfA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1awsA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1awsA expands to /projects/compbio/data/pdb/1aws.pdb.gz 1awsA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0290 read from 1awsA/merged-good-all-a2m # 1awsA read from 1awsA/merged-good-all-a2m # adding 1awsA to template set # found chain 1awsA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awsA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1awsA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1awsA 1048 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1awsA 1147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=38 Number of alignments=10 # 1awsA read from 1awsA/merged-good-all-a2m # found chain 1awsA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awsA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1awsA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1awsA 1048 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1awsA 1147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=41 Number of alignments=11 # 1awsA read from 1awsA/merged-good-all-a2m # found chain 1awsA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1awsA)E1165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1awsA 1003 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1awsA 1044 :KGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERF T0290 153 :TDAASKPFAEVRILSCGEL 1awsA 1146 :GSRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=44 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2eslA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/2eslA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/2eslA/merged-good-all-a2m.gz for input Trying 2eslA/merged-good-all-a2m Error: Couldn't open file 2eslA/merged-good-all-a2m or 2eslA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zcxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zcxA expands to Error: no filename for 1zcxA 1zcxA expands to Error: no filename for 1zcxA 1zcxA expands to Error: no filename for 1zcxA # T0290 read from 1zcxA/merged-good-all-a2m # 1zcxA read from 1zcxA/merged-good-all-a2m # adding 1zcxA to template set Error: can't find template for 1zcxA or 1zcxA, so skipping it. # 1zcxA read from 1zcxA/merged-good-all-a2m # adding 1zcxA to template set Error: can't find template for 1zcxA or 1zcxA, so skipping it. # 1zcxA read from 1zcxA/merged-good-all-a2m # adding 1zcxA to template set Error: can't find template for 1zcxA or 1zcxA, so skipping it. # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yndA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yndA expands to /projects/compbio/data/pdb/1ynd.pdb.gz 1yndA:# T0290 read from 1yndA/merged-good-all-a2m # 1yndA read from 1yndA/merged-good-all-a2m # adding 1yndA to template set # found chain 1yndA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1yndA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1yndA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1yndA 47 :GYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1yndA 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=47 Number of alignments=13 # 1yndA read from 1yndA/merged-good-all-a2m # found chain 1yndA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1yndA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1yndA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1yndA 48 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1yndA 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=50 Number of alignments=14 # 1yndA read from 1yndA/merged-good-all-a2m # found chain 1yndA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1yndA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1yndA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1yndA 44 :KGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERF T0290 153 :TDAASKPFAEVRILSCGEL 1yndA 146 :GSRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=53 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2nul/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/2nul/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/2nul/merged-good-all-a2m.gz for input Trying 2nul/merged-good-all-a2m Error: Couldn't open file 2nul/merged-good-all-a2m or 2nul/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2c3bA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/2c3bA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/2c3bA/merged-good-all-a2m.gz for input Trying 2c3bA/merged-good-all-a2m Error: Couldn't open file 2c3bA/merged-good-all-a2m or 2c3bA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ihgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ihgA expands to /projects/compbio/data/pdb/1ihg.pdb.gz 1ihgA:# T0290 read from 1ihgA/merged-good-all-a2m # 1ihgA read from 1ihgA/merged-good-all-a2m # adding 1ihgA to template set # found chain 1ihgA in template set T0290 4 :CFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTD 1ihgA 18 :VFFDVDIGGERVGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKKFMIQGGDFSNQNGTGGESIYGEKFEDENFHYKHDKEGLLSMANAGSNTNGSQFFITTVPTPHLDGKHVVFGQVIKGMGVAKILENVEVK T0290 156 :ASKPFAEVRILSCGELI 1ihgA 169 :GEKPAKLCVIAECGELK Number of specific fragments extracted= 2 number of extra gaps= 0 total=55 Number of alignments=16 # 1ihgA read from 1ihgA/merged-good-all-a2m # found chain 1ihgA in template set T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKT 1ihgA 16 :PRVFFDVDIGGERVGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKKFMIQGGDFSNQNGTGGESIYGEKFEDENFHYKHDKEGLLSMANAGSNTNGSQFFITTVPTPHLDGKHVVFGQVIKGMGVAKILENVEV T0290 155 :AASKPFAEVRILSCGELI 1ihgA 168 :KGEKPAKLCVIAECGELK Number of specific fragments extracted= 2 number of extra gaps= 0 total=57 Number of alignments=17 # 1ihgA read from 1ihgA/merged-good-all-a2m # found chain 1ihgA in template set T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 1ihgA 16 :PRVFFDVDIGGERVGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKKFMIQGGDFSNQNGTGGESIYGEKFEDENFHYKHDKEGLLSMANAGSNTNGSQFFITTVPTPHLDGKHVVFGQVIKGMGVAKILENVEVKGE T0290 158 :KPFAEVRILSCGELI 1ihgA 171 :KPAKLCVIAECGELK Number of specific fragments extracted= 2 number of extra gaps= 0 total=59 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1a58/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1a58 expands to /projects/compbio/data/pdb/1a58.pdb.gz 1a58:Warning: there is no chain 1a58 will retry with 1a58A # T0290 read from 1a58/merged-good-all-a2m # 1a58 read from 1a58/merged-good-all-a2m # adding 1a58 to template set # found chain 1a58 in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1a58)V177 T0290 6 :FDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGEL 1a58 11 :LDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKNFMIQGGDFTKGDGTGGESIYGGMFDDEEFVMKHDEPFVVSMANKGPNTNGSQFFITTTPAPHLNNIHVVFGKVVSGQEVVTKIEYLKTNSKNRPLADVVILNCGEL Number of specific fragments extracted= 1 number of extra gaps= 0 total=60 Number of alignments=19 # 1a58 read from 1a58/merged-good-all-a2m # found chain 1a58 in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1a58)V177 T0290 4 :CFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGEL 1a58 9 :VFLDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKNFMIQGGDFTKGDGTGGESIYGGMFDDEEFVMKHDEPFVVSMANKGPNTNGSQFFITTTPAPHLNNIHVVFGKVVSGQEVVTKIEYLKTNSKNRPLADVVILNCGEL Number of specific fragments extracted= 1 number of extra gaps= 0 total=61 Number of alignments=20 # 1a58 read from 1a58/merged-good-all-a2m # found chain 1a58 in template set T0290 3 :RCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGEL 1a58 8 :RVFLDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKNFMIQGGDFTKGDGTGGESIYGGMFDDEEFVMKHDEPFVVSMANKGPNTNGSQFFITTTPAPHLNNIHVVFGKVVSGQEVVTKIEYLKTNSKNRPLADVVILNCGEL Number of specific fragments extracted= 1 number of extra gaps= 0 total=62 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vdnA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vdnA expands to /projects/compbio/data/pdb/1vdn.pdb.gz 1vdnA:# T0290 read from 1vdnA/merged-good-all-a2m # 1vdnA read from 1vdnA/merged-good-all-a2m # adding 1vdnA to template set # found chain 1vdnA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (1vdnA)L162 T0290 5 :FFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1vdnA 5 :YFDVEADGQPIGRVVFKLYNDIVPKTAENFRALCTGEKGF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1vdnA 45 :GYAGSPFHRVIPDFMLQGGDFTAGNGTGGKSIYGGKFPDENFKKHHDRPGLLSMANAGPNTNGSQFFITTVPCPWLDGKHVVFGEVVDGYDIVKKVESLG T0290 154 :DAASKPFAEVRILSCGE 1vdnA 145 :SPSGATKARIVVAKSGE Number of specific fragments extracted= 3 number of extra gaps= 0 total=65 Number of alignments=22 # 1vdnA read from 1vdnA/merged-good-all-a2m # found chain 1vdnA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (1vdnA)L162 T0290 3 :RCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1vdnA 3 :QVYFDVEADGQPIGRVVFKLYNDIVPKTAENFRALCTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1vdnA 46 :YAGSPFHRVIPDFMLQGGDFTAGNGTGGKSIYGGKFPDENFKKHHDRPGLLSMANAGPNTNGSQFFITTVPCPWLDGKHVVFGEVVDGYDIVKKVESLG T0290 154 :DAASKPFAEVRILSCGE 1vdnA 145 :SPSGATKARIVVAKSGE Number of specific fragments extracted= 3 number of extra gaps= 0 total=68 Number of alignments=23 # 1vdnA read from 1vdnA/merged-good-all-a2m # found chain 1vdnA in template set Warning: unaligning (T0290)P2 because first residue in template chain is (1vdnA)S2 Warning: unaligning (T0290)L171 because last residue in template chain is (1vdnA)L162 T0290 3 :RCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1vdnA 3 :QVYFDVEADGQPIGRVVFKLYNDIVPKTAENFRALCTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1vdnA 42 :KGFGYAGSPFHRVIPDFMLQGGDFTAGNGTGGKSIYGGKFPDENFKKHHDRPGLLSMANAGPNTNGSQFFITTVPCPWLDGKHVVFGEVVDGYDIVKKVESL T0290 153 :TDAASKPFAEVRILSCGE 1vdnA 144 :GSPSGATKARIVVAKSGE Number of specific fragments extracted= 3 number of extra gaps= 0 total=71 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fu0A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fu0A expands to /projects/compbio/data/pdb/2fu0.pdb.gz 2fu0A:# T0290 read from 2fu0A/merged-good-all-a2m # 2fu0A read from 2fu0A/merged-good-all-a2m # adding 2fu0A to template set # found chain 2fu0A in template set Warning: unaligning (T0290)F6 because first residue in template chain is (2fu0A)P5 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLC 2fu0A 6 :KSAIIYTTMGDIHISLFYKECKKTVQNFSVHS T0290 41 :EKG 2fu0A 38 :ING T0290 53 :HYKSCLFHRVVKDFMVQGGD 2fu0A 41 :YYNNCIFHRVIKHFMVQTGD T0290 74 :SEGNGRGGESIYGGFFEDESFA 2fu0A 61 :PSGDGTGGESIWGNEFEDEFFD T0290 96 :VKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 2fu0A 84 :LNHSKPFMVSMANCGPNTNGSQFFITTVPCPWLDFKHTVFGKVTQGSKIVLDIEKVRTDKRDKPLEDIKILNIKI Number of specific fragments extracted= 5 number of extra gaps= 0 total=76 Number of alignments=25 # 2fu0A read from 2fu0A/merged-good-all-a2m # found chain 2fu0A in template set Warning: unaligning (T0290)F6 because first residue in template chain is (2fu0A)P5 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 2fu0A 6 :KSAIIYTTMGDIHISLFYKECKKTVQNFSVHSINGY T0290 54 :YKSCLFHRVVKDFMVQGGDFS 2fu0A 42 :YNNCIFHRVIKHFMVQTGDPS T0290 76 :GNGRGGESIYGGFFEDES 2fu0A 63 :GDGTGGESIWGNEFEDEF T0290 94 :FAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 2fu0A 82 :DHLNHSKPFMVSMANCGPNTNGSQFFITTVPCPWLDFKHTVFGKVTQGSKIVLDIEKVRTDKRDKPLEDIKILNIKI Number of specific fragments extracted= 4 number of extra gaps= 0 total=80 Number of alignments=26 # 2fu0A read from 2fu0A/merged-good-all-a2m # found chain 2fu0A in template set T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2fu0A 7 :SAIIYTTMGDIHISLFYKECKKTVQNFSVHSING T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 2fu0A 41 :YYNNCIFHRVIKHFMVQTGDPSGDGTGGESIWGNEFEDEFFDHLNHSKPFMVSMANCGPNTNGSQFFITTVPCPWLDFKHTVFGKVTQGSKIVLDIEKVRTDKRDKPLEDIKILNIKI Number of specific fragments extracted= 2 number of extra gaps= 0 total=82 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xwnA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xwnA expands to /projects/compbio/data/pdb/1xwn.pdb.gz 1xwnA:# T0290 read from 1xwnA/merged-good-all-a2m # 1xwnA read from 1xwnA/merged-good-all-a2m # adding 1xwnA to template set # found chain 1xwnA in template set T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLC 1xwnA 7 :DSWQPPNVYLETSMGIIVLELYWKHAPKTCKNFAELA T0290 41 :EKG 1xwnA 44 :RRG T0290 53 :HYKSCLFHRVVKDFMVQGGD 1xwnA 47 :YYNGTKFHRIIKDFMIQGGD T0290 74 :SEGNGRGGESIYGGFFEDESFA 1xwnA 67 :PTGTGRGGASIYGKQFEDELHP T0290 96 :VKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGEL 1xwnA 90 :LKFTGAGILAMANAGPDTNGSQFFVTLAPTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAYPS Number of specific fragments extracted= 5 number of extra gaps= 0 total=87 Number of alignments=28 # 1xwnA read from 1xwnA/merged-good-all-a2m # found chain 1xwnA in template set T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1xwnA 7 :DSWQPPNVYLETSMGIIVLELYWKHAPKTCKNFAELARRGY T0290 54 :YKSCLFHRVVKDFMVQGGDFS 1xwnA 48 :YNGTKFHRIIKDFMIQGGDPT T0290 76 :GNGRGGESIYGGFFEDES 1xwnA 69 :GTGRGGASIYGKQFEDEL T0290 94 :FAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGEL 1xwnA 88 :PDLKFTGAGILAMANAGPDTNGSQFFVTLAPTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAYPS Number of specific fragments extracted= 4 number of extra gaps= 0 total=91 Number of alignments=29 # 1xwnA read from 1xwnA/merged-good-all-a2m # found chain 1xwnA in template set T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1xwnA 13 :NVYLETSMGIIVLELYWKHAPKTCKNFAELARRG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1xwnA 47 :YYNGTKFHRIIKDFMIQGGDPTGTGRGGASIYGKQFEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPTQWLDGKHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAYP Number of specific fragments extracted= 2 number of extra gaps= 0 total=93 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w74A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1w74A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1w74A/merged-good-all-a2m.gz for input Trying 1w74A/merged-good-all-a2m Error: Couldn't open file 1w74A/merged-good-all-a2m or 1w74A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1clh/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1clh expands to /projects/compbio/data/pdb/1clh.pdb.gz 1clh:Warning: there is no chain 1clh will retry with 1clhA # T0290 read from 1clh/merged-good-all-a2m # 1clh read from 1clh/merged-good-all-a2m # adding 1clh to template set # found chain 1clh in template set Warning: unaligning (T0290)V62 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1clh)I50 Warning: unaligning (T0290)V63 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1clh)I50 Warning: unaligning (T0290)Q69 because of BadResidue code BAD_PEPTIDE in next template residue (1clh)G57 Warning: unaligning (T0290)G70 because of BadResidue code BAD_PEPTIDE at template residue (1clh)G57 Warning: unaligning (T0290)I172 because last residue in template chain is (1clh)P166 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLC 1clh 5 :PHVLLTTSAGNIELELDKQKAPVSVQNFVDYV T0290 41 :EKG 1clh 37 :NSG T0290 53 :HYKSCLFHR 1clh 40 :FYNNTTFHR T0290 64 :KDFMV 1clh 51 :PGFMI T0290 71 :GDFSEGNGRGGE 1clh 58 :GGFTEQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANRG 1clh 70 :NPPIKNEADNGLRNTRGTIAMARTA T0290 111 :KDTNGSQFFITTKPTPHLD 1clh 96 :KDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKT 1clh 120 :FGYAVFGKVVKGMDVADKISQVPT T0290 154 :DAASKPFAEVRILSCGEL 1clh 148 :PYQNVPSKPVVILSAKVL Number of specific fragments extracted= 9 number of extra gaps= 2 total=102 Number of alignments=31 # 1clh read from 1clh/merged-good-all-a2m # found chain 1clh in template set Warning: unaligning (T0290)V62 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1clh)I50 Warning: unaligning (T0290)V63 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1clh)I50 Warning: unaligning (T0290)Q69 because of BadResidue code BAD_PEPTIDE in next template residue (1clh)G57 Warning: unaligning (T0290)G70 because of BadResidue code BAD_PEPTIDE at template residue (1clh)G57 Warning: unaligning (T0290)I172 because last residue in template chain is (1clh)P166 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1clh 5 :PHVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGF T0290 54 :YKSCLFHR 1clh 41 :YNNTTFHR T0290 64 :KDFMV 1clh 51 :PGFMI T0290 71 :GDFS 1clh 58 :GGFT T0290 76 :GNGRGGES 1clh 62 :EQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANR 1clh 70 :NPPIKNEADNGLRNTRGTIAMART T0290 110 :GKDTNGSQFFITTKPTPHLDGH 1clh 95 :DKDSATSQFFINVADNAFLDHG T0290 132 :HVVFGQVISGQEVVREIENQKT 1clh 122 :YAVFGKVVKGMDVADKISQVPT T0290 154 :D 1clh 148 :P T0290 156 :ASKPFAEVRILSCGEL 1clh 150 :QNVPSKPVVILSAKVL Number of specific fragments extracted= 10 number of extra gaps= 2 total=112 Number of alignments=32 # 1clh read from 1clh/merged-good-all-a2m # found chain 1clh in template set Warning: unaligning (T0290)V62 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1clh)I50 Warning: unaligning (T0290)V63 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1clh)I50 Warning: unaligning (T0290)Q69 because of BadResidue code BAD_PEPTIDE in next template residue (1clh)G57 Warning: unaligning (T0290)G70 because of BadResidue code BAD_PEPTIDE at template residue (1clh)G57 Warning: unaligning (T0290)I172 because last residue in template chain is (1clh)P166 T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1clh 6 :HVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSG T0290 53 :HYKSCLFHR 1clh 40 :FYNNTTFHR T0290 64 :KDFMV 1clh 51 :PGFMI T0290 71 :GDFSEGNGRGGES 1clh 58 :GGFTEQMQQKKPN T0290 86 :GGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLD 1clh 71 :PPIKNEADNGLRNTRGTIAMARTADKDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKTDA 1clh 120 :FGYAVFGKVVKGMDVADKISQVPTHD T0290 156 :ASKPFAEVRILSCGEL 1clh 150 :QNVPSKPVVILSAKVL Number of specific fragments extracted= 7 number of extra gaps= 2 total=119 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bitX/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2bitX expands to /projects/compbio/data/pdb/2bit.pdb.gz 2bitX:# T0290 read from 2bitX/merged-good-all-a2m # 2bitX read from 2bitX/merged-good-all-a2m # adding 2bitX to template set # found chain 2bitX in template set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2bitX)F53 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2bitX)F53 T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 2bitX 4 :PLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGF T0290 53 :HYKSC 2bitX 47 :GYKGS T0290 60 :HRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2bitX 54 :HRVIPSFMCQAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDWLDGKHVVFGHVIEGMDVVKKIESFG T0290 154 :DAASKPFAEVRILSCGEL 2bitX 147 :SKSGRTSKKIVITDCGQL Number of specific fragments extracted= 4 number of extra gaps= 1 total=123 Number of alignments=34 # 2bitX read from 2bitX/merged-good-all-a2m # found chain 2bitX in template set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2bitX)F53 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2bitX)F53 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 2bitX 3 :NPLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGFG T0290 54 :YKSC 2bitX 48 :YKGS T0290 60 :HRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2bitX 54 :HRVIPSFMCQAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDWLDGKHVVFGHVIEGMDVVKKIESFG T0290 154 :DAASKPFAEVRILSCGEL 2bitX 147 :SKSGRTSKKIVITDCGQL Number of specific fragments extracted= 4 number of extra gaps= 1 total=127 Number of alignments=35 # 2bitX read from 2bitX/merged-good-all-a2m # found chain 2bitX in template set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2bitX)F53 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2bitX)F53 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2bitX 3 :NPLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGE T0290 50 :KPLHYKSC 2bitX 44 :KGFGYKGS T0290 60 :HRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 2bitX 54 :HRVIPSFMCQAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDWLDGKHVVFGHVIEGMDVVKKIESF T0290 153 :TDAASKPFAEVRILSCGEL 2bitX 146 :GSKSGRTSKKIVITDCGQL Number of specific fragments extracted= 4 number of extra gaps= 1 total=131 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1h0pA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1h0pA expands to /projects/compbio/data/pdb/1h0p.pdb.gz 1h0pA:Skipped atom 983, because occupancy 0.46 <= existing 0.540 in 1h0pA Skipped atom 985, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 987, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 989, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 991, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 1106, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 1108, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 1110, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 1112, because occupancy 0.460 <= existing 0.540 in 1h0pA Skipped atom 1114, because occupancy 0.460 <= existing 0.540 in 1h0pA # T0290 read from 1h0pA/merged-good-all-a2m # 1h0pA read from 1h0pA/merged-good-all-a2m # adding 1h0pA to template set # found chain 1h0pA in template set Warning: unaligning (T0290)T153 because of BadResidue code BAD_PEPTIDE in next template residue (1h0pA)L172 Warning: unaligning (T0290)D154 because of BadResidue code BAD_PEPTIDE at template residue (1h0pA)L172 T0290 6 :FDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1h0pA 32 :FDMEIGGKPIGRIVIGLFGKTVPKTATNFIELAKKPKGE T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1h0pA 71 :GYPGSKFHRVIADFMIQGGDFTRGDGTGGRSIYGEKFADENFKLKHYGAGWLSMANAGADTNGSQFFITTVKTPWLDGRHVVFGKILEGMDVVRKIEQTE T0290 155 :AASKPFAEVRILSCGEL 1h0pA 173 :PGDRPKQDVIIAASGHI Number of specific fragments extracted= 3 number of extra gaps= 1 total=134 Number of alignments=37 # 1h0pA read from 1h0pA/merged-good-all-a2m # found chain 1h0pA in template set Warning: unaligning (T0290)T153 because of BadResidue code BAD_PEPTIDE in next template residue (1h0pA)L172 Warning: unaligning (T0290)D154 because of BadResidue code BAD_PEPTIDE at template residue (1h0pA)L172 T0290 5 :FFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1h0pA 31 :YFDMEIGGKPIGRIVIGLFGKTVPKTATNFIELAKKPKGEG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1h0pA 72 :YPGSKFHRVIADFMIQGGDFTRGDGTGGRSIYGEKFADENFKLKHYGAGWLSMANAGADTNGSQFFITTVKTPWLDGRHVVFGKILEGMDVVRKIEQTE T0290 155 :AASKPFAEVRILSCGEL 1h0pA 173 :PGDRPKQDVIIAASGHI Number of specific fragments extracted= 3 number of extra gaps= 1 total=137 Number of alignments=38 # 1h0pA read from 1h0pA/merged-good-all-a2m # found chain 1h0pA in template set Warning: unaligning (T0290)T153 because of BadResidue code BAD_PEPTIDE in next template residue (1h0pA)L172 Warning: unaligning (T0290)D154 because of BadResidue code BAD_PEPTIDE at template residue (1h0pA)L172 T0290 3 :RCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1h0pA 29 :RVYFDMEIGGKPIGRIVIGLFGKTVPKTATNFIELAKKPKGE T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1h0pA 71 :GYPGSKFHRVIADFMIQGGDFTRGDGTGGRSIYGEKFADENFKLKHYGAGWLSMANAGADTNGSQFFITTVKTPWLDGRHVVFGKILEGMDVVRKIEQTE T0290 155 :AASKPFAEVRILSCGEL 1h0pA 173 :PGDRPKQDVIIAASGHI Number of specific fragments extracted= 3 number of extra gaps= 1 total=140 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cwoA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1cwoA expands to /projects/compbio/data/pdb/1cwo.pdb.gz 1cwoA:# T0290 read from 1cwoA/merged-good-all-a2m # 1cwoA read from 1cwoA/merged-good-all-a2m # adding 1cwoA to template set # found chain 1cwoA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1cwoA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1cwoA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1cwoA 47 :GYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1cwoA 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=143 Number of alignments=40 # 1cwoA read from 1cwoA/merged-good-all-a2m # found chain 1cwoA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1cwoA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1cwoA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1cwoA 48 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 1cwoA 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=146 Number of alignments=41 # 1cwoA read from 1cwoA/merged-good-all-a2m # found chain 1cwoA in template set Warning: unaligning (T0290)I172 because last residue in template chain is (1cwoA)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1cwoA 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1cwoA 44 :KGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERF T0290 153 :TDAASKPFAEVRILSCGEL 1cwoA 146 :GSRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=149 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qoiA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qoiA expands to /projects/compbio/data/pdb/1qoi.pdb.gz 1qoiA:# T0290 read from 1qoiA/merged-good-all-a2m # 1qoiA read from 1qoiA/merged-good-all-a2m # adding 1qoiA to template set # found chain 1qoiA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (1qoiA)M177 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKG 1qoiA 10 :NPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFR T0290 47 :STQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1qoiA 53 :KDGVPIGYKGSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNGCQFFITCSKCDWLDGKHVVFGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQCGE Number of specific fragments extracted= 2 number of extra gaps= 0 total=151 Number of alignments=43 # 1qoiA read from 1qoiA/merged-good-all-a2m # found chain 1qoiA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (1qoiA)M177 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1qoiA 10 :NPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEF T0290 46 :KSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1qoiA 52 :RKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNGCQFFITCSKCDWLDGKHVVFGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQCGE Number of specific fragments extracted= 2 number of extra gaps= 0 total=153 Number of alignments=44 # 1qoiA read from 1qoiA/merged-good-all-a2m # found chain 1qoiA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (1qoiA)M177 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1qoiA 10 :NPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGE T0290 45 :GKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1qoiA 51 :FRKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNGCQFFITCSKCDWLDGKHVVFGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQCGE Number of specific fragments extracted= 2 number of extra gaps= 0 total=155 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2cfeA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2cfeA expands to /projects/compbio/data/pdb/2cfe.pdb.gz 2cfeA:Skipped atom 658, because occupancy 0.500 <= existing 0.500 in 2cfeA Skipped atom 660, because occupancy 0.500 <= existing 0.500 in 2cfeA Skipped atom 662, because occupancy 0.500 <= existing 0.500 in 2cfeA Skipped atom 664, because occupancy 0.500 <= existing 0.500 in 2cfeA Skipped atom 666, because occupancy 0.500 <= existing 0.500 in 2cfeA # T0290 read from 2cfeA/merged-good-all-a2m # 2cfeA read from 2cfeA/merged-good-all-a2m # adding 2cfeA to template set # found chain 2cfeA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (2cfeA)C162 T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 2cfeA 2 :SNVFFDITKNGAPLGTIKFKLFDDVVPKTAANFRALCTGEKGF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2cfeA 45 :GYAGSHFHRVIPDFMLQGGDFTAGNGTGGKSIYGAKFADENFQLKHNKPGLLSMANAGPNTNGSQFFITTVVTSWLDGKHVVFGEVIDGMNVVKAIEAEG T0290 154 :DAASKPFAEVRILSCGE 2cfeA 145 :SGSGKPRSRIEIAKCGV Number of specific fragments extracted= 3 number of extra gaps= 0 total=158 Number of alignments=46 # 2cfeA read from 2cfeA/merged-good-all-a2m # found chain 2cfeA in template set Warning: unaligning (T0290)L171 because last residue in template chain is (2cfeA)C162 T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 2cfeA 2 :SNVFFDITKNGAPLGTIKFKLFDDVVPKTAANFRALCTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2cfeA 46 :YAGSHFHRVIPDFMLQGGDFTAGNGTGGKSIYGAKFADENFQLKHNKPGLLSMANAGPNTNGSQFFITTVVTSWLDGKHVVFGEVIDGMNVVKAIEAEG T0290 154 :DAASKPFAEVRILSCGE 2cfeA 145 :SGSGKPRSRIEIAKCGV Number of specific fragments extracted= 3 number of extra gaps= 0 total=161 Number of alignments=47 # 2cfeA read from 2cfeA/merged-good-all-a2m # found chain 2cfeA in template set T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2cfeA 2 :SNVFFDITKNGAPLGTIKFKLFDDVVPKTAANFRALCTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 2cfeA 42 :KGFGYAGSHFHRVIPDFMLQGGDFTAGNGTGGKSIYGAKFADENFQLKHNKPGLLSMANAGPNTNGSQFFITTVVTSWLDGKHVVFGEVIDGMNVVKAIEAE T0290 153 :TDAASKPFAEVRILSCGE 2cfeA 144 :GSGSGKPRSRIEIAKCGV Number of specific fragments extracted= 3 number of extra gaps= 0 total=164 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dywA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1dywA expands to /projects/compbio/data/pdb/1dyw.pdb.gz 1dywA:# T0290 read from 1dywA/merged-good-all-a2m # 1dywA read from 1dywA/merged-good-all-a2m # adding 1dywA to template set # found chain 1dywA in template set Warning: unaligning (T0290)Y85 because of BadResidue code BAD_PEPTIDE in next template residue (1dywA)G87 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE at template residue (1dywA)G87 Warning: unaligning (T0290)V163 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1dywA)M164 Warning: unaligning (T0290)R164 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1dywA)M164 Warning: unaligning (T0290)I172 because last residue in template chain is (1dywA)K172 T0290 4 :CFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 1dywA 6 :VFFDITIGGKASGRIVMELYDDVVPKTAGNFRALCTGENGI T0290 46 :KSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESI 1dywA 47 :GKSGKPLHFKGSKFHRIIPNFMIQGGDFTRGNGTGGESI T0290 87 :GFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1dywA 88 :EKFPDENFKEKHTGPGVLSMANAGPNTNGSQFFLCTVKTEWLDGKHVVFGRVVEGLDVVKAVESNG T0290 154 :DAASKPFAE 1dywA 154 :SQSGKPVKD T0290 165 :ILSCGEL 1dywA 165 :IADCGQL Number of specific fragments extracted= 5 number of extra gaps= 2 total=169 Number of alignments=49 # 1dywA read from 1dywA/merged-good-all-a2m # found chain 1dywA in template set Warning: unaligning (T0290)Y85 because of BadResidue code BAD_PEPTIDE in next template residue (1dywA)G87 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE at template residue (1dywA)G87 Warning: unaligning (T0290)V163 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1dywA)M164 Warning: unaligning (T0290)R164 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1dywA)M164 Warning: unaligning (T0290)I172 because last residue in template chain is (1dywA)K172 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 1dywA 3 :RSKVFFDITIGGKASGRIVMELYDDVVPKTAGNFRALCTGENGIG T0290 47 :STQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESI 1dywA 48 :KSGKPLHFKGSKFHRIIPNFMIQGGDFTRGNGTGGESI T0290 87 :GFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 1dywA 88 :EKFPDENFKEKHTGPGVLSMANAGPNTNGSQFFLCTVKTEWLDGKHVVFGRVVEGLDVVKAVESNG T0290 154 :DAASKPFAE 1dywA 154 :SQSGKPVKD T0290 165 :ILSCGEL 1dywA 165 :IADCGQL Number of specific fragments extracted= 5 number of extra gaps= 2 total=174 Number of alignments=50 # 1dywA read from 1dywA/merged-good-all-a2m # found chain 1dywA in template set Warning: unaligning (T0290)Y85 because of BadResidue code BAD_PEPTIDE in next template residue (1dywA)G87 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE at template residue (1dywA)G87 Warning: unaligning (T0290)V163 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1dywA)M164 Warning: unaligning (T0290)R164 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1dywA)M164 Warning: unaligning (T0290)I172 because last residue in template chain is (1dywA)K172 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1dywA 3 :RSKVFFDITIGGKASGRIVMELYDDVVPKTAGNFRALCTGE T0290 43 :GTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESI 1dywA 44 :NGIGKSGKPLHFKGSKFHRIIPNFMIQGGDFTRGNGTGGESI T0290 87 :GFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 1dywA 88 :EKFPDENFKEKHTGPGVLSMANAGPNTNGSQFFLCTVKTEWLDGKHVVFGRVVEGLDVVKAVESN T0290 153 :TDAASKPFAE 1dywA 153 :GSQSGKPVKD T0290 165 :ILSCGEL 1dywA 165 :IADCGQL Number of specific fragments extracted= 5 number of extra gaps= 2 total=179 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2b71A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2b71A expands to /projects/compbio/data/pdb/2b71.pdb.gz 2b71A:# T0290 read from 2b71A/merged-good-all-a2m # 2b71A read from 2b71A/merged-good-all-a2m # adding 2b71A to template set # found chain 2b71A in template set Warning: unaligning (T0290)M67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I89 Warning: unaligning (T0290)V68 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I89 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE in next template residue (2b71A)E107 Warning: unaligning (T0290)G87 because of BadResidue code BAD_PEPTIDE at template residue (2b71A)E107 Warning: unaligning (T0290)F119 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I141 Warning: unaligning (T0290)I120 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I141 Warning: unaligning (T0290)E170 because last residue in template chain is (2b71A)T191 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLC 2b71A 39 :GYITIYTNLGDFEVELYWYHSPKTCLNFYTLC T0290 41 :EKG 2b71A 71 :EMG T0290 53 :HYKSCLFHRVVKDF 2b71A 74 :FYDNTIFHRVIPNF T0290 69 :QGGD 2b71A 90 :QGGD T0290 74 :SEGNGRGGESIY 2b71A 94 :PTGTGKGGKSIY T0290 88 :FFEDESFA 2b71A 108 :YFEDEINK T0290 96 :VKHNAAFLLSMANRGKDTNGSQF 2b71A 117 :LKHTGAGILSMSNNGPNTNSSQF T0290 121 :TTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCG 2b71A 142 :TLAPLPHLDGKHTIFARVSKNMTCIENIASVQTTATNKPIFDLKILRTS Number of specific fragments extracted= 8 number of extra gaps= 3 total=187 Number of alignments=52 # 2b71A read from 2b71A/merged-good-all-a2m # found chain 2b71A in template set Warning: unaligning (T0290)M67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I89 Warning: unaligning (T0290)V68 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I89 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE in next template residue (2b71A)E107 Warning: unaligning (T0290)G87 because of BadResidue code BAD_PEPTIDE at template residue (2b71A)E107 Warning: unaligning (T0290)F119 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I141 Warning: unaligning (T0290)I120 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I141 Warning: unaligning (T0290)E170 because last residue in template chain is (2b71A)T191 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 2b71A 39 :GYITIYTNLGDFEVELYWYHSPKTCLNFYTLCEMGF T0290 54 :YKSCLFHRVVKDF 2b71A 75 :YDNTIFHRVIPNF T0290 69 :QGGDFS 2b71A 90 :QGGDPT T0290 76 :GNGRGGESIY 2b71A 96 :GTGKGGKSIY T0290 88 :FFEDES 2b71A 108 :YFEDEI T0290 94 :FAVKHNAAFLLSMANRGKDTNGSQF 2b71A 115 :KELKHTGAGILSMSNNGPNTNSSQF T0290 121 :TTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCG 2b71A 142 :TLAPLPHLDGKHTIFARVSKNMTCIENIASVQTTATNKPIFDLKILRTS Number of specific fragments extracted= 7 number of extra gaps= 3 total=194 Number of alignments=53 # 2b71A read from 2b71A/merged-good-all-a2m # found chain 2b71A in template set Warning: unaligning (T0290)M67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I89 Warning: unaligning (T0290)V68 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I89 Warning: unaligning (T0290)Y85 because of BadResidue code BAD_PEPTIDE in next template residue (2b71A)E107 Warning: unaligning (T0290)G86 because of BadResidue code BAD_PEPTIDE at template residue (2b71A)E107 Warning: unaligning (T0290)F119 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2b71A)I141 Warning: unaligning (T0290)I120 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2b71A)I141 T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2b71A 40 :YITIYTNLGDFEVELYWYHSPKTCLNFYTLCEMG T0290 53 :HYKSCLFHRVVKDF 2b71A 74 :FYDNTIFHRVIPNF T0290 69 :QGGDFSEGNGRGGESI 2b71A 90 :QGGDPTGTGKGGKSIY T0290 87 :GFFEDESFAVKHNAAFLLSMANRGKDTNGSQF 2b71A 108 :YFEDEINKELKHTGAGILSMSNNGPNTNSSQF T0290 121 :TTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCG 2b71A 142 :TLAPLPHLDGKHTIFARVSKNMTCIENIASVQTTATNKPIFDLKILRTS Number of specific fragments extracted= 5 number of extra gaps= 3 total=199 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xo7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0290 read from 1xo7A/merged-good-all-a2m # 1xo7A read from 1xo7A/merged-good-all-a2m # found chain 1xo7A in training set Warning: unaligning (T0290)G40 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1xo7A)E45 Warning: unaligning (T0290)E41 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xo7A)E45 Warning: unaligning (T0290)K42 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)N46 Warning: unaligning (T0290)S105 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1xo7A)M101 Warning: unaligning (T0290)M106 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xo7A)M101 Warning: unaligning (T0290)A107 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)A102 Warning: unaligning (T0290)L171 because last residue in template chain is (1xo7A)L166 T0290 5 :FFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCT 1xo7A 9 :YFDITIGDEPVGRVVIGLFGNDVPKTVENFKQLAS T0290 43 :GT 1xo7A 47 :GF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKH 1xo7A 49 :GYKGSIFHRVIRNFMIQGGDFTNFDGTGGKSIYGTRFDDENLKIKH T0290 100 :AAFLL 1xo7A 95 :FVGAV T0290 108 :NRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1xo7A 103 :NAGPNSNGSQFFVTTAPTPWLDGRHVVFGKVVEGMDVVKKVENTKTGLNDKPKKAVKINDCGV Number of specific fragments extracted= 5 number of extra gaps= 2 total=204 Number of alignments=55 # 1xo7A read from 1xo7A/merged-good-all-a2m # found chain 1xo7A in training set Warning: unaligning (T0290)G40 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1xo7A)E45 Warning: unaligning (T0290)E41 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xo7A)E45 Warning: unaligning (T0290)K42 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)N46 Warning: unaligning (T0290)S105 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1xo7A)M101 Warning: unaligning (T0290)M106 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xo7A)M101 Warning: unaligning (T0290)A107 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)A102 Warning: unaligning (T0290)L171 because last residue in template chain is (1xo7A)L166 T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCT 1xo7A 6 :DKVYFDITIGDEPVGRVVIGLFGNDVPKTVENFKQLAS T0290 43 :GTG 1xo7A 47 :GFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKH 1xo7A 50 :YKGSIFHRVIRNFMIQGGDFTNFDGTGGKSIYGTRFDDENLKIKH T0290 100 :AAFLL 1xo7A 95 :FVGAV T0290 108 :NRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1xo7A 103 :NAGPNSNGSQFFVTTAPTPWLDGRHVVFGKVVEGMDVVKKVENTKTGLNDKPKKAVKINDCGV Number of specific fragments extracted= 5 number of extra gaps= 2 total=209 Number of alignments=56 # 1xo7A read from 1xo7A/merged-good-all-a2m # found chain 1xo7A in training set Warning: unaligning (T0290)G40 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1xo7A)E45 Warning: unaligning (T0290)E41 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xo7A)E45 Warning: unaligning (T0290)K50 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)N46 Warning: unaligning (T0290)S105 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1xo7A)M101 Warning: unaligning (T0290)M106 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1xo7A)M101 Warning: unaligning (T0290)A107 because of BadResidue code BAD_PEPTIDE at template residue (1xo7A)A102 Warning: unaligning (T0290)L171 because last residue in template chain is (1xo7A)L166 T0290 2 :PRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCT 1xo7A 6 :DKVYFDITIGDEPVGRVVIGLFGNDVPKTVENFKQLAS T0290 51 :PLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAA 1xo7A 47 :GFGYKGSIFHRVIRNFMIQGGDFTNFDGTGGKSIYGTRFDDENLKIKHFVG T0290 103 :LL 1xo7A 98 :AV T0290 108 :NRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGE 1xo7A 103 :NAGPNSNGSQFFVTTAPTPWLDGRHVVFGKVVEGMDVVKKVENTKTGLNDKPKKAVKINDCGV Number of specific fragments extracted= 4 number of extra gaps= 2 total=213 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cynA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1cynA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1cynA/merged-good-all-a2m.gz for input Trying 1cynA/merged-good-all-a2m Error: Couldn't open file 1cynA/merged-good-all-a2m or 1cynA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qnhA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1qnhA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1qnhA/merged-good-all-a2m.gz for input Trying 1qnhA/merged-good-all-a2m Error: Couldn't open file 1qnhA/merged-good-all-a2m or 1qnhA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j2aA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1j2aA expands to /projects/compbio/data/pdb/1j2a.pdb.gz 1j2aA:# T0290 read from 1j2aA/merged-good-all-a2m # 1j2aA read from 1j2aA/merged-good-all-a2m # adding 1j2aA to template set # found chain 1j2aA in template set Warning: unaligning (T0290)E170 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1j2aA)L165 Warning: unaligning (T0290)L171 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1j2aA)L165 Warning: unaligning (T0290)I172 because last residue in template chain is (1j2aA)P166 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLC 1j2aA 5 :PHVLLTTSAGNIELELDKQKAPVSVQNFVDYV T0290 41 :EKG 1j2aA 37 :NSG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGE 1j2aA 40 :FYNNTTFHRVIPGFMIQGGGFTEQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANRG 1j2aA 70 :NPPIKNEADNGLRNTRGTIAMARTA T0290 111 :KDTNGSQFFITTKPTPHLD 1j2aA 96 :KDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKT 1j2aA 120 :FGYAVFGKVVKGMDVADKISQVPT T0290 154 :DAASKPFAEVRILSCG 1j2aA 148 :PYQNVPSKPVVILSAT Number of specific fragments extracted= 7 number of extra gaps= 1 total=220 Number of alignments=58 # 1j2aA read from 1j2aA/merged-good-all-a2m # found chain 1j2aA in template set Warning: unaligning (T0290)E170 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1j2aA)L165 Warning: unaligning (T0290)L171 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1j2aA)L165 Warning: unaligning (T0290)I172 because last residue in template chain is (1j2aA)P166 T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1j2aA 6 :HVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGF T0290 54 :YKSCLFHRVVKDFMVQGGDFS 1j2aA 41 :YNNTTFHRVIPGFMIQGGGFT T0290 76 :GNGRGGES 1j2aA 62 :EQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANR 1j2aA 70 :NPPIKNEADNGLRNTRGTIAMART T0290 110 :GKDTNGSQFFITTKPTPHLDGH 1j2aA 95 :DKDSATSQFFINVADNAFLDHG T0290 132 :HVVFGQVISGQEVVREIENQKT 1j2aA 122 :YAVFGKVVKGMDVADKISQVPT T0290 154 :DAASKPFAEVRILSCG 1j2aA 148 :PYQNVPSKPVVILSAT Number of specific fragments extracted= 7 number of extra gaps= 1 total=227 Number of alignments=59 # 1j2aA read from 1j2aA/merged-good-all-a2m # found chain 1j2aA in template set Warning: unaligning (T0290)E170 because of BadResidue code CHAIN_BREAK_BEFORE in next template residue (1j2aA)L165 Warning: unaligning (T0290)L171 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1j2aA)L165 T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1j2aA 6 :HVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGES 1j2aA 40 :FYNNTTFHRVIPGFMIQGGGFTEQMQQKKPN T0290 86 :GGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLD 1j2aA 71 :PPIKNEADNGLRNTRGTIAMARTADKDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKTDAAS 1j2aA 120 :FGYAVFGKVVKGMDVADKISQVPTHDVG T0290 158 :KPFAEVRILSCG 1j2aA 152 :VPSKPVVILSAT Number of specific fragments extracted= 5 number of extra gaps= 1 total=232 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1v9tA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0290 read from 1v9tA/merged-good-all-a2m # 1v9tA read from 1v9tA/merged-good-all-a2m # found chain 1v9tA in training set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1v9tA)F46 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1v9tA)F46 Warning: unaligning (T0290)I172 because last residue in template chain is (1v9tA)P166 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLC 1v9tA 5 :PHVLLTTSAGNIELELDKQKAPVSVQNFVDYV T0290 41 :EKG 1v9tA 37 :NSG T0290 53 :HYKSC 1v9tA 40 :FYNNT T0290 60 :HRVVKDFMVQGGDFSEGNGRGGE 1v9tA 47 :HRVIPGFMIQGGGFTEQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANRG 1v9tA 70 :NPPIKNEADNGLRNTRGTIAMARTA T0290 111 :KDTNGSQFFITTKPTPHLD 1v9tA 96 :KDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKT 1v9tA 120 :FGYAVFGKVVKGMDVADKISQVPT T0290 154 :DAASKPFAEVRILSCGEL 1v9tA 148 :PYQNVPSKPVVILSATVL Number of specific fragments extracted= 8 number of extra gaps= 1 total=240 Number of alignments=61 # 1v9tA read from 1v9tA/merged-good-all-a2m # found chain 1v9tA in training set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1v9tA)F46 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1v9tA)F46 Warning: unaligning (T0290)I172 because last residue in template chain is (1v9tA)P166 T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1v9tA 5 :PHVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGF T0290 54 :YKSC 1v9tA 41 :YNNT T0290 60 :HRVVKDFMVQGGDFS 1v9tA 47 :HRVIPGFMIQGGGFT T0290 77 :NGRGGESI 1v9tA 62 :EQMQQKKP T0290 86 :GGFFEDESFAVKHNAAFLLSMANR 1v9tA 70 :NPPIKNEADNGLRNTRGTIAMART T0290 110 :GKDTNGSQFFITTKPTPHLDGH 1v9tA 95 :DKDSATSQFFINVADNAFLDHG T0290 132 :HVVFGQVISGQEVVREIENQKT 1v9tA 122 :YAVFGKVVKGMDVADKISQVPT T0290 154 :DA 1v9tA 147 :GP T0290 156 :ASKPFAEVRILSCGEL 1v9tA 150 :QNVPSKPVVILSATVL Number of specific fragments extracted= 9 number of extra gaps= 1 total=249 Number of alignments=62 # 1v9tA read from 1v9tA/merged-good-all-a2m # found chain 1v9tA in training set Warning: unaligning (T0290)L58 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1v9tA)F46 Warning: unaligning (T0290)F59 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1v9tA)F46 T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1v9tA 6 :HVLLTTSAGNIELELDKQKAPVSVQNFVDYVNSG T0290 53 :HYKSC 1v9tA 40 :FYNNT T0290 60 :HRVVKDFMVQGGDFSEGNGRGGES 1v9tA 47 :HRVIPGFMIQGGGFTEQMQQKKPN T0290 86 :GGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLD 1v9tA 71 :PPIKNEADNGLRNTRGTIAMARTADKDSATSQFFINVADNAFLD T0290 130 :GHHVVFGQVISGQEVVREIENQKTDA 1v9tA 120 :FGYAVFGKVVKGMDVADKISQVPTHD T0290 156 :ASKPFAEVRILSCGEL 1v9tA 150 :QNVPSKPVVILSATVL Number of specific fragments extracted= 6 number of extra gaps= 1 total=255 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2alfA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/2alfA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/2alfA/merged-good-all-a2m.gz for input Trying 2alfA/merged-good-all-a2m Error: Couldn't open file 2alfA/merged-good-all-a2m or 2alfA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2cpl/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2cpl expands to /projects/compbio/data/pdb/2cpl.pdb.gz 2cpl:Warning: there is no chain 2cpl will retry with 2cplA # T0290 read from 2cpl/merged-good-all-a2m # 2cpl read from 2cpl/merged-good-all-a2m # adding 2cpl to template set # found chain 2cpl in template set Warning: unaligning (T0290)I172 because last residue in template chain is (2cpl)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGT 2cpl 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGF T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2cpl 47 :GYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 2cpl 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=258 Number of alignments=64 # 2cpl read from 2cpl/merged-good-all-a2m # found chain 2cpl in template set Warning: unaligning (T0290)I172 because last residue in template chain is (2cpl)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTG 2cpl 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG T0290 54 :YKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQK 2cpl 48 :YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERFG T0290 154 :DAASKPFAEVRILSCGEL 2cpl 147 :SRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=261 Number of alignments=65 # 2cpl read from 2cpl/merged-good-all-a2m # found chain 2cpl in template set Warning: unaligning (T0290)I172 because last residue in template chain is (2cpl)E165 T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2cpl 3 :NPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGE T0290 50 :KPLHYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQ 2cpl 44 :KGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVEAMERF T0290 153 :TDAASKPFAEVRILSCGEL 2cpl 146 :GSRNGKTSKKITIADCGQL Number of specific fragments extracted= 3 number of extra gaps= 0 total=264 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1z81A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1z81A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1z81A/merged-good-all-a2m.gz for input Trying 1z81A/merged-good-all-a2m Error: Couldn't open file 1z81A/merged-good-all-a2m or 1z81A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2a2nA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2a2nA expands to /projects/compbio/data/pdb/2a2n.pdb.gz 2a2nA:# T0290 read from 2a2nA/merged-good-all-a2m # 2a2nA read from 2a2nA/merged-good-all-a2m # adding 2a2nA to template set # found chain 2a2nA in template set T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLC 2a2nA 486 :GPKRVSDSAIIHTSMGDIHTKLFPVECPKTVENFCVHS T0290 41 :EKG 2a2nA 524 :RNG T0290 53 :HYKSCLFHRVVKDFMVQGGD 2a2nA 527 :YYNGHTFHRIIKGFMIQTGD T0290 74 :SEGNGRGGESIYGGFFEDESFA 2a2nA 547 :PTGTGMGGESIWGGEFEDEFHS T0290 96 :VKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 2a2nA 570 :LRHDRPYTLSMANAGSNTNGSQFFITVVPTPWLDNKHTVFGRVTKGMEVVQRISNVKVNPK T0290 157 :SKPFAEVRILSCGE 2a2nA 632 :DKPYEDVSIINITV Number of specific fragments extracted= 6 number of extra gaps= 0 total=270 Number of alignments=67 # 2a2nA read from 2a2nA/merged-good-all-a2m # found chain 2a2nA in template set T0290 1 :RPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 2a2nA 486 :GPKRVSDSAIIHTSMGDIHTKLFPVECPKTVENFCVHSRNGY T0290 54 :YKSCLFHRVVKDFMVQGGDFS 2a2nA 528 :YNGHTFHRIIKGFMIQTGDPT T0290 76 :GNGRGGESIYGGFFEDES 2a2nA 549 :GTGMGGESIWGGEFEDEF T0290 94 :FAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDA 2a2nA 568 :STLRHDRPYTLSMANAGSNTNGSQFFITVVPTPWLDNKHTVFGRVTKGMEVVQRISNVKVNP T0290 156 :ASKPFAEVRILSCGE 2a2nA 631 :TDKPYEDVSIINITV Number of specific fragments extracted= 5 number of extra gaps= 0 total=275 Number of alignments=68 # 2a2nA read from 2a2nA/merged-good-all-a2m # found chain 2a2nA in template set T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 2a2nA 492 :DSAIIHTSMGDIHTKLFPVECPKTVENFCVHSRNG T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 2a2nA 527 :YYNGHTFHRIIKGFMIQTGDPTGTGMGGESIWGGEFEDEFHSTLRHDRPYTLSMANAGSNTNGSQFFITVVPTPWLDNKHTVFGRVTKGMEVVQRISNVKVNPK T0290 157 :SKPFAEVRILSCGE 2a2nA 632 :DKPYEDVSIINITV Number of specific fragments extracted= 3 number of extra gaps= 0 total=278 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1m9eA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290/1m9eA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0290/1m9eA/merged-good-all-a2m.gz for input Trying 1m9eA/merged-good-all-a2m Error: Couldn't open file 1m9eA/merged-good-all-a2m or 1m9eA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zkcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zkcA expands to /projects/compbio/data/pdb/1zkc.pdb.gz 1zkcA:# T0290 read from 1zkcA/merged-good-all-a2m # 1zkcA read from 1zkcA/merged-good-all-a2m # adding 1zkcA to template set # found chain 1zkcA in template set T0290 8 :IAINNQPAGRVVFELFSDVCPKTCENFRCLC 1zkcA 281 :YVRLHTNKGDLNLELHCDLTPKTCENFIRLC T0290 41 :EKG 1zkcA 312 :KKH T0290 53 :HYKSCLFHRVVKDFMVQGGD 1zkcA 315 :YYDGTIFHRSIRNFVIQGGD T0290 74 :SEGNGRGGESIYGGFFEDESFA 1zkcA 335 :PTGTGTGGESYWGKPFKDEFRP T0290 96 :VKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 1zkcA 358 :LSHTGRGILSMANSGPNSNRSQFFITFRSCAYLDKKHTIFGRVVGGFDVLTAMENVESDPK T0290 157 :SKPFAEVRILSCGELIP 1zkcA 420 :DRPKEEIRIDATTVFVD Number of specific fragments extracted= 6 number of extra gaps= 0 total=284 Number of alignments=70 # 1zkcA read from 1zkcA/merged-good-all-a2m # found chain 1zkcA in template set T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEK 1zkcA 280 :GYVRLHTNKGDLNLELHCDLTPKTCENFIRLCKKHY T0290 54 :YKSCLFHRVVKDFMVQGGDFS 1zkcA 316 :YDGTIFHRSIRNFVIQGGDPT T0290 76 :GNGRGGESIYGGFFEDES 1zkcA 337 :GTGTGGESYWGKPFKDEF T0290 94 :FAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 1zkcA 356 :PNLSHTGRGILSMANSGPNSNRSQFFITFRSCAYLDKKHTIFGRVVGGFDVLTAMENVESDPK T0290 157 :SKPFAEVRILSCGELI 1zkcA 420 :DRPKEEIRIDATTVFV Number of specific fragments extracted= 5 number of extra gaps= 0 total=289 Number of alignments=71 # 1zkcA read from 1zkcA/merged-good-all-a2m # found chain 1zkcA in template set T0290 7 :DIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGE 1zkcA 280 :GYVRLHTNKGDLNLELHCDLTPKTCENFIRLCKKH T0290 53 :HYKSCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNAAFLLSMANRGKDTNGSQFFITTKPTPHLDGHHVVFGQVISGQEVVREIENQKTDAA 1zkcA 315 :YYDGTIFHRSIRNFVIQGGDPTGTGTGGESYWGKPFKDEFRPNLSHTGRGILSMANSGPNSNRSQFFITFRSCAYLDKKHTIFGRVVGGFDVLTAMENVESDPK T0290 157 :SKPFAEVRILSCGELI 1zkcA 420 :DRPKEEIRIDATTVFV Number of specific fragments extracted= 3 number of extra gaps= 0 total=292 Number of alignments=72 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0290//projects/compbio/experiments/protein-predict/casp7/T0290/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0290//projects/compbio/experiments/protein-predict/casp7/T0290/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0290/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0290/align.constraints_v3.costfcn # future Constraint commands -> align # future HelixConstraint commands -> align # future StrandConstraint commands -> align # future SheetConstraint commands -> align # future Hbond commands -> align # future SSbond commands -> align # Constraint # added constraint: constraint((T0290)E21.CB, (T0290)Q137.CB) [> 3.2562 = 5.4270 < 7.0551] w=1.0000 to align # Constraint # added constraint: constraint((T0290)E21.CB, (T0290)I139.CB) [> 2.8661 = 4.7768 < 6.2098] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)C31.CB) [> 2.5507 = 4.2512 < 5.5265] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)F135.CB) [> 3.7903 = 6.3171 < 8.2123] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)G136.CA) [> 3.1534 = 5.2557 < 6.8324] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)F135.CB) [> 3.4589 = 5.7648 < 7.4942] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)G136.CA) [> 3.0674 = 5.1123 < 6.6460] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C27.CB, (T0290)F135.CB) [> 2.5907 = 4.3178 < 5.6132] w=1.0000 to align # Constraint # added constraint: constraint((T0290)T30.CB, (T0290)V133.CB) [> 3.3028 = 5.5046 < 7.1560] w=1.0000 to align # Constraint # added constraint: constraint((T0290)T30.CB, (T0290)F135.CB) [> 2.5255 = 4.2092 < 5.4720] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C31.CB, (T0290)F135.CB) [> 3.2590 = 5.4317 < 7.0612] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F34.CB, (T0290)F118.CB) [> 4.1770 = 6.9616 < 9.0501] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)Y54.CB) [> 3.3148 = 5.5247 < 7.1821] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)S116.CB) [> 3.4156 = 5.6927 < 7.4005] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)Y54.CB) [> 3.4173 = 5.6956 < 7.4042] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)C168.CB) [> 2.6698 = 4.4496 < 5.7845] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)G169.CA) [> 3.0407 = 5.0678 < 6.5882] w=1.0000 to align # Constraint # added constraint: constraint((T0290)P14.CB, (T0290)L166.CB) [> 3.9412 = 6.5686 < 8.5392] w=1.0000 to align # Constraint # added constraint: constraint((T0290)A15.CB, (T0290)V144.CB) [> 3.4379 = 5.7298 < 7.4487] w=1.0000 to align # Constraint # added constraint: constraint((T0290)G16.CA, (T0290)V144.CB) [> 2.8944 = 4.8240 < 6.2712] w=1.0000 to align # Constraint # added constraint: constraint((T0290)R17.CB, (T0290)G141.CA) [> 4.0283 = 6.7138 < 8.7279] w=1.0000 to align # Constraint # added constraint: constraint((T0290)R17.CB, (T0290)V144.CB) [> 4.0476 = 6.7460 < 8.7698] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)V138.CB) [> 3.6527 = 6.0878 < 7.9141] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)S140.CB) [> 4.2217 = 7.0363 < 9.1471] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)G141.CA) [> 3.0189 = 5.0316 < 6.5410] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)V144.CB) [> 3.0907 = 5.1511 < 6.6965] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)V145.CB) [> 3.7070 = 6.1783 < 8.0318] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V19.CB, (T0290)V138.CB) [> 4.2846 = 7.1410 < 9.2833] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V19.CB, (T0290)I139.CB) [> 3.0133 = 5.0222 < 6.5289] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V19.CB, (T0290)S140.CB) [> 2.3452 = 3.9086 < 5.0812] w=1.0000 to align # Constraint # added constraint: constraint((T0290)V19.CB, (T0290)G141.CA) [> 3.9244 = 6.5407 < 8.5030] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)G136.CA) [> 3.5451 = 5.9085 < 7.6810] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)Q137.CB) [> 4.0205 = 6.7009 < 8.7111] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)V138.CB) [> 3.5152 = 5.8586 < 7.6162] w=1.0000 to align # Constraint # added constraint: constraint((T0290)E21.CB, (T0290)G136.CA) [> 3.5101 = 5.8501 < 7.6052] w=1.0000 to align # Constraint # added constraint: constraint((T0290)D72.CB, (T0290)Q117.CB) [> 3.1800 = 5.3000 < 6.8900] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F88.CB, (T0290)D112.CB) [> 4.1557 = 6.9262 < 9.0040] w=1.0000 to align # Constraint # added constraint: constraint((T0290)E92.CB, (T0290)V133.CB) [> 3.2343 = 5.3905 < 7.0076] w=1.0000 to align # Constraint # added constraint: constraint((T0290)A100.CB, (T0290)P124.CB) [> 3.0294 = 5.0491 < 6.5638] w=1.0000 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)T121.CB) [> 3.5455 = 5.9092 < 7.6819] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)T121.CB) [> 2.8681 = 4.7801 < 6.2141] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)V134.CB) [> 3.4660 = 5.7766 < 7.5096] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)G136.CA) [> 3.9424 = 6.5706 < 8.5418] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)Q137.CB) [> 3.2967 = 5.4945 < 7.1428] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)F118.CB) [> 3.6917 = 6.1528 < 7.9987] w=1.0000 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)V134.CB) [> 4.2023 = 7.0038 < 9.1050] w=1.0000 to align # Constraint # added constraint: constraint((T0290)N114.CB, (T0290)V133.CB) [> 4.0180 = 6.6967 < 8.7057] w=1.0000 to align # Constraint # added constraint: constraint((T0290)T122.CB, (T0290)V145.CB) [> 3.8903 = 6.4839 < 8.4290] w=1.0000 to align # Constraint # added constraint: constraint((T0290)Q151.CB, (T0290)A161.CB) [> 3.4917 = 5.8194 < 7.5652] w=1.0000 to align # Constraint # added constraint: constraint((T0290)Y54.CB, (T0290)I165.CB) [> 3.0905 = 5.1508 < 6.6960] w=1.0000 to align # Constraint # added constraint: constraint((T0290)K55.CB, (T0290)I165.CB) [> 3.7827 = 6.3045 < 8.1958] w=1.0000 to align # Constraint # added constraint: constraint((T0290)K55.CB, (T0290)S167.CB) [> 3.4900 = 5.8166 < 7.5616] w=1.0000 to align # Constraint # added constraint: constraint((T0290)K55.CB, (T0290)C168.CB) [> 3.5178 = 5.8630 < 7.6219] w=1.0000 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)I165.CB) [> 4.1827 = 6.9712 < 9.0626] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)G71.CA) [> 2.9988 = 4.9981 < 6.4975] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)D72.CB) [> 4.0427 = 6.7378 < 8.7591] w=1.0000 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)I165.CB) [> 3.0556 = 5.0928 < 6.6206] w=1.0000 to align # Constraint # added constraint: constraint((T0290)D65.CB, (T0290)T122.CB) [> 3.9070 = 6.5117 < 8.4652] w=1.0000 to align # Constraint # added constraint: constraint((T0290)D65.CB, (T0290)K123.CB) [> 3.4403 = 5.7339 < 7.4541] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F66.CB, (T0290)T122.CB) [> 3.8572 = 6.4288 < 8.3574] w=1.0000 to align # Constraint # added constraint: constraint((T0290)F66.CB, (T0290)K123.CB) [> 3.6556 = 6.0926 < 7.9204] w=1.0000 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)S116.CB) [> 3.1466 = 5.2444 < 6.8177] w=1.0000 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)Q117.CB) [> 2.9337 = 4.8895 < 6.3564] w=1.0000 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)F118.CB) [> 3.6328 = 6.0547 < 7.8712] w=1.0000 to align # Constraint # added constraint: constraint((T0290)D72.CB, (T0290)S116.CB) [> 4.0053 = 6.6755 < 8.6782] w=1.0000 to align # Constraint # added constraint: constraint((T0290)H98.CB, (T0290)D129.CB) [> 3.4018 = 5.6697 < 7.3706] w=0.9986 to align # Constraint # added constraint: constraint((T0290)D91.CB, (T0290)V133.CB) [> 3.1673 = 5.2789 < 6.8625] w=0.9971 to align # Constraint # added constraint: constraint((T0290)H98.CB, (T0290)V134.CB) [> 3.7559 = 6.2598 < 8.1377] w=0.9971 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)I139.CB) [> 3.8945 = 6.4909 < 8.4381] w=0.9957 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)F34.CB) [> 3.8243 = 6.3739 < 8.2860] w=0.9957 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)R35.CB) [> 3.8695 = 6.4492 < 8.3839] w=0.9957 to align # Constraint # added constraint: constraint((T0290)C27.CB, (T0290)V134.CB) [> 4.4991 = 7.4986 < 9.7481] w=0.9957 to align # Constraint # added constraint: constraint((T0290)F34.CB, (T0290)F135.CB) [> 3.9291 = 6.5485 < 8.5131] w=0.9957 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)G70.CA) [> 3.9062 = 6.5104 < 8.4635] w=0.9957 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)Q69.CB) [> 4.0220 = 6.7033 < 8.7143] w=0.9957 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)G70.CA) [> 3.5158 = 5.8597 < 7.6176] w=0.9957 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)G70.CA) [> 4.1500 = 6.9167 < 8.9917] w=0.9957 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)I148.CB) [> 3.7961 = 6.3269 < 8.2250] w=0.9957 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)E149.CB) [> 3.6938 = 6.1564 < 8.0033] w=0.9957 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)Q151.CB) [> 3.7130 = 6.1883 < 8.0448] w=0.9957 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)P159.CB) [> 3.2360 = 5.3934 < 7.0114] w=0.9957 to align # Constraint # added constraint: constraint((T0290)F66.CB, (T0290)T125.CB) [> 4.1500 = 6.9167 < 8.9918] w=0.9957 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)Q117.CB) [> 3.8984 = 6.4973 < 8.4465] w=0.9957 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)F118.CB) [> 4.2978 = 7.1630 < 9.3118] w=0.9957 to align # Constraint # added constraint: constraint((T0290)G70.CA, (T0290)Q117.CB) [> 3.4581 = 5.7635 < 7.4926] w=0.9957 to align # Constraint # added constraint: constraint((T0290)G70.CA, (T0290)F118.CB) [> 3.7042 = 6.1737 < 8.0258] w=0.9957 to align # Constraint # added constraint: constraint((T0290)K97.CB, (T0290)V134.CB) [> 3.8573 = 6.4288 < 8.3575] w=0.9957 to align # Constraint # added constraint: constraint((T0290)Q151.CB, (T0290)F160.CB) [> 3.9316 = 6.5526 < 8.5184] w=0.9957 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)T121.CB) [> 4.0093 = 6.6822 < 8.6869] w=0.9855 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)Q137.CB) [> 3.3283 = 5.5472 < 7.2114] w=0.9855 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)V138.CB) [> 2.3170 = 3.8617 < 5.0202] w=0.9855 to align # Constraint # added constraint: constraint((T0290)K29.CB, (T0290)F89.CB) [> 3.9927 = 6.6545 < 8.6509] w=0.9855 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)G136.CA) [> 2.4296 = 4.0493 < 5.2641] w=0.9566 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)T122.CB) [> 3.3180 = 5.5300 < 7.1890] w=0.9566 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)F119.CB) [> 2.6495 = 4.4159 < 5.7407] w=0.9565 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)I120.CB) [> 3.7023 = 6.1705 < 8.0216] w=0.9565 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)T121.CB) [> 3.0019 = 5.0032 < 6.5041] w=0.9565 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)T122.CB) [> 3.5766 = 5.9609 < 7.7492] w=0.9565 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)F119.CB) [> 3.7543 = 6.2572 < 8.1344] w=0.9565 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)I120.CB) [> 3.0305 = 5.0508 < 6.5661] w=0.9565 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)T122.CB) [> 4.1484 = 6.9140 < 8.9882] w=0.9565 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)I148.CB) [> 3.2491 = 5.4152 < 7.0397] w=0.9565 to align # Constraint # added constraint: constraint((T0290)I120.CB, (T0290)V138.CB) [> 3.8901 = 6.4835 < 8.4286] w=0.9565 to align # Constraint # added constraint: constraint((T0290)I120.CB, (T0290)V145.CB) [> 3.3487 = 5.5812 < 7.2555] w=0.9565 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)R164.CB) [> 4.2481 = 7.0802 < 9.2042] w=0.9565 to align # Constraint # added constraint: constraint((T0290)I148.CB, (T0290)V163.CB) [> 3.2790 = 5.4650 < 7.1045] w=0.9565 to align # Constraint # added constraint: constraint((T0290)F66.CB, (T0290)T121.CB) [> 4.5223 = 7.5371 < 9.7983] w=0.9565 to align # Constraint # added constraint: constraint((T0290)F89.CB, (T0290)D112.CB) [> 4.3748 = 7.2913 < 9.4786] w=0.9565 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)F118.CB) [> 3.9819 = 6.6365 < 8.6274] w=0.9565 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)H132.CB) [> 2.7990 = 4.6649 < 6.0644] w=0.9565 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)V133.CB) [> 3.8185 = 6.3642 < 8.2735] w=0.9565 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)F135.CB) [> 4.1140 = 6.8566 < 8.9136] w=0.9565 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)F118.CB) [> 3.4592 = 5.7653 < 7.4949] w=0.9565 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)H132.CB) [> 3.5169 = 5.8615 < 7.6199] w=0.9565 to align # Constraint # added constraint: constraint((T0290)A107.CB, (T0290)H132.CB) [> 4.2497 = 7.0828 < 9.2077] w=0.9565 to align # Constraint # added constraint: constraint((T0290)A15.CB, (T0290)I148.CB) [> 3.9550 = 6.5917 < 8.5692] w=0.9565 to align # Constraint # added constraint: constraint((T0290)A15.CB, (T0290)E147.CB) [> 3.2974 = 5.4956 < 7.1443] w=0.9565 to align # Constraint # added constraint: constraint((T0290)V26.CB, (T0290)V96.CB) [> 3.7155 = 6.1925 < 8.0503] w=0.9565 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)G115.CA) [> 4.3920 = 7.3200 < 9.5161] w=0.9565 to align # Constraint # added constraint: constraint((T0290)Y54.CB, (T0290)G71.CA) [> 3.4901 = 5.8169 < 7.5620] w=0.9565 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)D72.CB) [> 3.6442 = 6.0737 < 7.8958] w=0.9565 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)L104.CB) [> 3.4119 = 5.6866 < 7.3925] w=0.9551 to align # Constraint # added constraint: constraint((T0290)F89.CB, (T0290)N114.CB) [> 3.2275 = 5.3792 < 6.9929] w=0.9551 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)V138.CB) [> 4.2070 = 7.0116 < 9.1151] w=0.9551 to align # Constraint # added constraint: constraint((T0290)N108.CB, (T0290)H132.CB) [> 3.8860 = 6.4766 < 8.4196] w=0.9551 to align # Constraint # added constraint: constraint((T0290)A107.CB, (T0290)Q117.CB) [> 2.4262 = 4.0437 < 5.2568] w=0.9551 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)I120.CB) [> 4.2725 = 7.1208 < 9.2571] w=0.9536 to align # Constraint # added constraint: constraint((T0290)G70.CA, (T0290)F119.CB) [> 4.1218 = 6.8697 < 8.9306] w=0.9522 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)F119.CB) [> 2.4605 = 4.1009 < 5.3312] w=0.9522 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)N114.CB) [> 4.5301 = 7.5502 < 9.8153] w=0.9522 to align # Constraint # added constraint: constraint((T0290)C27.CB, (T0290)V133.CB) [> 3.7312 = 6.2187 < 8.0843] w=0.9522 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)Q142.CB) [> 3.1817 = 5.3028 < 6.8936] w=0.9406 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)P124.CB) [> 4.1311 = 6.8851 < 8.9507] w=0.9406 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)K123.CB) [> 3.4717 = 5.7862 < 7.5220] w=0.9406 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)I120.CB) [> 3.4622 = 5.7704 < 7.5015] w=0.9406 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)Q142.CB) [> 4.2876 = 7.1460 < 9.2899] w=0.9391 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)I120.CB) [> 4.0575 = 6.7625 < 8.7913] w=0.9377 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)E170.CB) [> 3.6471 = 6.0785 < 7.9020] w=0.9131 to align # Constraint # added constraint: constraint((T0290)R35.CB, (T0290)E170.CB) [> 3.6040 = 6.0068 < 7.8088] w=0.9131 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)V133.CB) [> 2.7998 = 4.6663 < 6.0662] w=0.9131 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)V134.CB) [> 2.8492 = 4.7487 < 6.1733] w=0.9131 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)P159.CB) [> 3.9543 = 6.5906 < 8.5678] w=0.9130 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)I148.CB) [> 3.7774 = 6.2957 < 8.1844] w=0.9130 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)F119.CB) [> 3.5817 = 5.9696 < 7.7604] w=0.9130 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)V145.CB) [> 3.8021 = 6.3369 < 8.2380] w=0.9130 to align # Constraint # added constraint: constraint((T0290)G16.CA, (T0290)G141.CA) [> 4.4457 = 7.4095 < 9.6323] w=0.9130 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)F119.CB) [> 4.5457 = 7.5762 < 9.8491] w=0.9130 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)Q117.CB) [> 4.2518 = 7.0863 < 9.2122] w=0.9130 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)R164.CB) [> 3.9711 = 6.6185 < 8.6040] w=0.9130 to align # Constraint # added constraint: constraint((T0290)V96.CB, (T0290)V134.CB) [> 2.2415 = 3.7358 < 4.8566] w=0.9117 to align # Constraint # added constraint: constraint((T0290)A107.CB, (T0290)F118.CB) [> 3.5190 = 5.8650 < 7.6245] w=0.9116 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)F135.CB) [> 3.9337 = 6.5561 < 8.5230] w=0.9116 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)T121.CB) [> 4.1158 = 6.8597 < 8.9176] w=0.9116 to align # Constraint # added constraint: constraint((T0290)T30.CB, (T0290)M106.CB) [> 3.7819 = 6.3031 < 8.1941] w=0.9116 to align # Constraint # added constraint: constraint((T0290)H98.CB, (T0290)T121.CB) [> 3.4927 = 5.8212 < 7.5675] w=0.9102 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)V163.CB) [> 4.3001 = 7.1669 < 9.3170] w=0.9088 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)S83.CB) [> 3.1667 = 5.2777 < 6.8611] w=0.9088 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)A107.CB) [> 3.4827 = 5.8046 < 7.5460] w=0.9087 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)G70.CA) [> 2.8990 = 4.8316 < 6.2811] w=0.9087 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)Q69.CB) [> 3.9063 = 6.5105 < 8.4636] w=0.9087 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)G70.CA) [> 4.0916 = 6.8194 < 8.8652] w=0.9087 to align # Constraint # added constraint: constraint((T0290)R17.CB, (T0290)S140.CB) [> 4.3234 = 7.2057 < 9.3674] w=0.9087 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)F73.CB) [> 2.9200 = 4.8666 < 6.3266] w=0.8942 to align # Constraint # added constraint: constraint((T0290)T30.CB, (T0290)E92.CB) [> 2.9894 = 4.9823 < 6.4770] w=0.8826 to align # Constraint # added constraint: constraint((T0290)C27.CB, (T0290)E92.CB) [> 2.9292 = 4.8820 < 6.3466] w=0.8826 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)G115.CA) [> 4.3814 = 7.3023 < 9.4930] w=0.8811 to align # Constraint # added constraint: constraint((T0290)D91.CB, (T0290)N108.CB) [> 4.5689 = 7.6148 < 9.8993] w=0.8797 to align # Constraint # added constraint: constraint((T0290)K29.CB, (T0290)E92.CB) [> 3.2647 = 5.4412 < 7.0735] w=0.8797 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)S116.CB) [> 4.5208 = 7.5346 < 9.7950] w=0.8697 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)V68.CB) [> 3.1383 = 5.2306 < 6.7997] w=0.8696 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)E162.CB) [> 3.3958 = 5.6597 < 7.3576] w=0.8696 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)V163.CB) [> 3.6325 = 6.0541 < 7.8703] w=0.8696 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)R164.CB) [> 3.1914 = 5.3190 < 6.9146] w=0.8696 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)V163.CB) [> 2.6475 = 4.4125 < 5.7362] w=0.8696 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)I165.CB) [> 4.4637 = 7.4394 < 9.6713] w=0.8696 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)V96.CB) [> 3.9509 = 6.5849 < 8.5603] w=0.8682 to align # Constraint # added constraint: constraint((T0290)A107.CB, (T0290)F119.CB) [> 3.2771 = 5.4618 < 7.1004] w=0.8681 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)L128.CB) [> 4.0822 = 6.8036 < 8.8447] w=0.8681 to align # Constraint # added constraint: constraint((T0290)N108.CB, (T0290)Q117.CB) [> 4.6241 = 7.7069 < 10.0189] w=0.8652 to align # Constraint # added constraint: constraint((T0290)G70.CA, (T0290)A107.CB) [> 4.4972 = 7.4953 < 9.7439] w=0.8652 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)Q137.CB) [> 4.6462 = 7.7437 < 10.0668] w=0.8652 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)F89.CB) [> 4.1692 = 6.9486 < 9.0332] w=0.8536 to align # Constraint # added constraint: constraint((T0290)F89.CB, (T0290)G115.CA) [> 4.0094 = 6.6824 < 8.6871] w=0.8536 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)G76.CA) [> 3.2197 = 5.3661 < 6.9759] w=0.8508 to align # Constraint # added constraint: constraint((T0290)P28.CB, (T0290)E92.CB) [> 4.5601 = 7.6002 < 9.8802] w=0.8507 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)G136.CA) [> 4.6752 = 7.7920 < 10.1296] w=0.8391 to align # Constraint # added constraint: constraint((T0290)D72.CB, (T0290)G81.CA) [> 3.2179 = 5.3632 < 6.9722] w=0.8377 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)V138.CB) [> 4.6149 = 7.6915 < 9.9989] w=0.8304 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)K123.CB) [> 4.5033 = 7.5054 < 9.7570] w=0.8261 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)P159.CB) [> 4.4363 = 7.3938 < 9.6120] w=0.8261 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)K158.CB) [> 4.1562 = 6.9270 < 9.0051] w=0.8261 to align # Constraint # added constraint: constraint((T0290)A100.CB, (T0290)T121.CB) [> 4.0763 = 6.7938 < 8.8320] w=0.8261 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)G76.CA) [> 4.2130 = 7.0216 < 9.1281] w=0.8232 to align # Constraint # added constraint: constraint((T0290)G80.CA, (T0290)Q117.CB) [> 4.3550 = 7.2584 < 9.4359] w=0.8218 to align # Constraint # added constraint: constraint((T0290)T39.CB, (T0290)E170.CB) [> 3.3584 = 5.5974 < 7.2766] w=0.8218 to align # Constraint # added constraint: constraint((T0290)C31.CB, (T0290)G136.CA) [> 4.4201 = 7.3668 < 9.5769] w=0.8217 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)I84.CB) [> 4.0162 = 6.6936 < 8.7017] w=0.7928 to align # Constraint # added constraint: constraint((T0290)C36.CB, (T0290)I84.CB) [> 2.8716 = 4.7861 < 6.2219] w=0.7928 to align # Constraint # added constraint: constraint((T0290)E32.CB, (T0290)I84.CB) [> 4.4289 = 7.3814 < 9.5959] w=0.7928 to align # Constraint # added constraint: constraint((T0290)T39.CB, (T0290)G169.CA) [> 3.3490 = 5.5816 < 7.2561] w=0.7928 to align # Constraint # added constraint: constraint((T0290)E92.CB, (T0290)F135.CB) [> 4.5448 = 7.5747 < 9.8471] w=0.7928 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)V134.CB) [> 4.5342 = 7.5570 < 9.8242] w=0.7827 to align # Constraint # added constraint: constraint((T0290)K55.CB, (T0290)L166.CB) [> 4.3820 = 7.3034 < 9.4944] w=0.7826 to align # Constraint # added constraint: constraint((T0290)N108.CB, (T0290)H131.CB) [> 4.6556 = 7.7593 < 10.0871] w=0.7798 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)G78.CA) [> 3.4054 = 5.6756 < 7.3783] w=0.7798 to align # Constraint # added constraint: constraint((T0290)G81.CA, (T0290)Q117.CB) [> 3.8420 = 6.4033 < 8.3243] w=0.7638 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)G78.CA) [> 4.2482 = 7.0803 < 9.2044] w=0.7638 to align # Constraint # added constraint: constraint((T0290)N33.CB, (T0290)Y85.CB) [> 4.2423 = 7.0704 < 9.1916] w=0.7494 to align # Constraint # added constraint: constraint((T0290)V96.CB, (T0290)F135.CB) [> 4.3158 = 7.1930 < 9.3510] w=0.7377 to align # Constraint # added constraint: constraint((T0290)F94.CB, (T0290)G130.CA) [> 2.6104 = 4.3506 < 5.6558] w=0.7362 to align # Constraint # added constraint: constraint((T0290)G110.CA, (T0290)H131.CB) [> 4.5310 = 7.5516 < 9.8171] w=0.7349 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)P159.CB) [> 4.5547 = 7.5911 < 9.8685] w=0.7348 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)L166.CB) [> 4.5066 = 7.5110 < 9.7643] w=0.7348 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)G81.CA) [> 4.0279 = 6.7131 < 8.7270] w=0.7204 to align # Constraint # added constraint: constraint((T0290)F94.CB, (T0290)V134.CB) [> 4.5769 = 7.6281 < 9.9165] w=0.7073 to align # Constraint # added constraint: constraint((T0290)Y54.CB, (T0290)F73.CB) [> 3.7739 = 6.2898 < 8.1768] w=0.7059 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)I120.CB) [> 4.5955 = 7.6591 < 9.9568] w=0.6956 to align # Constraint # added constraint: constraint((T0290)F119.CB, (T0290)H132.CB) [> 4.7117 = 7.8529 < 10.2088] w=0.6956 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)T153.CB) [> 3.1537 = 5.2562 < 6.8330] w=0.6942 to align # Constraint # added constraint: constraint((T0290)F94.CB, (T0290)V133.CB) [> 3.9358 = 6.5597 < 8.5276] w=0.6913 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)H53.CB) [> 2.8264 = 4.7107 < 6.1239] w=0.6812 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)F73.CB) [> 4.3391 = 7.2318 < 9.4014] w=0.6769 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)G78.CA) [> 4.6469 = 7.7448 < 10.0682] w=0.6624 to align # Constraint # added constraint: constraint((T0290)K29.CB, (T0290)Y85.CB) [> 4.6399 = 7.7332 < 10.0531] w=0.6624 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)F119.CB) [> 4.6491 = 7.7486 < 10.0732] w=0.6521 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)L104.CB) [> 4.5993 = 7.6655 < 9.9652] w=0.6507 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)R17.CB) [> 4.0969 = 6.8281 < 8.8765] w=0.6479 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)V18.CB) [> 2.7748 = 4.6247 < 6.0121] w=0.6479 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)Y54.CB) [> 4.3356 = 7.2260 < 9.3939] w=0.6479 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)I165.CB) [> 2.9711 = 4.9518 < 6.4373] w=0.6479 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)C168.CB) [> 2.9831 = 4.9718 < 6.4633] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)G16.CA) [> 3.7574 = 6.2623 < 8.1409] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)R17.CB) [> 3.1479 = 5.2464 < 6.8204] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)I165.CB) [> 4.2463 = 7.0771 < 9.2002] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)L166.CB) [> 2.7946 = 4.6576 < 6.0549] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)S167.CB) [> 2.6248 = 4.3747 < 5.6871] w=0.6479 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)C168.CB) [> 4.1135 = 6.8559 < 8.9126] w=0.6479 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)R17.CB) [> 4.4310 = 7.3851 < 9.6006] w=0.6479 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)V18.CB) [> 3.8287 = 6.3812 < 8.2956] w=0.6479 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)V144.CB) [> 3.4139 = 5.6898 < 7.3967] w=0.6479 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)I148.CB) [> 3.8728 = 6.4548 < 8.3912] w=0.6479 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)L166.CB) [> 2.6018 = 4.3364 < 5.6373] w=0.6479 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)E162.CB) [> 4.1302 = 6.8837 < 8.9488] w=0.6479 to align # Constraint # added constraint: constraint((T0290)N11.CB, (T0290)A161.CB) [> 2.6905 = 4.4841 < 5.8294] w=0.6479 to align # Constraint # added constraint: constraint((T0290)N11.CB, (T0290)E162.CB) [> 3.5560 = 5.9267 < 7.7046] w=0.6479 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)H53.CB) [> 4.1435 = 6.9059 < 8.9777] w=0.6377 to align # Constraint # added constraint: constraint((T0290)V62.CB, (T0290)K158.CB) [> 4.6085 = 7.6809 < 9.9851] w=0.6088 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)D72.CB) [> 4.5995 = 7.6658 < 9.9655] w=0.6088 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)I165.CB) [> 4.6564 = 7.7608 < 10.0890] w=0.6087 to align # Constraint # added constraint: constraint((T0290)V18.CB, (T0290)Q142.CB) [> 4.6772 = 7.7953 < 10.1339] w=0.6087 to align # Constraint # added constraint: constraint((T0290)A15.CB, (T0290)V163.CB) [> 3.9272 = 6.5454 < 8.5090] w=0.6087 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)R164.CB) [> 2.9472 = 4.9121 < 6.3857] w=0.6044 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)V163.CB) [> 3.0503 = 5.0839 < 6.6091] w=0.6044 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)V18.CB) [> 3.9507 = 6.5845 < 8.5599] w=0.6044 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)V19.CB) [> 2.8751 = 4.7919 < 6.2294] w=0.6044 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)C168.CB) [> 3.7680 = 6.2800 < 8.1640] w=0.6044 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)G169.CA) [> 3.4756 = 5.7927 < 7.5304] w=0.6044 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)R35.CB) [> 3.5646 = 5.9409 < 7.7232] w=0.5754 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)F73.CB) [> 4.6173 = 7.6955 < 10.0042] w=0.5609 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)S167.CB) [> 4.6296 = 7.7159 < 10.0307] w=0.5609 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)F20.CB) [> 4.6344 = 7.7241 < 10.0413] w=0.5609 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)R164.CB) [> 4.4824 = 7.4707 < 9.7119] w=0.5609 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)F20.CB) [> 4.4076 = 7.3460 < 9.5498] w=0.5609 to align # Constraint # added constraint: constraint((T0290)F34.CB, (T0290)L104.CB) [> 4.5679 = 7.6131 < 9.8971] w=0.5609 to align # Constraint # added constraint: constraint((T0290)V19.CB, (T0290)L171.CB) [> 4.1082 = 6.8469 < 8.9010] w=0.5508 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)V19.CB) [> 4.2965 = 7.1608 < 9.3090] w=0.5464 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)F20.CB) [> 3.2042 = 5.3404 < 6.9425] w=0.5464 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)F34.CB) [> 4.2272 = 7.0453 < 9.1589] w=0.5464 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)C168.CB) [> 4.0893 = 6.8154 < 8.8601] w=0.5464 to align # Constraint # added constraint: constraint((T0290)A100.CB, (T0290)K123.CB) [> 3.7899 = 6.3166 < 8.2115] w=0.5334 to align # Constraint # added constraint: constraint((T0290)T39.CB, (T0290)C168.CB) [> 4.5602 = 7.6002 < 9.8803] w=0.5319 to align # Constraint # added constraint: constraint((T0290)A95.CB, (T0290)V134.CB) [> 4.6628 = 7.7713 < 10.1027] w=0.5217 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)I120.CB) [> 4.7495 = 7.9159 < 10.2906] w=0.5217 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)T121.CB) [> 4.6102 = 7.6837 < 9.9888] w=0.5217 to align # Constraint # added constraint: constraint((T0290)V63.CB, (T0290)T153.CB) [> 4.3323 = 7.2206 < 9.3867] w=0.5203 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)R164.CB) [> 4.5308 = 7.5514 < 9.8167] w=0.5174 to align # Constraint # added constraint: constraint((T0290)H53.CB, (T0290)F73.CB) [> 3.9276 = 6.5460 < 8.5098] w=0.5044 to align # Constraint # added constraint: constraint((T0290)R3.CB, (T0290)V19.CB) [> 3.4943 = 5.8238 < 7.5709] w=0.4885 to align # Constraint # added constraint: constraint((T0290)R3.CB, (T0290)I139.CB) [> 3.9522 = 6.5870 < 8.5631] w=0.4885 to align # Constraint # added constraint: constraint((T0290)E21.CB, (T0290)V138.CB) [> 4.6731 = 7.7885 < 10.1251] w=0.4826 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)I165.CB) [> 4.5547 = 7.5912 < 9.8686] w=0.4826 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)G71.CA) [> 4.5952 = 7.6587 < 9.9563] w=0.4826 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)A107.CB) [> 4.7267 = 7.8778 < 10.2412] w=0.4783 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)T125.CB) [> 4.5895 = 7.6492 < 9.9440] w=0.4740 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)T122.CB) [> 4.4037 = 7.3396 < 9.5414] w=0.4667 to align # Constraint # added constraint: constraint((T0290)K42.CB, (T0290)I84.CB) [> 3.3257 = 5.5428 < 7.2056] w=0.4609 to align # Constraint # added constraint: constraint((T0290)S105.CB, (T0290)I120.CB) [> 4.7315 = 7.8859 < 10.2516] w=0.4348 to align # Constraint # added constraint: constraint((T0290)K64.CB, (T0290)T122.CB) [> 4.4539 = 7.4231 < 9.6500] w=0.4348 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)P159.CB) [> 4.6368 = 7.7280 < 10.0464] w=0.4348 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)L171.CB) [> 3.5230 = 5.8717 < 7.6332] w=0.4305 to align # Constraint # added constraint: constraint((T0290)P2.CB, (T0290)R35.CB) [> 3.2033 = 5.3388 < 6.9404] w=0.4305 to align # Constraint # added constraint: constraint((T0290)C4.CB, (T0290)L171.CB) [> 4.0768 = 6.7947 < 8.8331] w=0.4015 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)E147.CB) [> 4.1870 = 6.9783 < 9.0718] w=0.3913 to align # Constraint # added constraint: constraint((T0290)F59.CB, (T0290)G71.CA) [> 4.6690 = 7.7817 < 10.1162] w=0.3912 to align # Constraint # added constraint: constraint((T0290)P2.CB, (T0290)C31.CB) [> 3.8651 = 6.4418 < 8.3744] w=0.3870 to align # Constraint # added constraint: constraint((T0290)P2.CB, (T0290)E21.CB) [> 4.5333 = 7.5554 < 9.8221] w=0.3870 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)S157.CB) [> 4.4170 = 7.3616 < 9.5701] w=0.3870 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)V163.CB) [> 4.6942 = 7.8237 < 10.1708] w=0.3869 to align # Constraint # added constraint: constraint((T0290)D91.CB, (T0290)M106.CB) [> 4.6778 = 7.7962 < 10.1351] w=0.3768 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)V19.CB) [> 4.4160 = 7.3601 < 9.5681] w=0.3521 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)F20.CB) [> 2.8499 = 4.7499 < 6.1749] w=0.3521 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)L22.CB) [> 3.9022 = 6.5037 < 8.4548] w=0.3521 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)C168.CB) [> 3.7370 = 6.2284 < 8.0969] w=0.3521 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)V19.CB) [> 3.1755 = 5.2924 < 6.8801] w=0.3521 to align # Constraint # added constraint: constraint((T0290)N11.CB, (T0290)F20.CB) [> 4.0688 = 6.7813 < 8.8157] w=0.3521 to align # Constraint # added constraint: constraint((T0290)N11.CB, (T0290)I165.CB) [> 3.5493 = 5.9155 < 7.6901] w=0.3521 to align # Constraint # added constraint: constraint((T0290)N11.CB, (T0290)C168.CB) [> 3.3563 = 5.5939 < 7.2720] w=0.3521 to align # Constraint # added constraint: constraint((T0290)N12.CB, (T0290)S167.CB) [> 2.9545 = 4.9242 < 6.4014] w=0.3521 to align # Constraint # added constraint: constraint((T0290)Q13.CB, (T0290)V163.CB) [> 3.8471 = 6.4119 < 8.3354] w=0.3521 to align # Constraint # added constraint: constraint((T0290)N108.CB, (T0290)V133.CB) [> 4.5492 = 7.5820 < 9.8567] w=0.3508 to align # Constraint # added constraint: constraint((T0290)C36.CB, (T0290)H53.CB) [> 4.6792 = 7.7986 < 10.1382] w=0.3450 to align # Constraint # added constraint: constraint((T0290)R3.CB, (T0290)L171.CB) [> 2.7284 = 4.5473 < 5.9114] w=0.3435 to align # Constraint # added constraint: constraint((T0290)G78.CA, (T0290)A107.CB) [> 4.7232 = 7.8721 < 10.2337] w=0.3334 to align # Constraint # added constraint: constraint((T0290)L52.CB, (T0290)F73.CB) [> 4.1354 = 6.8924 < 8.9601] w=0.3174 to align # Constraint # added constraint: constraint((T0290)L37.CB, (T0290)L52.CB) [> 4.0477 = 6.7462 < 8.7700] w=0.3174 to align # Constraint # added constraint: constraint((T0290)R1.CB, (T0290)E21.CB) [> 3.2922 = 5.4870 < 7.1331] w=0.3145 to align # Constraint # added constraint: constraint((T0290)R1.CB, (T0290)D25.CB) [> 3.5496 = 5.9159 < 7.6907] w=0.3145 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)V19.CB) [> 3.8753 = 6.4588 < 8.3965] w=0.3086 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)E162.CB) [> 4.6255 = 7.7092 < 10.0220] w=0.3044 to align # Constraint # added constraint: constraint((T0290)L52.CB, (T0290)E82.CB) [> 4.2532 = 7.0886 < 9.2152] w=0.3044 to align # Constraint # added constraint: constraint((T0290)A9.CB, (T0290)F34.CB) [> 4.5337 = 7.5561 < 9.8230] w=0.3043 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)L22.CB) [> 4.2414 = 7.0691 < 9.1898] w=0.2796 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)L166.CB) [> 4.7523 = 7.9205 < 10.2966] w=0.2609 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)V134.CB) [> 4.6320 = 7.7200 < 10.0360] w=0.2594 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)K152.CB) [> 4.4955 = 7.4924 < 9.7401] w=0.2580 to align # Constraint # added constraint: constraint((T0290)V63.CB, (T0290)K152.CB) [> 3.3264 = 5.5441 < 7.2073] w=0.2580 to align # Constraint # added constraint: constraint((T0290)M106.CB, (T0290)F119.CB) [> 4.4929 = 7.4881 < 9.7345] w=0.2217 to align # Constraint # added constraint: constraint((T0290)K55.CB, (T0290)F73.CB) [> 4.7829 = 7.9715 < 10.3630] w=0.2174 to align # Constraint # added constraint: constraint((T0290)F66.CB, (T0290)E149.CB) [> 4.4391 = 7.3985 < 9.6180] w=0.2173 to align # Constraint # added constraint: constraint((T0290)V26.CB, (T0290)E92.CB) [> 4.3808 = 7.3014 < 9.4918] w=0.2029 to align # Constraint # added constraint: constraint((T0290)N99.CB, (T0290)T121.CB) [> 3.7482 = 6.2470 < 8.1211] w=0.1898 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)S74.CB) [> 3.8566 = 6.4277 < 8.3560] w=0.1782 to align # Constraint # added constraint: constraint((T0290)F88.CB, (T0290)R109.CB) [> 4.6294 = 7.7157 < 10.0304] w=0.1768 to align # Constraint # added constraint: constraint((T0290)L52.CB, (T0290)S116.CB) [> 4.5651 = 7.6085 < 9.8911] w=0.1739 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)F59.CB) [> 4.6858 = 7.8097 < 10.1526] w=0.1739 to align # Constraint # added constraint: constraint((T0290)F34.CB, (T0290)G136.CA) [> 4.6919 = 7.8198 < 10.1658] w=0.1739 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)I139.CB) [> 4.6582 = 7.7638 < 10.0929] w=0.1739 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)S74.CB) [> 3.7390 = 6.2317 < 8.1012] w=0.1347 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)E75.CB) [> 3.4275 = 5.7125 < 7.4262] w=0.1333 to align # Constraint # added constraint: constraint((T0290)P51.CB, (T0290)F73.CB) [> 4.1293 = 6.8821 < 8.9467] w=0.1304 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)S167.CB) [> 4.7364 = 7.8940 < 10.2623] w=0.1304 to align # Constraint # added constraint: constraint((T0290)V63.CB, (T0290)T122.CB) [> 4.5647 = 7.6078 < 9.8902] w=0.1304 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)T153.CB) [> 4.4407 = 7.4012 < 9.6216] w=0.1290 to align # Constraint # added constraint: constraint((T0290)G87.CA, (T0290)T113.CB) [> 3.7553 = 6.2589 < 8.1365] w=0.1203 to align # Constraint # added constraint: constraint((T0290)K42.CB, (T0290)C57.CB) [> 4.6344 = 7.7241 < 10.0413] w=0.1174 to align # Constraint # added constraint: constraint((T0290)G87.CA, (T0290)N114.CB) [> 3.5358 = 5.8930 < 7.6609] w=0.1174 to align # Constraint # added constraint: constraint((T0290)S74.CB, (T0290)S116.CB) [> 4.1782 = 6.9637 < 9.0529] w=0.1160 to align # Constraint # added constraint: constraint((T0290)E41.CB, (T0290)S167.CB) [> 4.3627 = 7.2711 < 9.4525] w=0.1160 to align # Constraint # added constraint: constraint((T0290)C36.CB, (T0290)S83.CB) [> 3.4667 = 5.7779 < 7.5113] w=0.1159 to align # Constraint # added constraint: constraint((T0290)L52.CB, (T0290)S74.CB) [> 4.6371 = 7.7286 < 10.0471] w=0.1145 to align # Constraint # added constraint: constraint((T0290)F88.CB, (T0290)N108.CB) [> 4.7188 = 7.8647 < 10.2241] w=0.1015 to align # Constraint # added constraint: constraint((T0290)P28.CB, (T0290)D91.CB) [> 4.4935 = 7.4892 < 9.7360] w=0.1014 to align # Constraint # added constraint: constraint((T0290)G86.CA, (T0290)S116.CB) [> 4.3909 = 7.3182 < 9.5137] w=0.0912 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)F73.CB) [> 3.3181 = 5.5302 < 7.1892] w=0.0912 to align # Constraint # added constraint: constraint((T0290)V96.CB, (T0290)S105.CB) [> 4.6962 = 7.8271 < 10.1752] w=0.0899 to align # Constraint # added constraint: constraint((T0290)S56.CB, (T0290)E75.CB) [> 4.1974 = 6.9957 < 9.0944] w=0.0898 to align # Constraint # added constraint: constraint((T0290)A95.CB, (T0290)V133.CB) [> 4.2193 = 7.0321 < 9.1418] w=0.0883 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)V18.CB) [> 4.7605 = 7.9342 < 10.3144] w=0.0870 to align # Constraint # added constraint: constraint((T0290)F94.CB, (T0290)H132.CB) [> 4.7796 = 7.9660 < 10.3559] w=0.0870 to align # Constraint # added constraint: constraint((T0290)M67.CB, (T0290)S105.CB) [> 4.7865 = 7.9775 < 10.3707] w=0.0870 to align # Constraint # added constraint: constraint((T0290)Y54.CB, (T0290)G70.CA) [> 4.6609 = 7.7682 < 10.0987] w=0.0870 to align # Constraint # added constraint: constraint((T0290)L22.CB, (T0290)E32.CB) [> 4.7664 = 7.9439 < 10.3271] w=0.0870 to align # Constraint # added constraint: constraint((T0290)N99.CB, (T0290)L128.CB) [> 2.5004 = 4.1674 < 5.4176] w=0.0869 to align # Constraint # added constraint: constraint((T0290)L58.CB, (T0290)S74.CB) [> 4.1878 = 6.9796 < 9.0735] w=0.0767 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)E75.CB) [> 4.3095 = 7.1825 < 9.3373] w=0.0754 to align # Constraint # added constraint: constraint((T0290)E90.CB, (T0290)N108.CB) [> 4.4816 = 7.4693 < 9.7101] w=0.0725 to align # Constraint # added constraint: constraint((T0290)G43.CA, (T0290)S167.CB) [> 4.3581 = 7.2635 < 9.4425] w=0.0724 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)C31.CB) [> 3.6462 = 6.0771 < 7.9002] w=0.0724 to align # Constraint # added constraint: constraint((T0290)A100.CB, (T0290)T122.CB) [> 3.7687 = 6.2812 < 8.1655] w=0.0594 to align # Constraint # added constraint: constraint((T0290)F5.CB, (T0290)S24.CB) [> 3.3941 = 5.6569 < 7.3539] w=0.0580 to align # Constraint # added constraint: constraint((T0290)R79.CB, (T0290)Q117.CB) [> 4.5736 = 7.6227 < 9.9095] w=0.0580 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)N77.CB) [> 3.7083 = 6.1805 < 8.0347] w=0.0580 to align # Constraint # added constraint: constraint((T0290)H53.CB, (T0290)S74.CB) [> 4.2616 = 7.1027 < 9.2335] w=0.0580 to align # Constraint # added constraint: constraint((T0290)A101.CB, (T0290)I120.CB) [> 4.5415 = 7.5692 < 9.8399] w=0.0579 to align # Constraint # added constraint: constraint((T0290)S93.CB, (T0290)K111.CB) [> 4.4058 = 7.3430 < 9.5459] w=0.0579 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)I120.CB) [> 4.4598 = 7.4330 < 9.6630] w=0.0478 to align # Constraint # added constraint: constraint((T0290)A107.CB, (T0290)V133.CB) [> 4.5842 = 7.6403 < 9.9324] w=0.0478 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)F23.CB) [> 4.5756 = 7.6260 < 9.9139] w=0.0464 to align # Constraint # added constraint: constraint((T0290)E21.CB, (T0290)L104.CB) [> 4.6856 = 7.8093 < 10.1521] w=0.0464 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)F94.CB) [> 4.6519 = 7.7532 < 10.0792] w=0.0449 to align # Constraint # added constraint: constraint((T0290)F20.CB, (T0290)L103.CB) [> 3.6229 = 6.0381 < 7.8495] w=0.0449 to align # Constraint # added constraint: constraint((T0290)T30.CB, (T0290)S105.CB) [> 3.5759 = 5.9598 < 7.7477] w=0.0449 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)V134.CB) [> 3.0127 = 5.0211 < 6.5274] w=0.0449 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)G136.CA) [> 3.7156 = 6.1926 < 8.0504] w=0.0449 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)F118.CB) [> 3.3767 = 5.6279 < 7.3163] w=0.0449 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)F119.CB) [> 4.3751 = 7.2917 < 9.4793] w=0.0449 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)F135.CB) [> 3.7833 = 6.3055 < 8.1971] w=0.0449 to align # Constraint # added constraint: constraint((T0290)L104.CB, (T0290)L128.CB) [> 4.1342 = 6.8904 < 8.9575] w=0.0449 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)I172.CB) [> 2.7662 = 4.6103 < 5.9934] w=0.0435 to align # Constraint # added constraint: constraint((T0290)L103.CB, (T0290)P124.CB) [> 4.7917 = 7.9861 < 10.3820] w=0.0435 to align # Constraint # added constraint: constraint((T0290)G43.CA, (T0290)C57.CB) [> 4.5893 = 7.6488 < 9.9434] w=0.0435 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)K55.CB) [> 4.7380 = 7.8967 < 10.2657] w=0.0435 to align # Constraint # added constraint: constraint((T0290)H60.CB, (T0290)V163.CB) [> 4.7964 = 7.9939 < 10.3921] w=0.0435 to align # Constraint # added constraint: constraint((T0290)C38.CB, (T0290)S167.CB) [> 4.7752 = 7.9587 < 10.3463] w=0.0435 to align # Constraint # added constraint: constraint((T0290)R61.CB, (T0290)G71.CA) [> 4.7057 = 7.8428 < 10.1957] w=0.0435 to align # Constraint # added constraint: constraint((T0290)K64.CB, (T0290)Q151.CB) [> 4.7686 = 7.9477 < 10.3320] w=0.0435 to align # Constraint # added constraint: constraint((T0290)I148.CB, (T0290)A161.CB) [> 4.7674 = 7.9456 < 10.3293] w=0.0435 to align # Constraint # added constraint: constraint((T0290)F102.CB, (T0290)G141.CA) [> 4.0620 = 6.7700 < 8.8010] w=0.0435 to align # Constraint # added constraint: constraint((T0290)D72.CB, (T0290)F118.CB) [> 4.4150 = 7.3583 < 9.5658] w=0.0435 to align # Constraint # added constraint: constraint((T0290)Q69.CB, (T0290)M106.CB) [> 3.5001 = 5.8336 < 7.5836] w=0.0434 to align # Constraint # added constraint: constraint((T0290)G70.CA, (T0290)M106.CB) [> 4.6105 = 7.6841 < 9.9893] w=0.0434 to align # Constraint # added constraint: constraint((T0290)E90.CB, (T0290)A107.CB) [> 4.3253 = 7.2089 < 9.3716] w=0.0434 to align # Constraint # added constraint: constraint((T0290)N99.CB, (T0290)H131.CB) [> 4.7260 = 7.8767 < 10.2397] w=0.0434 to align # Constraint # added constraint: constraint((T0290)F23.CB, (T0290)A95.CB) [> 4.6630 = 7.7716 < 10.1031] w=0.0333 to align # Constraint # added constraint: constraint((T0290)D7.CB, (T0290)L171.CB) [> 4.6882 = 7.8137 < 10.1578] w=0.0319 to align # Constraint # added constraint: constraint((T0290)F6.CB, (T0290)C31.CB) [> 4.2112 = 7.0187 < 9.1243] w=0.0290 to align # Constraint # added constraint: constraint((T0290)H53.CB, (T0290)I84.CB) [> 4.7593 = 7.9321 < 10.3117] w=0.0290 to align # Constraint # added constraint: constraint((T0290)H53.CB, (T0290)D72.CB) [> 4.0955 = 6.8259 < 8.8736] w=0.0290 to align # Constraint # added constraint: constraint((T0290)I84.CB, (T0290)S116.CB) [> 2.8004 = 4.6674 < 6.0676] w=0.0290 to align # Constraint # added constraint: constraint((T0290)C57.CB, (T0290)E82.CB) [> 4.2777 = 7.1294 < 9.2683] w=0.0290 to align # Constraint # added constraint: constraint((T0290)D72.CB, (T0290)M106.CB) [> 4.7706 = 7.9510 < 10.3362] w=0.0290 to align # Constraint # added constraint: constraint((T0290)G78.CA, (T0290)R109.CB) [> 4.5234 = 7.5390 < 9.8008] w=0.0145 to align # Constraint # added constraint: constraint((T0290)I8.CB, (T0290)Q137.CB) [> 4.4888 = 7.4813 < 9.7257] w=0.0043 to align # Constraint # added constraint: constraint((T0290)I10.CB, (T0290)S167.CB) [> 4.6385 = 7.7308 < 10.0500] w=0.0043 to align # Constraint # added constraint: constraint((T0290)G16.CA, (T0290)L166.CB) [> 4.5060 = 7.5100 < 9.7631] w=0.0043 to align # Constraint # added constraint: constraint((T0290)R17.CB, (T0290)S167.CB) [> 4.6821 = 7.8036 < 10.1446] w=0.0043 to align # Constraint # added constraint: constraint((T0290)V68.CB, (T0290)T121.CB) [> 4.7060 = 7.8433 < 10.1962] w=0.0043 to align # Constraint # added constraint: constraint((T0290)G71.CA, (T0290)F119.CB) [> 4.6826 = 7.8043 < 10.1456] w=0.0043 to align # Constraint # added constraint: constraint((T0290)F118.CB, (T0290)V133.CB) [> 3.9195 = 6.5325 < 8.4923] w=0.0043 to align # Constraint # added constraint: constraint((T0290)F119.CB, (T0290)V133.CB) [> 4.7792 = 7.9653 < 10.3549] w=0.0043 to align # Constraint # added constraint: constraint((T0290)S93.CB, (T0290)L128.CB) [> 4.2847 = 7.1411 < 9.2835] w=0.0029 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0290/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0290/decoys/ # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS5 # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 155 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # ReadConformPDB reading from PDB file servers/3Dpro_TS2.pdb.gz looking for model 1 # naming current conformation 3Dpro_TS2 # ReadConformPDB reading from PDB file servers/3Dpro_TS3.pdb.gz looking for model 1 # Found a chain break before 134 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS3 # ReadConformPDB reading from PDB file servers/3Dpro_TS4.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # Found a chain break before 115 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 163 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS1 # ReadConformPDB reading from PDB file servers/ABIpro_TS2.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS2 # ReadConformPDB reading from PDB file servers/ABIpro_TS3.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS3 # ReadConformPDB reading from PDB file servers/ABIpro_TS4.pdb.gz looking for model 1 # Found a chain break before 125 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS4 # ReadConformPDB reading from PDB file servers/ABIpro_TS5.pdb.gz looking for model 1 # Found a chain break before 163 # copying to AlignedFragments data structure # naming current conformation ABIpro_TS5 # ReadConformPDB reading from PDB file servers/BayesHH_TS1.pdb.gz looking for model 1 # Found a chain break before 151 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS1.pdb.gz looking for model 1 # Found a chain break before 124 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS2.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS2 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS3 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS4.pdb.gz looking for model 1 # Found a chain break before 158 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS5.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS5 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS2 # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS2 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS3 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS5 # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Distill_TS1 # ReadConformPDB reading from PDB file servers/Distill_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Distill_TS2 # ReadConformPDB reading from PDB file servers/Distill_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Distill_TS3 # ReadConformPDB reading from PDB file servers/Distill_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Distill_TS4 # ReadConformPDB reading from PDB file servers/Distill_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FAMSD_TS3 # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS4 # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS5 # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 156 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS1 # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 42 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS2 # ReadConformPDB reading from PDB file servers/FOLDpro_TS3.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS3 # ReadConformPDB reading from PDB file servers/FOLDpro_TS4.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS4 # ReadConformPDB reading from PDB file servers/FOLDpro_TS5.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS5 # ReadConformPDB reading from PDB file servers/FORTE1_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE1_AL1 # ReadConformPDB reading from PDB file servers/FORTE1_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE2_AL1 # ReadConformPDB reading from PDB file servers/FORTE2_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 161 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # naming current conformation FUGMOD_TS2 # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS3 # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS4 # ReadConformPDB reading from PDB file servers/FUGMOD_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS5 # ReadConformPDB reading from PDB file servers/FUGUE_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL2 # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FUGUE_AL3 # ReadConformPDB reading from PDB file servers/FUGUE_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FUGUE_AL4 # ReadConformPDB reading from PDB file servers/FUGUE_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # ReadConformPDB reading from PDB file servers/FUNCTION_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS1 # ReadConformPDB reading from PDB file servers/FUNCTION_TS2.pdb.gz looking for model 1 # Found a chain break before 171 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS2 # ReadConformPDB reading from PDB file servers/FUNCTION_TS3.pdb.gz looking for model 1 # Found a chain break before 171 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS3 # ReadConformPDB reading from PDB file servers/FUNCTION_TS4.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # ReadConformPDB reading from PDB file servers/FUNCTION_TS5.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/Frankenstein_TS1.pdb.gz looking for model 1 # Found a chain break before 157 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS1 # ReadConformPDB reading from PDB file servers/Frankenstein_TS2.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS2 # ReadConformPDB reading from PDB file servers/Frankenstein_TS3.pdb.gz looking for model 1 # Found a chain break before 156 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS3 # ReadConformPDB reading from PDB file servers/Frankenstein_TS4.pdb.gz looking for model 1 # Found a chain break before 157 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 64 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation HHpred1_TS1 # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 171 # copying to AlignedFragments data structure # naming current conformation HHpred2_TS1 # ReadConformPDB reading from PDB file servers/HHpred3_TS1.pdb.gz looking for model 1 # Found a chain break before 171 # copying to AlignedFragments data structure # naming current conformation HHpred3_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Huber-Torda-Server_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Huber-Torda-Server_TS3 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Huber-Torda-Server_TS4 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS5 # ReadConformPDB reading from PDB file servers/LOOPP_TS1.pdb.gz looking for model 1 # Found a chain break before 161 # copying to AlignedFragments data structure # naming current conformation LOOPP_TS1 # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation LOOPP_TS2 # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # Found a chain break before 119 # copying to AlignedFragments data structure # naming current conformation LOOPP_TS3 # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation LOOPP_TS4 # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 124 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS2.pdb.gz looking for model 1 # Found a chain break before 99 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS3.pdb.gz looking for model 1 # Found a chain break before 112 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS4.pdb.gz looking for model 1 # Found a chain break before 122 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS5.pdb.gz looking for model 1 # Found a chain break before 119 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server_TS5 # ReadConformPDB reading from PDB file servers/MetaTasser_TS1.pdb.gz looking for model 1 # Found a chain break before 163 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS1 # ReadConformPDB reading from PDB file servers/MetaTasser_TS2.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # Found a chain break before 50 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # Found a chain break before 50 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS1 # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS2 # ReadConformPDB reading from PDB file servers/Phyre-2_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS3 # ReadConformPDB reading from PDB file servers/Phyre-2_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS4 # ReadConformPDB reading from PDB file servers/Phyre-2_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-2_TS5 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS3 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation Pmodeller6_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS2.pdb.gz looking for model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS2 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS3.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS3 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS4.pdb.gz looking for model 1 # Found a chain break before 140 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS5.pdb.gz looking for model 1 # Found a chain break before 155 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS5 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS1.pdb.gz looking for model 1 # Found a chain break before 64 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS1 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS2.pdb.gz looking for model 1 # Found a chain break before 125 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS2 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS3.pdb.gz looking for model 1 # Found a chain break before 64 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS3 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS4.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS4 # ReadConformPDB reading from PDB file servers/RAPTORESS_TS5.pdb.gz looking for model 1 # Found a chain break before 153 # copying to AlignedFragments data structure # naming current conformation RAPTORESS_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR_TS1.pdb.gz looking for model 1 # Found a chain break before 64 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS1 # ReadConformPDB reading from PDB file servers/RAPTOR_TS2.pdb.gz looking for model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS2 # ReadConformPDB reading from PDB file servers/RAPTOR_TS3.pdb.gz looking for model 1 # Found a chain break before 112 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS3 # ReadConformPDB reading from PDB file servers/RAPTOR_TS4.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS1 # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS2 # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS3 # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # naming current conformation ROBETTA_TS4 # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # Found a chain break before 106 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # Found a chain break before 124 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 # Found a chain break before 101 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation ROKKY_TS5 # ReadConformPDB reading from PDB file servers/SAM-T02_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL1 # ReadConformPDB reading from PDB file servers/SAM-T02_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL3 # ReadConformPDB reading from PDB file servers/SAM-T02_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # ReadConformPDB reading from PDB file servers/SAM-T02_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T02_AL5 # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # ReadConformPDB reading from PDB file servers/SAM-T99_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T99_AL2 # ReadConformPDB reading from PDB file servers/SAM-T99_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL3 # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL4 # ReadConformPDB reading from PDB file servers/SAM-T99_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL5 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 157 # copying to AlignedFragments data structure # naming current conformation SAM_T06_server_TS1 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS2 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS5 # ReadConformPDB reading from PDB file servers/SP3_TS1.pdb.gz looking for model 1 # Found a chain break before 140 # copying to AlignedFragments data structure # naming current conformation SP3_TS1 # ReadConformPDB reading from PDB file servers/SP3_TS2.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SP3_TS2 # ReadConformPDB reading from PDB file servers/SP3_TS3.pdb.gz looking for model 1 # Found a chain break before 108 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # ReadConformPDB reading from PDB file servers/SP3_TS4.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation SP3_TS5 # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 140 # copying to AlignedFragments data structure # naming current conformation SP4_TS1 # ReadConformPDB reading from PDB file servers/SP4_TS2.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation SP4_TS3 # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation SP4_TS4 # ReadConformPDB reading from PDB file servers/SP4_TS5.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SP4_TS5 # ReadConformPDB reading from PDB file servers/SPARKS2_TS1.pdb.gz looking for model 1 # Found a chain break before 97 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS1 # ReadConformPDB reading from PDB file servers/SPARKS2_TS2.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS2 # ReadConformPDB reading from PDB file servers/SPARKS2_TS3.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS3 # ReadConformPDB reading from PDB file servers/SPARKS2_TS4.pdb.gz looking for model 1 # Found a chain break before 92 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS4 # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # Found a chain break before 124 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_bnmx_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS2 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_bnmx_TS4 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_expm_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_sfst_AL1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL2 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL5 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # naming current conformation Zhang-Server_TS1 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS2.pdb.gz looking for model 1 # Found a chain break before 11 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS2 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS3.pdb.gz looking for model 1 # Found a chain break before 64 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS3 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS4.pdb.gz looking for model 1 # naming current conformation Zhang-Server_TS4 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS5.pdb.gz looking for model 1 # Found a chain break before 11 # copying to AlignedFragments data structure # naming current conformation Zhang-Server_TS5 # ReadConformPDB reading from PDB file servers/beautshot_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation forecast-s_AL3 # ReadConformPDB reading from PDB file servers/forecast-s_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation forecast-s_AL4 # ReadConformPDB reading from PDB file servers/forecast-s_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # ReadConformPDB reading from PDB file servers/gtg_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation gtg_AL1 # ReadConformPDB reading from PDB file servers/gtg_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation gtg_AL2 # ReadConformPDB reading from PDB file servers/gtg_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation gtg_AL3 # ReadConformPDB reading from PDB file servers/gtg_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation gtg_AL4 # ReadConformPDB reading from PDB file servers/gtg_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation gtg_AL5 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS2.pdb.gz looking for model 1 # Found a chain break before 124 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS3.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS4.pdb.gz looking for model 1 # Found a chain break before 155 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # Found a chain break before 93 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS1.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 68 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # Found a chain break before 125 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # Found a chain break before 68 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS3 # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # naming current conformation keasar-server_TS4 # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation nFOLD_TS3 # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation nFOLD_TS4 # ReadConformPDB reading from PDB file servers/nFOLD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0290 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score -0.6927 model score -0.6789 model score -0.6918 model score -0.6513 model score -0.6882 model score -0.7529 model score -0.7549 model score -0.7533 model score -0.7196 model score -0.7390 model score -0.7274 model score -0.7177 model score -0.7348 model score -0.7261 model score -0.7432 model score -0.7968 model score -0.8090 model score -0.3876 model score -0.7157 model score -0.4660 model score 1.7855 model score 1.7929 model score 1.7358 model score 1.7318 model score 1.9056 model score -0.7941 model score -0.7514 model score -0.7721 model score -0.7617 model score -0.7470 model score -0.7670 model score -0.7388 model score -0.7418 model score -0.7484 model score -0.7519 model score -0.7268 model score -0.7775 model score -0.7855 model score -0.7884 model score -0.7706 model score -0.6816 model score 1.2677 model score 1.2660 model score 1.2651 model score 1.2685 model score 1.2664 model score -0.7488 model score -0.7496 model score -0.7514 model score -0.7513 model score -0.7256 model score -0.7268 model score -0.7513 model score -0.7519 model score -0.7388 model score -0.7503 model score -0.8063 model score -0.7095 model score -0.3388 model score -0.4746 model score -0.4543 model score 1.2634 model score 1.2698 model score 1.2771 model score 1.2804 model score 1.2837 model score 1.2634 model score 1.2698 model score 1.2783 model score 1.2791 model score 1.2764 model score 2.0357 model score -0.7798 model score -0.7960 model score 1.2543 model score 1.6328 model score 1.8541 model score 1.2633 model score 1.2635 model score 1.2771 model score 1.2771 model score 1.2755 model score -0.6011 model score -0.6117 model score -0.7306 model score -0.7147 model score -0.7503 model score -0.6126 model score -0.7359 model score -0.7439 model score -0.6126 model score -0.7806 model score -0.7411 model score -0.7115 model score -0.7919 model score -0.7573 model score -0.7529 model score -0.7919 model score -0.7919 model score -0.7643 model score -0.7814 model score -0.7575 model score -0.8008 model score -0.7718 model score -0.6992 model score -0.7299 model score -0.6828 model score -0.6103 model score -0.7078 model score 1.2668 model score -0.7754 model score -0.3670 model score -0.7228 model score 1.9115 model score 2.1084 model score -0.5419 model score -0.2812 model score -0.7251 model score -0.7560 model score -0.7571 model score -0.7535 model score -0.7515 model score -0.7539 model score -0.7518 model score -0.7539 model score -0.7534 model score -0.7486 model score -0.7371 model score -0.7544 model score -0.7544 model score -0.7544 model score -0.7544 model score -0.7718 model score -0.7651 model score -0.7610 model score -0.7610 model score -0.7610 model score -0.7610 model score -0.7610 model score -0.7754 model score -0.7754 model score -0.7754 model score -0.7754 model score -0.7754 model score -0.7131 model score -0.7971 model score -0.7382 model score -0.7006 model score -0.7827 model score -0.7519 model score -0.7554 model score -0.3112 model score -0.7226 model score -0.6353 model score -0.7519 model score -0.7816 model score -0.6925 model score -0.6928 model score -0.7025 model score -0.7633 model score -0.8089 model score -0.7216 model score -0.7653 model score -0.7105 model score -0.7320 model score -0.7273 model score -0.7062 model score -0.7254 model score -0.7271 model score 1.2632 model score 1.2634 model score 1.2632 model score 1.2630 model score 1.2635 model score 1.2635 model score 1.2635 model score 1.2640 model score 1.2635 model score 1.2635 model score -0.7692 model score -0.5563 model score -0.4783 model score -0.6262 model score -0.7981 model score -0.7006 model score -0.5645 model score -0.4776 model score -0.5775 model score -0.7971 model score -0.7006 model score -0.5645 model score -0.7971 model score -0.4579 model score -0.5835 model score -0.6932 model score -0.5645 model score -0.4599 model score -0.5775 model score -0.7897 model score 1.2637 model score 1.2630 model score 1.2667 model score 1.2635 model score 1.2667 model score -0.7316 model score 1.2637 model score 1.2630 model score 1.2667 model score 1.2635 model score 1.2667 model score -0.7605 model score -0.7698 model score -0.7587 model score -0.7681 model score -0.7678 model score -0.7224 model score -0.7271 model score 1.2634 model score 1.2670 model score 1.2807 model score 1.2835 model score 1.2737 model score 1.2635 model score 1.2633 model score 1.2638 model score 1.2632 model score 1.2634 model score -0.7704 model score -0.7543 model score -0.7487 model score -0.7456 model score -0.7704 model score 2.0722 model score -0.7625 model score -0.7841 model score -0.7634 model score -0.7560 model score -0.7564 model score -0.6837 model score -0.6899 model score -0.6837 model score -0.6720 model score -0.6823 model score -0.7766 model score -0.7766 model score -0.4069 model score -0.5285 model score 1.7745 model score 1.5176 model score -0.7461 USE_META, weight: 0.9641 cost: -0.6927 min: -0.8090 max: 2.1084 USE_META, weight: 0.9599 cost: -0.6789 min: -0.8090 max: 2.1084 USE_META, weight: 0.9638 cost: -0.6918 min: -0.8090 max: 2.1084 USE_META, weight: 0.9513 cost: -0.6513 min: -0.8090 max: 2.1084 USE_META, weight: 0.9627 cost: -0.6882 min: -0.8090 max: 2.1084 USE_META, weight: 0.9827 cost: -0.7529 min: -0.8090 max: 2.1084 USE_META, weight: 0.9833 cost: -0.7549 min: -0.8090 max: 2.1084 USE_META, weight: 0.9828 cost: -0.7533 min: -0.8090 max: 2.1084 USE_META, weight: 0.9724 cost: -0.7196 min: -0.8090 max: 2.1084 USE_META, weight: 0.9784 cost: -0.7390 min: -0.8090 max: 2.1084 USE_META, weight: 0.9748 cost: -0.7274 min: -0.8090 max: 2.1084 USE_META, weight: 0.9718 cost: -0.7177 min: -0.8090 max: 2.1084 USE_META, weight: 0.9771 cost: -0.7348 min: -0.8090 max: 2.1084 USE_META, weight: 0.9744 cost: -0.7261 min: -0.8090 max: 2.1084 USE_META, weight: 0.9797 cost: -0.7432 min: -0.8090 max: 2.1084 USE_META, weight: 0.9962 cost: -0.7968 min: -0.8090 max: 2.1084 USE_META, weight: 1.0000 cost: -0.8090 min: -0.8090 max: 2.1084 USE_META, weight: 0.8700 cost: -0.3876 min: -0.8090 max: 2.1084 USE_META, weight: 0.9712 cost: -0.7157 min: -0.8090 max: 2.1084 USE_META, weight: 0.8942 cost: -0.4660 min: -0.8090 max: 2.1084 USE_META, weight: 0.1996 cost: 1.7855 min: -0.8090 max: 2.1084 USE_META, weight: 0.1973 cost: 1.7929 min: -0.8090 max: 2.1084 USE_META, weight: 0.2149 cost: 1.7358 min: -0.8090 max: 2.1084 USE_META, weight: 0.2162 cost: 1.7318 min: -0.8090 max: 2.1084 USE_META, weight: 0.1626 cost: 1.9056 min: -0.8090 max: 2.1084 USE_META, weight: 0.9954 cost: -0.7941 min: -0.8090 max: 2.1084 USE_META, weight: 0.9822 cost: -0.7514 min: -0.8090 max: 2.1084 USE_META, weight: 0.9886 cost: -0.7721 min: -0.8090 max: 2.1084 USE_META, weight: 0.9854 cost: -0.7617 min: -0.8090 max: 2.1084 USE_META, weight: 0.9809 cost: -0.7470 min: -0.8090 max: 2.1084 USE_META, weight: 0.9870 cost: -0.7670 min: -0.8090 max: 2.1084 USE_META, weight: 0.9783 cost: -0.7388 min: -0.8090 max: 2.1084 USE_META, weight: 0.9793 cost: -0.7418 min: -0.8090 max: 2.1084 USE_META, weight: 0.9813 cost: -0.7484 min: -0.8090 max: 2.1084 USE_META, weight: 0.9824 cost: -0.7519 min: -0.8090 max: 2.1084 USE_META, weight: 0.9746 cost: -0.7268 min: -0.8090 max: 2.1084 USE_META, weight: 0.9903 cost: -0.7775 min: -0.8090 max: 2.1084 USE_META, weight: 0.9927 cost: -0.7855 min: -0.8090 max: 2.1084 USE_META, weight: 0.9936 cost: -0.7884 min: -0.8090 max: 2.1084 USE_META, weight: 0.9882 cost: -0.7706 min: -0.8090 max: 2.1084 USE_META, weight: 0.9607 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eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 0.0000 Number of contacts in models: 250 Number of contacts in alignments: 72 NUMB_ALIGNS: 72 Adding 4249 constraints to all3.constraints Done adding distance constraints # command:Reading probabilities from probabilities.dat Reading constraints from ConstraintSet all3.constraints maxweight: 1.0000 Optimizing... Probability sum: -327.7141, CN propb: -327.7141 weights: 0.5176 constraints: 525 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 525 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 525 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 3724 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 3724 # command:Found ConstraintSet # PrintContacts non_contacts.constraints_meta03 Number of constraints in noncontact3.constraints 0 # command:Found ConstraintSet # PrintContacts non_contacts_bonus.constraints_meta03 Number of constraints in noncontact3.constraints.bonus 0 # command:Found ConstraintSet # PrintContacts all.constraints_meta03 Number of constraints in all3.constraints 4249 # command: