# 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/T0368/ # command:# Making conformation for sequence T0368 numbered 1 through 174 Created new target T0368 from T0368.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0368/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0368//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0368/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0368//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0368/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0368/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0368/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1na0A/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/T0368/1na0A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1na0A/merged-good-all-a2m.gz for input Trying 1na0A/merged-good-all-a2m Error: Couldn't open file 1na0A/merged-good-all-a2m or 1na0A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wao1/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/T0368/1wao1/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1wao1/merged-good-all-a2m.gz for input Trying 1wao1/merged-good-all-a2m Error: Couldn't open file 1wao1/merged-good-all-a2m or 1wao1/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fo7A/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/T0368/2fo7A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/2fo7A/merged-good-all-a2m.gz for input Trying 2fo7A/merged-good-all-a2m Error: Couldn't open file 2fo7A/merged-good-all-a2m or 2fo7A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ouvA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ouvA expands to /projects/compbio/data/pdb/1ouv.pdb.gz 1ouvA:# T0368 read from 1ouvA/merged-good-all-a2m # 1ouvA read from 1ouvA/merged-good-all-a2m # adding 1ouvA to template set # found chain 1ouvA in template set T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEIS 1ouvA 32 :LVGLGAKSYKEKDFTQAKKYFEKACDLK # choosing archetypes in rotamer library T0368 54 :FDAFCHAGLAEALAGLR 1ouvA 60 :ENSGCFNLGVLYYQGQG T0368 71 :SFDEALHSADKALHY 1ouvA 80 :NLKKAASFYAKACDL T0368 103 :AVYSRALALDGLGRG 1ouvA 100 :CHLLGNLYYSGQGVS T0368 118 :AEAMPEFKKVVE 1ouvA 118 :NKALQYYSKACD T0368 130 :MIEERKGETPGKERMMEVAIDRIA 1ouvA 142 :IYHDGKVVTRDFKKAVEYFTKACD Number of specific fragments extracted= 6 number of extra gaps= 0 total=6 Number of alignments=1 # 1ouvA read from 1ouvA/merged-good-all-a2m # found chain 1ouvA in template set T0368 5 :KE 1ouvA 30 :KE T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEISH 1ouvA 32 :LVGLGAKSYKEKDFTQAKKYFEKACDLKE T0368 55 :DAFCHAGLAEALAGLR 1ouvA 61 :NSGCFNLGVLYYQGQG T0368 71 :SFDEALHSADKALHY 1ouvA 80 :NLKKAASFYAKACDL T0368 103 :AVYSRALALDGLGRG 1ouvA 100 :CHLLGNLYYSGQGVS T0368 118 :AEAMPEFKKVVE 1ouvA 118 :NKALQYYSKACD T0368 130 :MIEERKGETPGKERMMEVAIDRIA 1ouvA 142 :IYHDGKVVTRDFKKAVEYFTKACD Number of specific fragments extracted= 7 number of extra gaps= 0 total=13 Number of alignments=2 # 1ouvA read from 1ouvA/merged-good-all-a2m # found chain 1ouvA in template set Warning: unaligning (T0368)G9 because first residue in template chain is (1ouvA)D28 T0368 10 :AYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1ouvA 29 :PKELVGLGAKSYKEKDFTQAKKYFEKACDLKEN T0368 57 :FCHAGLAEALAGLR 1ouvA 62 :SGCFNLGVLYYQGQ T0368 71 :SFDEALHSADKALHY 1ouvA 80 :NLKKAASFYAKACDL T0368 88 :RRGE 1ouvA 95 :NYSN T0368 103 :AVYSRALALDGLG 1ouvA 99 :GCHLLGNLYYSGQ T0368 116 :RGAEAMPEFKKVVEM 1ouvA 116 :NTNKALQYYSKACDL T0368 133 :ERKGETPGKERMM 1ouvA 131 :KYAEGCASLGGIY T0368 149 :IDRIAQLGASNQQKKPG 1ouvA 151 :RDFKKAVEYFTKACDLN Number of specific fragments extracted= 8 number of extra gaps= 0 total=21 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wfdA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wfdA expands to /projects/compbio/data/pdb/1wfd.pdb.gz 1wfdA:# T0368 read from 1wfdA/merged-good-all-a2m # 1wfdA read from 1wfdA/merged-good-all-a2m # adding 1wfdA to template set # found chain 1wfdA in template set T0368 6 :EVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEI 1wfdA 11 :DSTAAVAVLKRAVELDAESRYQQALVCYQEGIDM T0368 62 :LAEALAGLRS 1wfdA 45 :LLQVLKGTKE T0368 118 :AEAMPEFKKVVEMIEER 1wfdA 55 :SSKRCVLRTKISGYMDR T0368 145 :MEVAIDRIAQLGASNQQKKP 1wfdA 72 :AENIKKYLDQEKEDGKSGPS Number of specific fragments extracted= 4 number of extra gaps= 0 total=25 Number of alignments=4 # 1wfdA read from 1wfdA/merged-good-all-a2m # found chain 1wfdA in template set T0368 6 :EVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEI 1wfdA 11 :DSTAAVAVLKRAVELDAESRYQQALVCYQEGIDM T0368 62 :LAEALAGLRSFDEALHSADKALHY 1wfdA 45 :LLQVLKGTKESSKRCVLRTKISGY T0368 105 :YSRA 1wfdA 69 :MDRA T0368 122 :PEFKKVVEMIEERKGETPG 1wfdA 73 :ENIKKYLDQEKEDGKSGPS Number of specific fragments extracted= 4 number of extra gaps= 0 total=29 Number of alignments=5 # 1wfdA read from 1wfdA/merged-good-all-a2m # found chain 1wfdA in template set T0368 5 :KEVVGAYLALSDAQRQLVAGEYDEAAANCRR 1wfdA 10 :SDSTAAVAVLKRAVELDAESRYQQALVCYQE T0368 75 :ALHSADKALHYFNRRGE 1wfdA 41 :GIDMLLQVLKGTKESSK T0368 134 :RKGETPGKERMMEVAIDRIAQLGASNQ 1wfdA 58 :RCVLRTKISGYMDRAENIKKYLDQEKE Number of specific fragments extracted= 3 number of extra gaps= 0 total=32 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1d8dA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1d8dA expands to /projects/compbio/data/pdb/1d8d.pdb.gz 1d8dA:# T0368 read from 1d8dA/merged-good-all-a2m # 1d8dA read from 1d8dA/merged-good-all-a2m # adding 1d8dA to template set # found chain 1d8dA in template set T0368 5 :KEVVGAYLALSDA 1d8dA 234 :NSVWNQRHFVISN T0368 22 :VAGEYDEAAANCRRAMEISHT 1d8dA 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1d8dA 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKAL 1d8dA 289 :LSRYPNLLNQLLDLQ T0368 97 :GKLWISAV 1d8dA 308 :SPYLIAFL T0368 105 :YSRALAL 1d8dA 317 :DIYEDML T0368 112 :DGLGRGAEAMPEFKKVVEMIEERK 1d8dA 325 :NQCDNKEDILNKALELCEILAKEK T0368 137 :ETPGKERMMEVAIDRIAQLG 1d8dA 349 :DTIRKEYWRYIGRSLQSKHS T0368 159 :NQQKKP 1d8dA 369 :RESDIP Number of specific fragments extracted= 9 number of extra gaps= 0 total=41 Number of alignments=7 # 1d8dA read from 1d8dA/merged-good-all-a2m # found chain 1d8dA in template set T0368 6 :EVVGAYLALSDAQRQ 1d8dA 235 :SVWNQRHFVISNTTG T0368 22 :VAGEYDEAAANCRRAMEISHT 1d8dA 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1d8dA 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKA 1d8dA 289 :LSRYPNLLNQLLDL T0368 93 :NQDEGK 1d8dA 303 :QPSHSS T0368 99 :LWISAVYSRALAL 1d8dA 310 :YLIAFLVDIYEDM T0368 112 :DGLGRGAEAMPEFKKVVEMIEE 1d8dA 325 :NQCDNKEDILNKALELCEILAK T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQ 1d8dA 347 :EKDTIRKEYWRYIGRSLQSKHSRESD T0368 163 :KP 1d8dA 373 :IP Number of specific fragments extracted= 9 number of extra gaps= 0 total=50 Number of alignments=8 # 1d8dA read from 1d8dA/merged-good-all-a2m # found chain 1d8dA in template set T0368 8 :VGAYLALSDAQRQLVAG 1d8dA 94 :EKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1d8dA 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1d8dA 130 :NYTVWHFRRVLLRSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1d8dA 147 :DLQEEMNYIIAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1d8dA 168 :VWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=55 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xnfA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xnfA expands to /projects/compbio/data/pdb/1xnf.pdb.gz 1xnfA: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 # T0368 read from 1xnfA/merged-good-all-a2m # 1xnfA read from 1xnfA/merged-good-all-a2m # adding 1xnfA to template set # found chain 1xnfA in template set Warning: unaligning (T0368)E96 because of BadResidue code BAD_PEPTIDE in next template residue (1xnfA)N130 Warning: unaligning (T0368)G97 because of BadResidue code BAD_PEPTIDE at template residue (1xnfA)N130 T0368 8 :VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPP 1xnfA 60 :ERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPE T0368 58 :CHAGLAEALAGLRSFDEALHSADKALHY 1xnfA 98 :VFNYLGIYLTQAGNFDAAYEAFDSVLEL T0368 93 :NQD 1xnfA 126 :DPT T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVE 1xnfA 131 :YAHLNRGIALYYGGRDKLAQDDLLAFYQ T0368 130 :MIEERKG 1xnfA 171 :YLAEQKL T0368 140 :GKERMMEVAIDRIAQLGASN 1xnfA 178 :DEKQAKEVLKQHFEKSDKEQ Number of specific fragments extracted= 6 number of extra gaps= 1 total=61 Number of alignments=10 # 1xnfA read from 1xnfA/merged-good-all-a2m # found chain 1xnfA in template set Warning: unaligning (T0368)R89 because of BadResidue code BAD_PEPTIDE in next template residue (1xnfA)N130 Warning: unaligning (T0368)G90 because of BadResidue code BAD_PEPTIDE at template residue (1xnfA)N130 T0368 2 :KPLKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMP 1xnfA 54 :RALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMP T0368 57 :FCHAGLAEALAGLRSFDEALHSADKALHYFNR 1xnfA 97 :EVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVE 1xnfA 131 :YAHLNRGIALYYGGRDKLAQDDLLAFYQ T0368 131 :IEERK 1xnfA 172 :LAEQK T0368 140 :GKERMMEVAIDRIAQLGAS 1xnfA 178 :DEKQAKEVLKQHFEKSDKE Number of specific fragments extracted= 5 number of extra gaps= 1 total=66 Number of alignments=11 # 1xnfA read from 1xnfA/merged-good-all-a2m # found chain 1xnfA in template set Warning: unaligning (T0368)R89 because of BadResidue code BAD_PEPTIDE in next template residue (1xnfA)N130 Warning: unaligning (T0368)G90 because of BadResidue code BAD_PEPTIDE at template residue (1xnfA)N130 T0368 5 :KEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1xnfA 57 :TDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1xnfA 95 :MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT T0368 91 :E 1xnfA 131 :Y T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEV 1xnfA 132 :AHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQK T0368 149 :IDRIAQLGASNQQKKP 1xnfA 177 :LDEKQAKEVLKQHFEK Number of specific fragments extracted= 5 number of extra gaps= 1 total=71 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jcqA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1jcqA expands to /projects/compbio/data/pdb/1jcq.pdb.gz 1jcqA:# T0368 read from 1jcqA/merged-good-all-a2m # 1jcqA read from 1jcqA/merged-good-all-a2m # adding 1jcqA to template set # found chain 1jcqA in template set T0368 5 :KEVVGAYLA 1jcqA 234 :NSVWNQRYF T0368 131 :IEERKGETPGKERMMEVAIDRIAQLGAS 1jcqA 243 :VISNTTGYNDRAVLEREVQYTLEMIKLV Number of specific fragments extracted= 2 number of extra gaps= 0 total=73 Number of alignments=13 # 1jcqA read from 1jcqA/merged-good-all-a2m # found chain 1jcqA in template set T0368 6 :EVVGAYLALSDAQRQ 1jcqA 235 :SVWNQRYFVISNTTG T0368 22 :VAGEYDEAAANCRRAMEISHT 1jcqA 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1jcqA 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKA 1jcqA 289 :LSKYPNLLNQLLDL T0368 93 :NQDEGKLWISAVY 1jcqA 303 :QPSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEE 1jcqA 319 :YEDMLENQCDNKEDILNKALELCEILAK T0368 135 :KGETPGKERMMEVAIDRIAQ 1jcqA 347 :EKDTIRKEYWRYIGRSLQSK Number of specific fragments extracted= 7 number of extra gaps= 0 total=80 Number of alignments=14 # 1jcqA read from 1jcqA/merged-good-all-a2m # found chain 1jcqA in template set T0368 2 :KPLKEVVGAYLALSDAQRQLVAG 1jcqA 123 :AIELNAANYTVWHFRRVLLKSLQ T0368 25 :EYDEAAANCRRAMEISHT 1jcqA 147 :DLHEEMNYITAIIEEQPK T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1jcqA 165 :NYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYH T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAID 1jcqA 202 :AWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTG T0368 151 :RIAQLGASNQQKKPGYK 1jcqA 256 :LEREVQYTLEMIKLVPH Number of specific fragments extracted= 5 number of extra gaps= 0 total=85 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qqeA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qqeA expands to /projects/compbio/data/pdb/1qqe.pdb.gz 1qqeA:# T0368 read from 1qqeA/merged-good-all-a2m # 1qqeA read from 1qqeA/merged-good-all-a2m # adding 1qqeA to template set # found chain 1qqeA in template set T0368 4 :LKEVVGAY 1qqeA 33 :FEEAADLC T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISH 1qqeA 41 :VQAATIYRLRKELNLAGDSFLKAADYQK T0368 51 :HAGF 1qqeA 69 :KAGN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ 1qqeA 76 :AGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRR T0368 100 :WISAVYSRALALDG 1qqeA 116 :GANFKFELGEILEN T0368 114 :LGRGAEAMPEFKKVVEMIEERK 1qqeA 131 :LHDYAKAIDCYELAGEWYAQDQ T0368 139 :PGKERMMEVAIDRIAQLGASNQ 1qqeA 172 :GQYIEASDIYSKLIKSSMGNRL Number of specific fragments extracted= 7 number of extra gaps= 0 total=92 Number of alignments=16 # 1qqeA read from 1qqeA/merged-good-all-a2m # found chain 1qqeA in template set T0368 4 :LKEVVGAYL 1qqeA 33 :FEEAADLCV T0368 15 :SDAQRQLVAGEYDEAAANCRRAMEISHT 1qqeA 42 :QAATIYRLRKELNLAGDSFLKAADYQKK T0368 49 :FDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ 1qqeA 70 :AGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRR T0368 100 :WISAVYSRALAL 1qqeA 116 :GANFKFELGEIL T0368 112 :DGLGRGAEAMPEFKKVVEMIEERKG 1qqeA 129 :NDLHDYAKAIDCYELAGEWYAQDQS T0368 139 :PGKERMMEVAIDRIAQLGASNQ 1qqeA 172 :GQYIEASDIYSKLIKSSMGNRL Number of specific fragments extracted= 6 number of extra gaps= 0 total=98 Number of alignments=17 # 1qqeA read from 1qqeA/merged-good-all-a2m # found chain 1qqeA in template set T0368 8 :VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1qqeA 35 :EAADLCVQAATIYRLRKELNLAGDSFLKAADYQKK T0368 49 :FDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1qqeA 70 :AGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ T0368 97 :GKLWISAVYSRALALD 1qqeA 113 :FRRGANFKFELGEILE T0368 113 :GLGRGAEAMPEFKKVVEMIEER 1qqeA 130 :DLHDYAKAIDCYELAGEWYAQD T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQKK 1qqeA 158 :NKCFIKCADLKALDGQYIEASDIYSKLIK Number of specific fragments extracted= 5 number of extra gaps= 0 total=103 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2c2lA/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/T0368/2c2lA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/2c2lA/merged-good-all-a2m.gz for input Trying 2c2lA/merged-good-all-a2m Error: Couldn't open file 2c2lA/merged-good-all-a2m or 2c2lA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qbqA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1qbqA expands to /projects/compbio/data/pdb/1qbq.pdb.gz 1qbqA:# T0368 read from 1qbqA/merged-good-all-a2m # 1qbqA read from 1qbqA/merged-good-all-a2m # adding 1qbqA to template set # found chain 1qbqA in template set T0368 5 :KEVVGAYLALSDAQRQL 1qbqA 234 :NSVWNQRHFVISNTTGY T0368 22 :VAGEYDEA 1qbqA 252 :DRAVLERE T0368 33 :CRRAMEISHTMPP 1qbqA 260 :VQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1qbqA 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKALH 1qbqA 289 :LSRYPNLLNQLLDLQP T0368 96 :EGKL 1qbqA 305 :SHSS T0368 106 :SRALAL 1qbqA 309 :PYLIAF T0368 123 :EFKKVVEMIE 1qbqA 315 :LVDIYEDMLE T0368 136 :GETPGKERMMEVAIDRIAQLGASNQQ 1qbqA 325 :NQCDNKEDILNKALELCEILAKEKDT Number of specific fragments extracted= 9 number of extra gaps= 0 total=112 Number of alignments=19 # 1qbqA read from 1qbqA/merged-good-all-a2m # found chain 1qbqA in template set T0368 2 :KPLKEVVGAYLALSDAQ 1qbqA 146 :KDLQEEMNYITAIIEEQ T0368 24 :GEYDEAAANCRRAMEISHTMPPEE 1qbqA 163 :PKNYQVWHHRRVLVEWLKDPSQEL T0368 48 :AFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1qbqA 192 :ILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVR T0368 97 :GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI 1qbqA 233 :NNSVWNQRHFVISNTTGYSDRAVLEREVQYTLEMI T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQ 1qbqA 324 :ENQCDNKEDILNKALELCEILAKEKD Number of specific fragments extracted= 5 number of extra gaps= 0 total=117 Number of alignments=20 # 1qbqA read from 1qbqA/merged-good-all-a2m # found chain 1qbqA in template set T0368 8 :VGAYLALSDAQRQLVAG 1qbqA 94 :EKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1qbqA 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1qbqA 130 :NYTVWHFRRVLLRSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1qbqA 147 :DLQEEMNYITAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1qbqA 168 :VWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=122 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1a17/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1a17 expands to /projects/compbio/data/pdb/1a17.pdb.gz 1a17:Warning: there is no chain 1a17 will retry with 1a17A # T0368 read from 1a17/merged-good-all-a2m # 1a17 read from 1a17/merged-good-all-a2m # adding 1a17 to template set # found chain 1a17 in template set T0368 6 :EVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1a17 24 :ALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPS T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1a17 61 :NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVV 1a17 95 :YIKGYYRRAASNMALGKFRAALRDYETVV T0368 133 :ERKGETPGKERMMEVAIDRIAQLG 1a17 124 :KVKPHDKDAKMKYQECNKIVKQKA Number of specific fragments extracted= 4 number of extra gaps= 0 total=126 Number of alignments=22 # 1a17 read from 1a17/merged-good-all-a2m # found chain 1a17 in template set T0368 1 :MKPLKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1a17 19 :PPADGALKRAEELKTQANDYFKAKDYENAIKFYSQAIELNPS T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1a17 61 :NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVVE 1a17 95 :YIKGYYRRAASNMALGKFRAALRDYETVVK T0368 134 :RKGETPGKERMMEVAIDRIAQLG 1a17 125 :VKPHDKDAKMKYQECNKIVKQKA Number of specific fragments extracted= 4 number of extra gaps= 0 total=130 Number of alignments=23 # 1a17 read from 1a17/merged-good-all-a2m # found chain 1a17 in template set T0368 8 :VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1a17 26 :KRAEELKTQANDYFKAKDYENAIKFYSQAIELNPS T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1a17 61 :NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIK T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKP 1a17 98 :GYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR Number of specific fragments extracted= 3 number of extra gaps= 0 total=133 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2dbaA/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/T0368/2dbaA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/2dbaA/merged-good-all-a2m.gz for input Trying 2dbaA/merged-good-all-a2m Error: Couldn't open file 2dbaA/merged-good-all-a2m or 2dbaA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1elwA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1elwA/merged-good-all-a2m # 1elwA read from 1elwA/merged-good-all-a2m # found chain 1elwA in training set Warning: unaligning (T0368)K2 because first residue in template chain is (1elwA)E2 T0368 3 :PLKEVV 1elwA 3 :QVNELK T0368 15 :SDAQRQLVAGEYDEAAANCRRAMEISHT 1elwA 9 :EKGNKALSVGNIDDALQCYSEAIKLDPH T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHY 1elwA 37 :NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL T0368 93 :NQDEGK 1elwA 68 :KPDWGK T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVE 1elwA 74 :GYSRKAAALEFLNRFEEAKRTYEEGLK T0368 137 :ETPGKERM 1elwA 101 :HEANNPQL T0368 149 :IDRIAQLGA 1elwA 109 :KEGLQNMEA Number of specific fragments extracted= 7 number of extra gaps= 0 total=140 Number of alignments=25 # 1elwA read from 1elwA/merged-good-all-a2m # found chain 1elwA in training set T0368 4 :LK 1elwA 4 :VN T0368 12 :LALSDAQRQLVAGEYDEAAANCRRAMEISHT 1elwA 6 :ELKEKGNKALSVGNIDDALQCYSEAIKLDPH T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHY 1elwA 37 :NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL T0368 93 :NQDEG 1elwA 68 :KPDWG T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVE 1elwA 73 :KGYSRKAAALEFLNRFEEAKRTYEEGLK T0368 137 :ETPGKERM 1elwA 101 :HEANNPQL T0368 149 :IDRIAQLGA 1elwA 109 :KEGLQNMEA Number of specific fragments extracted= 7 number of extra gaps= 0 total=147 Number of alignments=26 # 1elwA read from 1elwA/merged-good-all-a2m # found chain 1elwA in training set T0368 9 :GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1elwA 3 :QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPH T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1elwA 37 :NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGK T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERM 1elwA 74 :GYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM Number of specific fragments extracted= 3 number of extra gaps= 0 total=150 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qz2A/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/T0368/1qz2A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1qz2A/merged-good-all-a2m.gz for input Trying 1qz2A/merged-good-all-a2m Error: Couldn't open file 1qz2A/merged-good-all-a2m or 1qz2A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w3bA/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/T0368/1w3bA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1w3bA/merged-good-all-a2m.gz for input Trying 1w3bA/merged-good-all-a2m Error: Couldn't open file 1w3bA/merged-good-all-a2m or 1w3bA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2ff4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2ff4A expands to /projects/compbio/data/pdb/2ff4.pdb.gz 2ff4A:# T0368 read from 2ff4A/merged-good-all-a2m # 2ff4A read from 2ff4A/merged-good-all-a2m # adding 2ff4A to template set # found chain 2ff4A in template set T0368 7 :VVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGF 2ff4A 112 :LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFV T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG 2ff4A 170 :KVLAHTAKAEAEIACGRASAVIAELEALTFEHPYRE T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGK 2ff4A 206 :PLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP T0368 142 :ERMMEVA 2ff4A 248 :RALNERI T0368 149 :IDRIAQLGASNQQKKPGYKAWWE 2ff4A 271 :AGTVTVLDQRTMASGQQAVAYLH Number of specific fragments extracted= 5 number of extra gaps= 0 total=155 Number of alignments=28 # 2ff4A read from 2ff4A/merged-good-all-a2m # found chain 2ff4A in template set T0368 7 :VVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAF 2ff4A 112 :LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPF T0368 58 :CHAGLAEALAGLRSFDEALHSADKALHYFNRRG 2ff4A 173 :AHTAKAEAEIACGRASAVIAELEALTFEHPYRE T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGK 2ff4A 206 :PLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP T0368 142 :ERMMEVA 2ff4A 248 :RALNERI T0368 149 :IDRIAQLGASNQQKKPGYKAWWE 2ff4A 271 :AGTVTVLDQRTMASGQQAVAYLH Number of specific fragments extracted= 5 number of extra gaps= 0 total=160 Number of alignments=29 # 2ff4A read from 2ff4A/merged-good-all-a2m # found chain 2ff4A in template set T0368 7 :VVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMP 2ff4A 112 :LGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPV T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 2ff4A 170 :KVLAHTAKAEAEIACGRASAVIAELEALTFEHPYREP T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERK 2ff4A 207 :LWTQLITAYYLSDRQSDALGAYRRVKTTLADDL T0368 136 :GE 2ff4A 245 :PT T0368 154 :QLGASNQQKK 2ff4A 247 :LRALNERILR Number of specific fragments extracted= 5 number of extra gaps= 0 total=165 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hh8A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1hh8A/merged-good-all-a2m # 1hh8A read from 1hh8A/merged-good-all-a2m # found chain 1hh8A in training set T0368 2 :KPLKEVVGAYLA 1hh8A 20 :KDWKGALDAFSA T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISHTM 1hh8A 41 :FNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1hh8A 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 94 :QDEG 1hh8A 110 :KILG T0368 98 :KLWI 1hh8A 117 :KLFA T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVE 1hh8A 123 :VLYNIAFMYAKKEEWKKAEEQLALATS T0368 135 :KGETPGKER 1hh8A 150 :MKSEPRHSK T0368 148 :AIDRIAQLGASNQ 1hh8A 159 :IDKAMECVWKQKL Number of specific fragments extracted= 8 number of extra gaps= 0 total=173 Number of alignments=31 # 1hh8A read from 1hh8A/merged-good-all-a2m # found chain 1hh8A in training set T0368 3 :PLKEVVGAYLA 1hh8A 21 :DWKGALDAFSA T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISHTM 1hh8A 41 :FNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1hh8A 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 95 :DE 1hh8A 110 :KI T0368 98 :KLWIS 1hh8A 116 :FKLFA T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVE 1hh8A 123 :VLYNIAFMYAKKEEWKKAEEQLALATS T0368 135 :KGETPGKERMME 1hh8A 150 :MKSEPRHSKIDK T0368 148 :AIDRIAQLGASN 1hh8A 162 :AMECVWKQKLYE Number of specific fragments extracted= 8 number of extra gaps= 0 total=181 Number of alignments=32 # 1hh8A read from 1hh8A/merged-good-all-a2m # found chain 1hh8A in training set Warning: unaligning (T0368)E6 because first residue in template chain is (1hh8A)S2 T0368 7 :VVGAYLALSDAQRQLVAGEYDEAAANC 1hh8A 3 :LVEAISLWNEGVLAADKKDWKGALDAF T0368 49 :FDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1hh8A 30 :SAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAV T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEER 1hh8A 73 :AYFQRGMLYYQTEKYDLAIKDLKEALIQLRGN T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQKKPG 1hh8A 121 :CEVLYNIAFMYAKKEEWKKAEEQLALATSMK Number of specific fragments extracted= 4 number of extra gaps= 0 total=185 Number of alignments=33 # 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:# T0368 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 Warning: unaligning (T0368)K163 because last residue in template chain is (1ihgA)Y365 T0368 3 :PLKEVVGAYLALSD 1ihgA 215 :DVDKILLISEDLKN T0368 17 :AQRQLVAGEYDEAAANCR 1ihgA 230 :GNTFFKSQNWEMAIKKYT T0368 35 :RAMEISH 1ihgA 251 :RYVEGSR T0368 42 :TMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY 1ihgA 259 :AAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI T0368 93 :NQD 1ihgA 303 :DPS T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVVEM 1ihgA 306 :NTKALYRRAQGWQGLKEYDQALADLKKAQEI T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQK 1ihgA 337 :APEDKAIQAELLKVKQKIKAQKDKEKAA Number of specific fragments extracted= 7 number of extra gaps= 0 total=192 Number of alignments=34 # 1ihgA read from 1ihgA/merged-good-all-a2m # found chain 1ihgA in template set Warning: unaligning (T0368)K163 because last residue in template chain is (1ihgA)Y365 T0368 3 :PLKEVVGAYLALSD 1ihgA 215 :DVDKILLISEDLKN T0368 17 :AQRQLVAGEYDEAAANCR 1ihgA 230 :GNTFFKSQNWEMAIKKYT T0368 35 :RAMEISHT 1ihgA 251 :RYVEGSRA T0368 43 :MPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY 1ihgA 260 :AEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI T0368 93 :NQD 1ihgA 303 :DPS T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVVEM 1ihgA 306 :NTKALYRRAQGWQGLKEYDQALADLKKAQEI T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQK 1ihgA 337 :APEDKAIQAELLKVKQKIKAQKDKEKAA Number of specific fragments extracted= 7 number of extra gaps= 0 total=199 Number of alignments=35 # 1ihgA read from 1ihgA/merged-good-all-a2m # found chain 1ihgA in template set T0368 8 :VGAYLALSDAQRQLVAGEYDEAAANCRRAM 1ihgA 221 :LISEDLKNIGNTFFKSQNWEMAIKKYTKVL T0368 38 :EISHT 1ihgA 258 :AAAED T0368 46 :EEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1ihgA 263 :ADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTK T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMME 1ihgA 309 :ALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ T0368 151 :RIAQLGASNQ 1ihgA 353 :KIKAQKDKEK Number of specific fragments extracted= 5 number of extra gaps= 0 total=204 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wy6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wy6A expands to /projects/compbio/data/pdb/1wy6.pdb.gz 1wy6A:# T0368 read from 1wy6A/merged-good-all-a2m # 1wy6A read from 1wy6A/merged-good-all-a2m # adding 1wy6A to template set # found chain 1wy6A in template set Warning: unaligning (T0368)N87 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wy6A)N122 Warning: unaligning (T0368)G90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wy6A)N122 T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEIS 1wy6A 11 :KLMDAKKFLLDGYIDEGVKIVLEITKSS T0368 44 :PPEE 1wy6A 39 :TKSE T0368 51 :HAGFDAFCHA 1wy6A 43 :YNWFICNLLE T0368 61 :GLAEALAGLRSF 1wy6A 58 :YMFQVLDKIGSY T0368 73 :DEALH 1wy6A 96 :NKALD T0368 78 :SADKALHYF 1wy6A 110 :KLEEIGREI T0368 91 :ELNQ 1wy6A 123 :EVSA T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVE 1wy6A 127 :SILVAIANALRRVGDERDATTLLIEACK T0368 135 :KGE 1wy6A 155 :KGE T0368 142 :ERMMEVAI 1wy6A 158 :KEACNAVN T0368 154 :Q 1wy6A 166 :T Number of specific fragments extracted= 11 number of extra gaps= 0 total=215 Number of alignments=37 # 1wy6A read from 1wy6A/merged-good-all-a2m # found chain 1wy6A in template set Warning: unaligning (T0368)N87 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wy6A)N122 Warning: unaligning (T0368)G90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wy6A)N122 T0368 12 :LALSDAQRQLVAGEYDEAAANCRRAMEIS 1wy6A 10 :RKLMDAKKFLLDGYIDEGVKIVLEITKSS T0368 44 :PPEE 1wy6A 39 :TKSE T0368 51 :HAGFDAFCHA 1wy6A 43 :YNWFICNLLE T0368 61 :GLAEALAGLRSF 1wy6A 58 :YMFQVLDKIGSY T0368 73 :DEALH 1wy6A 96 :NKALD T0368 78 :SADKALHYF 1wy6A 110 :KLEEIGREI T0368 91 :ELNQ 1wy6A 123 :EVSA T0368 102 :SAVYSRALALDGLGRGAEAMPEFKKVVE 1wy6A 127 :SILVAIANALRRVGDERDATTLLIEACK T0368 139 :PGKERMMEVAID 1wy6A 155 :KGEKEACNAVNT Number of specific fragments extracted= 9 number of extra gaps= 0 total=224 Number of alignments=38 # 1wy6A read from 1wy6A/merged-good-all-a2m # found chain 1wy6A in template set Warning: unaligning (T0368)L83 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wy6A)N122 Warning: unaligning (T0368)F86 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wy6A)N122 T0368 12 :LALSDAQRQLVAGEYDEAAANCRRAMEISHTMP 1wy6A 10 :RKLMDAKKFLLDGYIDEGVKIVLEITKSSTKSE T0368 54 :FD 1wy6A 91 :LN T0368 57 :FCHAGLAEALAGLRSFDEALHSADKA 1wy6A 93 :EHVNKALDILVIQGKRDKLEEIGREI T0368 87 :NRRGE 1wy6A 123 :EVSAS T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEM 1wy6A 128 :ILVAIANALRRVGDERDATTLLIEACKK T0368 134 :R 1wy6A 157 :E T0368 152 :IAQLGASN 1wy6A 158 :KEACNAVN Number of specific fragments extracted= 7 number of extra gaps= 0 total=231 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1e96B/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1e96B expands to /projects/compbio/data/pdb/1e96.pdb.gz 1e96B:# T0368 read from 1e96B/merged-good-all-a2m # 1e96B read from 1e96B/merged-good-all-a2m # adding 1e96B to template set # found chain 1e96B in template set T0368 3 :PLKEVVGAY 1e96B 21 :DWKGALDAF T0368 12 :LALSDAQRQLVAGEYDEAAANCRRAMEISHTM 1e96B 39 :ICFNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1e96B 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 94 :QDE 1e96B 111 :ILG T0368 98 :KLW 1e96B 117 :KLF T0368 101 :ISAVYSRALALDGLGRGAEAMPEFKKVVEM 1e96B 121 :CEVLYNIAFMYAKKEEWKKAEEQLALATSM T0368 137 :ETPGKE 1e96B 152 :SEPRHS T0368 147 :VAIDRIAQLGASNQQK 1e96B 158 :KIDKAMECVWKQKLYE Number of specific fragments extracted= 8 number of extra gaps= 0 total=239 Number of alignments=40 # 1e96B read from 1e96B/merged-good-all-a2m # found chain 1e96B in template set T0368 3 :PLKEVVGAYLA 1e96B 21 :DWKGALDAFSA T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISHTM 1e96B 41 :FNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1e96B 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 94 :QDE 1e96B 111 :ILG T0368 98 :KLW 1e96B 117 :KLF T0368 101 :ISAVYSRALALDGLGRGAEAMPEFKKVVEM 1e96B 121 :CEVLYNIAFMYAKKEEWKKAEEQLALATSM T0368 136 :GETPGKERM 1e96B 151 :KSEPRHSKI T0368 149 :IDRIAQLGASNQQK 1e96B 160 :DKAMECVWKQKLYE Number of specific fragments extracted= 8 number of extra gaps= 0 total=247 Number of alignments=41 # 1e96B read from 1e96B/merged-good-all-a2m # found chain 1e96B in template set T0368 7 :VVGAYLALSDAQRQLVAGEYDEAAANCR 1e96B 3 :LVEAISLWNEGVLAADKKDWKGALDAFS T0368 50 :DHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1e96B 31 :AVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAV T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEER 1e96B 73 :AYFQRGMLYYQTEKYDLAIKDLKEALIQLRGN T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQKKPGYKA 1e96B 121 :CEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP Number of specific fragments extracted= 4 number of extra gaps= 0 total=251 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ft1A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ft1A expands to /projects/compbio/data/pdb/1ft1.pdb.gz 1ft1A:# T0368 read from 1ft1A/merged-good-all-a2m # 1ft1A read from 1ft1A/merged-good-all-a2m # adding 1ft1A to template set # found chain 1ft1A in template set T0368 6 :EVVGAYLALSD 1ft1A 235 :SVWNQRHFVIS T0368 22 :VAGEYDEAAANCRRAMEISHT 1ft1A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1ft1A 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSAD 1ft1A 289 :LSRYPNLLNQLL T0368 91 :ELNQDEGKLWISAVY 1ft1A 301 :DLQPSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEER 1ft1A 319 :YEDMLENQCDNKEDILNKALELCEILAKE T0368 136 :GETPGKERMMEVAIDR 1ft1A 348 :KDTIRKEYWRYIGRSL Number of specific fragments extracted= 7 number of extra gaps= 0 total=258 Number of alignments=43 # 1ft1A read from 1ft1A/merged-good-all-a2m # found chain 1ft1A in template set T0368 22 :VAGEYDEAAANCRRAMEISHT 1ft1A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALA 1ft1A 273 :NESAWNYLKGILQ T0368 68 :GLRSFDEALHSAD 1ft1A 288 :GLSRYPNLLNQLL T0368 91 :ELNQDEGKLWISAVY 1ft1A 301 :DLQPSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEE 1ft1A 319 :YEDMLENQCDNKEDILNKALELCEILAK T0368 135 :KGETPGKERMMEVAIDRI 1ft1A 347 :EKDTIRKEYWRYIGRSLQ Number of specific fragments extracted= 6 number of extra gaps= 0 total=264 Number of alignments=44 # 1ft1A read from 1ft1A/merged-good-all-a2m # found chain 1ft1A in template set T0368 7 :VVGAYLALSDAQRQLVAG 1ft1A 93 :SEKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1ft1A 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1ft1A 130 :NYTVWHFRRVLLRSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1ft1A 147 :DLQEEMNYIIAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1ft1A 168 :VWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=269 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1p5qA/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/T0368/1p5qA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1p5qA/merged-good-all-a2m.gz for input Trying 1p5qA/merged-good-all-a2m Error: Couldn't open file 1p5qA/merged-good-all-a2m or 1p5qA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1kt1A/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/T0368/1kt1A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1kt1A/merged-good-all-a2m.gz for input Trying 1kt1A/merged-good-all-a2m Error: Couldn't open file 1kt1A/merged-good-all-a2m or 1kt1A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hz4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1hz4A/merged-good-all-a2m # 1hz4A read from 1hz4A/merged-good-all-a2m # found chain 1hz4A in training set T0368 4 :LKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAME 1hz4A 6 :REDTMHAEFNALRAQVAINDGNPDEAERLAKLALE T0368 42 :TMPPEEAFD 1hz4A 41 :ELPPGWFYS T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1hz4A 50 :RIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWH T0368 99 :LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE 1hz4A 89 :YALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLE T0368 138 :TP 1hz4A 129 :LP T0368 140 :GKERMMEVAIDRIAQLGASNQQK 1hz4A 148 :RLDEAEASARSGIEVLSSYQPQQ Number of specific fragments extracted= 6 number of extra gaps= 0 total=275 Number of alignments=46 # 1hz4A read from 1hz4A/merged-good-all-a2m # found chain 1hz4A in training set T0368 1 :MKPLKEVVG 1hz4A 2 :IKDIREDTM T0368 10 :AYLALSDAQRQLVAGEYDEAAANCRRAME 1hz4A 12 :AEFNALRAQVAINDGNPDEAERLAKLALE T0368 42 :TMPPEEAFD 1hz4A 41 :ELPPGWFYS T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG 1hz4A 50 :RIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHD T0368 96 :EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE 1hz4A 86 :VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLE T0368 140 :GK 1hz4A 128 :QL T0368 142 :ERMMEVAIDRIAQLGASNQQK 1hz4A 150 :DEAEASARSGIEVLSSYQPQQ Number of specific fragments extracted= 7 number of extra gaps= 0 total=282 Number of alignments=47 # 1hz4A read from 1hz4A/merged-good-all-a2m # found chain 1hz4A in training set T0368 2 :KPLKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1hz4A 4 :DIREDTMHAEFNALRAQVAINDGNPDEAERLAKLALEELPP T0368 50 :DHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1hz4A 45 :GWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDV T0368 97 :GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM 1hz4A 87 :WHYALWSLIQQSEILFAQGFLQTAWETQEKAFQL T0368 131 :IEERKGETPGKERMMEVAIDRIAQLGASNQQKK 1hz4A 129 :LPMHEFLVRIRAQLLWAWARLDEAEASARSGIE Number of specific fragments extracted= 4 number of extra gaps= 0 total=286 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1i1iP/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1i1iP expands to /projects/compbio/data/pdb/1i1i.pdb.gz 1i1iP:# T0368 read from 1i1iP/merged-good-all-a2m # 1i1iP read from 1i1iP/merged-good-all-a2m # adding 1i1iP to template set # found chain 1i1iP in template set T0368 20 :QLV 1i1iP 33 :QIK T0368 24 :GEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAG 1i1iP 36 :TRTEQLIAQTKQVYDTVGTIALKEVTYENCLQVLADIEVTYIVER T0368 69 :LRSFDEALHSADKALHYFNR 1i1iP 89 :VSSDREVRAASTEADKKLSR T0368 104 :VYSRALALDGLGRGAE 1i1iP 119 :VFQRIVHLQETCDLEK T0368 120 :AMPEFKKVVEMIEERKGETPG 1i1iP 139 :ARRYLEKSIKMGKRNGLHLSE T0368 143 :RMMEVAIDRIAQLGA 1i1iP 160 :HIRNEIKSMKKRMSE Number of specific fragments extracted= 6 number of extra gaps= 0 total=292 Number of alignments=49 # 1i1iP read from 1i1iP/merged-good-all-a2m # found chain 1i1iP in template set T0368 4 :LKEVVGAY 1i1iP 31 :PEQIKTRT T0368 27 :DEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLR 1i1iP 39 :EQLIAQTKQVYDTVGTIALKEVTYENCLQVLADIEVTYIVERTM T0368 71 :SFDEALHSADKALHYFNR 1i1iP 91 :SDREVRAASTEADKKLSR T0368 102 :SAVYSRALALDGLGRGAEAMPE 1i1iP 117 :EDVFQRIVHLQETCDLEKIKPE T0368 124 :FKKVVEMIEERKGETP 1i1iP 143 :LEKSIKMGKRNGLHLS T0368 142 :ERMMEVAIDRIAQLGA 1i1iP 159 :EHIRNEIKSMKKRMSE Number of specific fragments extracted= 6 number of extra gaps= 0 total=298 Number of alignments=50 # 1i1iP read from 1i1iP/merged-good-all-a2m # found chain 1i1iP in template set T0368 6 :EVVGAYLAL 1i1iP 30 :SPEQIKTRT T0368 18 :QRQ 1i1iP 39 :EQL T0368 30 :AANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLR 1i1iP 42 :IAQTKQVYDTVGTIALKEVTYENCLQVLADIEVTYIVERTM T0368 71 :SFDEALHSADKALHYFNRRGE 1i1iP 91 :SDREVRAASTEADKKLSRFDI T0368 96 :EGKLWISAVYSRALALDG 1i1iP 112 :EMSMREDVFQRIVHLQET T0368 114 :LGR 1i1iP 132 :LEK T0368 117 :GAEAMPEFKKVVEMIEER 1i1iP 136 :KPEARRYLEKSIKMGKRN T0368 138 :TPGKERMMEVAIDRIAQLGASNQQKKP 1i1iP 159 :EHIRNEIKSMKKRMSELCIDFNKNLNE Number of specific fragments extracted= 8 number of extra gaps= 0 total=306 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2avpA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2avpA expands to /projects/compbio/data/pdb/2avp.pdb.gz 2avpA:# T0368 read from 2avpA/merged-good-all-a2m # 2avpA read from 2avpA/merged-good-all-a2m # adding 2avpA to template set # found chain 2avpA in template set T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEISHTM 2avpA 4 :WYNLGNAYYKQGDYDEAIEYYQKALELDPRS T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHY 2avpA 35 :AEAWYNLGNAYYKQGDYDEAIEYYQKALEL Number of specific fragments extracted= 2 number of extra gaps= 0 total=308 Number of alignments=52 # 2avpA read from 2avpA/merged-good-all-a2m # found chain 2avpA in template set T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEISHTM 2avpA 4 :WYNLGNAYYKQGDYDEAIEYYQKALELDPRS T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFN 2avpA 35 :AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP Number of specific fragments extracted= 2 number of extra gaps= 0 total=310 Number of alignments=53 # 2avpA read from 2avpA/merged-good-all-a2m # found chain 2avpA in template set Warning: unaligning (T0368)R89 because last residue in template chain is (2avpA)S68 T0368 11 :YLALSDAQRQLVAGEYDEAAANCRRAMEISHT 2avpA 2 :EAWYNLGNAYYKQGDYDEAIEYYQKALELDPR T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 2avpA 34 :SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR Number of specific fragments extracted= 2 number of extra gaps= 0 total=312 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fchA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fchA expands to /projects/compbio/data/pdb/1fch.pdb.gz 1fchA:# T0368 read from 1fchA/merged-good-all-a2m # 1fchA read from 1fchA/merged-good-all-a2m # adding 1fchA to template set # found chain 1fchA in template set Warning: unaligning (T0368)R134 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1fchA)G559 T0368 4 :LKEVVGAYLALSDAQ 1fchA 431 :FLEVKELFLAAVRLD T0368 24 :GEYDEAAANCRRAMEISHT 1fchA 465 :GEYDKAVDCFTAALSVRPN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1fchA 484 :DYLLWNKLGATLANGNQSEEAVAAYRRALELQPG T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE 1fchA 518 :YIRSRYNLGISCINLGAHREAVEHFLEALNMQRK T0368 142 :ERMMEVAIDRIAQLGASN 1fchA 564 :ENIWSTLRLALSMLGQSD Number of specific fragments extracted= 5 number of extra gaps= 0 total=317 Number of alignments=55 # 1fchA read from 1fchA/merged-good-all-a2m # found chain 1fchA in template set Warning: unaligning (T0368)R134 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1fchA)G559 Warning: unaligning (T0368)K141 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1fchA)G559 T0368 4 :LKEVVGAYLALSDAQ 1fchA 431 :FLEVKELFLAAVRLD T0368 24 :GEYDEAAANCRRAMEISHT 1fchA 465 :GEYDKAVDCFTAALSVRPN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNR 1fchA 484 :DYLLWNKLGATLANGNQSEEAVAAYRRALELQPG T0368 100 :WISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE 1fchA 518 :YIRSRYNLGISCINLGAHREAVEHFLEALNMQRK T0368 142 :ERMMEVAIDRIAQLGASN 1fchA 564 :ENIWSTLRLALSMLGQSD Number of specific fragments extracted= 5 number of extra gaps= 0 total=322 Number of alignments=56 # 1fchA read from 1fchA/merged-good-all-a2m # found chain 1fchA in template set T0368 2 :KPLKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMP 1fchA 358 :CLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYA T0368 49 :FDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1fchA 444 :LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYL T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQK 1fchA 487 :LWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEAL Number of specific fragments extracted= 3 number of extra gaps= 0 total=325 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1na3A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1na3A/merged-good-all-a2m # 1na3A read from 1na3A/merged-good-all-a2m # found chain 1na3A in training set T0368 10 :AYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1na3A 4 :AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHY 1na3A 37 :NAEAWYNLGNAYYKQGDYDEAIEYYQKALEL T0368 93 :NQ 1na3A 68 :DP T0368 116 :RGAEAMPEFKKVVEM 1na3A 70 :NNAEAKQDLGNAKQK Number of specific fragments extracted= 4 number of extra gaps= 0 total=329 Number of alignments=58 # 1na3A read from 1na3A/merged-good-all-a2m # found chain 1na3A in training set T0368 6 :E 1na3A 3 :S T0368 10 :AYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1na3A 4 :AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYF 1na3A 37 :NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD T0368 115 :GRGAEAMPEFKKVVEM 1na3A 69 :PNNAEAKQDLGNAKQK Number of specific fragments extracted= 4 number of extra gaps= 0 total=333 Number of alignments=59 # 1na3A read from 1na3A/merged-good-all-a2m # found chain 1na3A in training set T0368 8 :VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1na3A 2 :NSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1na3A 37 :NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE T0368 120 :AMPEFKKVVE 1na3A 74 :AKQDLGNAKQ Number of specific fragments extracted= 3 number of extra gaps= 0 total=336 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fbnA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fbnA expands to /projects/compbio/data/pdb/2fbn.pdb.gz 2fbnA:# T0368 read from 2fbnA/merged-good-all-a2m # 2fbnA read from 2fbnA/merged-good-all-a2m # adding 2fbnA to template set # found chain 2fbnA in template set Warning: unaligning (T0368)A157 because last residue in template chain is (2fbnA)K174 T0368 4 :LKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEI 2fbnA 32 :EEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF T0368 40 :SHTMPPEEAFD 2fbnA 71 :TEEWDDQILLD T0368 51 :HAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR 2fbnA 83 :KKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNN T0368 101 :ISAVYSRALALDGLGRGAEAMPEFKKVVEM 2fbnA 122 :VKALYKLGVANMYFGFLEEAKENLYKAASL T0368 135 :KGETPGKERMMEVAIDRIAQLG 2fbnA 152 :NPNNLDIRNSYELCVNKLKEAR Number of specific fragments extracted= 5 number of extra gaps= 0 total=341 Number of alignments=61 # 2fbnA read from 2fbnA/merged-good-all-a2m # found chain 2fbnA in template set Warning: unaligning (T0368)A157 because last residue in template chain is (2fbnA)K174 T0368 5 :KEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEI 2fbnA 33 :EKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF T0368 40 :SHTMPPEEAFD 2fbnA 71 :TEEWDDQILLD T0368 51 :HAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR 2fbnA 83 :KKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNN T0368 101 :ISAVYSRALALDGLGRGAEAMPEFKKVVEM 2fbnA 122 :VKALYKLGVANMYFGFLEEAKENLYKAASL T0368 135 :KGETPGKERMMEVAIDRIAQLG 2fbnA 152 :NPNNLDIRNSYELCVNKLKEAR Number of specific fragments extracted= 5 number of extra gaps= 0 total=346 Number of alignments=62 # 2fbnA read from 2fbnA/merged-good-all-a2m # found chain 2fbnA in template set T0368 3 :PLKEVVGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMP 2fbnA 31 :DEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTE T0368 45 :PEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 2fbnA 77 :QILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVK T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRI 2fbnA 124 :ALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEAR Number of specific fragments extracted= 3 number of extra gaps= 0 total=349 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bugA/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/T0368/2bugA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/2bugA/merged-good-all-a2m.gz for input Trying 2bugA/merged-good-all-a2m Error: Couldn't open file 2bugA/merged-good-all-a2m or 2bugA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jcrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1jcrA expands to /projects/compbio/data/pdb/1jcr.pdb.gz 1jcrA:# T0368 read from 1jcrA/merged-good-all-a2m # 1jcrA read from 1jcrA/merged-good-all-a2m # adding 1jcrA to template set # found chain 1jcrA in template set T0368 5 :KEVVGAYLALSDA 1jcrA 131 :YTVWHFRRVLLRS T0368 21 :L 1jcrA 144 :L T0368 23 :AGEYDEAAANCRRAMEISHT 1jcrA 145 :QKDLQEEMNYIIAIIEEQPK T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR 1jcrA 165 :NYQVWHHRRVLVEWLKDPSQELEFIADILNQDAKN T0368 103 :AVYS 1jcrA 201 :HAWQ T0368 107 :RALALDGLGRGAEAMPEFKKVVE 1jcrA 206 :RQWVIQEFRLWDNELQYVDQLLK T0368 130 :MIEERKGETPGKERMMEVAIDRIAQLGAS 1jcrA 242 :FVISNTTGYSDRAVLEREVQYTLEMIKLV Number of specific fragments extracted= 7 number of extra gaps= 0 total=356 Number of alignments=64 # 1jcrA read from 1jcrA/merged-good-all-a2m # found chain 1jcrA in template set T0368 2 :KPLKEVVGAYLALSDAQ 1jcrA 146 :KDLQEEMNYIIAIIEEQ T0368 24 :GEYDEAAANCRRAMEISHTMPPEE 1jcrA 163 :PKNYQVWHHRRVLVEWLKDPSQEL T0368 48 :AFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYF 1jcrA 192 :ILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKED T0368 95 :DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE 1jcrA 231 :VRNNSVWNQRHFVISNTTGYSDRAVLEREVQYTLEMIK T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQ 1jcrA 324 :ENQCDNKEDILNKALELCEILAKEKD Number of specific fragments extracted= 5 number of extra gaps= 0 total=361 Number of alignments=65 # 1jcrA read from 1jcrA/merged-good-all-a2m # found chain 1jcrA in template set T0368 8 :VGAYLALSDAQRQLVAG 1jcrA 94 :EKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1jcrA 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1jcrA 130 :NYTVWHFRRVLLRSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1jcrA 147 :DLQEEMNYIIAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1jcrA 168 :VWHHRRVLVEWLKDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFRLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=366 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zbpA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zbpA expands to /projects/compbio/data/pdb/1zbp.pdb.gz 1zbpA: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 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 # T0368 read from 1zbpA/merged-good-all-a2m # 1zbpA read from 1zbpA/merged-good-all-a2m # adding 1zbpA to template set # found chain 1zbpA in template set T0368 17 :AQRQLVAGEYDEAAANCRRAMEISHT 1zbpA 4 :WKNALSEGQLQQALELLIEAIKASPK T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR 1zbpA 30 :DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEY T0368 101 :ISAVYSRALALDG 1zbpA 71 :LRHLVKAAQARKD T0368 114 :LGRGAEAMPEFKKVVEMIEE 1zbpA 94 :LGENEELTKSLVSFNLSMVS T0368 139 :PGKERMMEVAIDRIAQLGAS 1zbpA 114 :QDYEQVSELALQIEELRQEK Number of specific fragments extracted= 5 number of extra gaps= 0 total=371 Number of alignments=67 # 1zbpA read from 1zbpA/merged-good-all-a2m # found chain 1zbpA in template set T0368 18 :QRQLVAGEYDEAAANCRRAMEISHT 1zbpA 5 :KNALSEGQLQQALELLIEAIKASPK T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR 1zbpA 30 :DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEY T0368 96 :EG 1zbpA 67 :GA T0368 99 :LWISAVYSRALALDG 1zbpA 69 :SQLRHLVKAAQARKD T0368 114 :LGRGAEAMPEFKKVVEMIEE 1zbpA 94 :LGENEELTKSLVSFNLSMVS T0368 139 :PGKERMMEVAIDRIAQLGA 1zbpA 114 :QDYEQVSELALQIEELRQE Number of specific fragments extracted= 6 number of extra gaps= 0 total=377 Number of alignments=68 # 1zbpA read from 1zbpA/merged-good-all-a2m # found chain 1zbpA in template set T0368 19 :RQLVAGEYDEAAANCRRAMEISHT 1zbpA 6 :NALSEGQLQQALELLIEAIKASPK T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1zbpA 30 :DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLP T0368 97 :GKLWISAVYSRALALDGL 1zbpA 67 :GASQLRHLVKAAQARKDF T0368 131 :IEERKGETPGKERMMEVA 1zbpA 94 :LGENEELTKSLVSFNLSM T0368 149 :IDRIAQLGASNQQKKP 1zbpA 114 :QDYEQVSELALQIEEL Number of specific fragments extracted= 5 number of extra gaps= 0 total=382 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wm5A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wm5A expands to /projects/compbio/data/pdb/1wm5.pdb.gz 1wm5A:# T0368 read from 1wm5A/merged-good-all-a2m # 1wm5A read from 1wm5A/merged-good-all-a2m # adding 1wm5A to template set # found chain 1wm5A in template set T0368 2 :KPLKEVVGAY 1wm5A 20 :KDWKGALDAF T0368 12 :LALSDAQRQLVAGEYDEAAANCRRAMEISHTM 1wm5A 39 :ICFNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1wm5A 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 94 :QDEG 1wm5A 110 :KILG T0368 98 :KLWI 1wm5A 117 :KLFA T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEM 1wm5A 123 :VLYNIAFMYAKKEEWKKAEEQLALATSM T0368 136 :GETPGKERMMEVAI 1wm5A 154 :PRHSKIDKAMECVW Number of specific fragments extracted= 7 number of extra gaps= 0 total=389 Number of alignments=70 # 1wm5A read from 1wm5A/merged-good-all-a2m # found chain 1wm5A in template set T0368 3 :PLKEVVGAYLA 1wm5A 21 :DWKGALDAFSA T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISHTM 1wm5A 41 :FNIGCMYTILKNMTEAEKAFTRSINRDKHL T0368 56 :AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1wm5A 71 :AVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLID T0368 95 :DE 1wm5A 110 :KI T0368 98 :KLWIS 1wm5A 116 :FKLFA T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEM 1wm5A 123 :VLYNIAFMYAKKEEWKKAEEQLALATSM T0368 136 :GETPGKERMM 1wm5A 151 :KSEPRHSKID T0368 147 :VAIDRIAQLGASNQQ 1wm5A 161 :KAMECVWKQKLYEPV Number of specific fragments extracted= 8 number of extra gaps= 0 total=397 Number of alignments=71 # 1wm5A read from 1wm5A/merged-good-all-a2m # found chain 1wm5A in template set T0368 6 :EVVGAYLALSDAQRQLVAGEYDEAAANCRR 1wm5A 2 :SLVEAISLWNEGVLAADKKDWKGALDAFSA T0368 51 :HAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1wm5A 32 :VQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAV T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEER 1wm5A 73 :AYFQRGMLYYQTEKYDLAIKDLKEALIQLRGN T0368 135 :KGETPGKERMMEVAIDRIAQLGASNQQKKPGYKAWWEF 1wm5A 121 :CEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSK Number of specific fragments extracted= 4 number of extra gaps= 0 total=401 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1elrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1elrA expands to /projects/compbio/data/pdb/1elr.pdb.gz 1elrA:# T0368 read from 1elrA/merged-good-all-a2m # 1elrA read from 1elrA/merged-good-all-a2m # adding 1elrA to template set # found chain 1elrA in template set Warning: unaligning (T0368)S158 because last residue in template chain is (1elrA)Q349 T0368 9 :GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1elrA 224 :QALKEKELGNDAYKKKDFDTALKHYDKAKELDPT T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL 1elrA 258 :NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENRED T0368 97 :GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM 1elrA 296 :YRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE T0368 139 :PGKERMMEVAIDRIAQLGA 1elrA 330 :HRTPDVLKKCQQAEKILKE Number of specific fragments extracted= 4 number of extra gaps= 0 total=405 Number of alignments=73 # 1elrA read from 1elrA/merged-good-all-a2m # found chain 1elrA in template set Warning: unaligning (T0368)S158 because last residue in template chain is (1elrA)Q349 T0368 9 :GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1elrA 224 :QALKEKELGNDAYKKKDFDTALKHYDKAKELDPT T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN 1elrA 258 :NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDY T0368 98 :KLWISAVYSRALALDGLGRGAEAMPEFKKVVEM 1elrA 297 :RQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE T0368 139 :PGKERMMEVAIDRIAQLGA 1elrA 330 :HRTPDVLKKCQQAEKILKE Number of specific fragments extracted= 4 number of extra gaps= 0 total=409 Number of alignments=74 # 1elrA read from 1elrA/merged-good-all-a2m # found chain 1elrA in template set T0368 9 :GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHT 1elrA 224 :QALKEKELGNDAYKKKDFDTALKHYDKAKELDPT T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE 1elrA 258 :NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENRE T0368 96 :EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM 1elrA 295 :DYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE T0368 149 :IDRIAQLGASNQQKKP 1elrA 330 :HRTPDVLKKCQQAEKI Number of specific fragments extracted= 4 number of extra gaps= 0 total=413 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hxiA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1hxiA/merged-good-all-a2m # 1hxiA read from 1hxiA/merged-good-all-a2m # found chain 1hxiA in training set Warning: unaligning (T0368)A157 because last residue in template chain is (1hxiA)L445 T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISHT 1hxiA 353 :MEEGLSMLKLANLAEAALAFEAVCQKEPE T0368 55 :DAFCHAGLAEALAGLRSFDEALHSADKALHY 1hxiA 382 :REEAWRSLGLTQAENEKDGLAIIALNHARML T0368 93 :NQD 1hxiA 413 :DPK T0368 117 :GAEAMPEFKKVVEMIE 1hxiA 416 :DIAVHAALAVSHTNEH T0368 144 :MMEVAIDRIAQLG 1hxiA 432 :NANAALASLRAWL Number of specific fragments extracted= 5 number of extra gaps= 0 total=418 Number of alignments=76 # 1hxiA read from 1hxiA/merged-good-all-a2m # found chain 1hxiA in training set T0368 14 :LSDAQRQLVAGEYDEAAANCRRAMEISH 1hxiA 353 :MEEGLSMLKLANLAEAALAFEAVCQKEP T0368 54 :FDAFCHAGLAEALAGLRSFDEALHSADKALHYFN 1hxiA 381 :EREEAWRSLGLTQAENEKDGLAIIALNHARMLDP T0368 116 :RGAEAMPEFKKVVEMIEE 1hxiA 415 :KDIAVHAALAVSHTNEHN T0368 144 :MMEVAIDRIAQL 1hxiA 433 :ANAALASLRAWL Number of specific fragments extracted= 4 number of extra gaps= 0 total=422 Number of alignments=77 # 1hxiA read from 1hxiA/merged-good-all-a2m # found chain 1hxiA in training set Warning: unaligning (T0368)K163 because last residue in template chain is (1hxiA)L445 T0368 13 :ALSDAQRQLVAGEYDEAAANCRRAMEISHT 1hxiA 352 :PMEEGLSMLKLANLAEAALAFEAVCQKEPE T0368 55 :DAFCHAGLAEALAGLRSFDEALHS 1hxiA 382 :REEAWRSLGLTQAENEKDGLAIIA T0368 124 :FKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQK 1hxiA 406 :LNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWL Number of specific fragments extracted= 3 number of extra gaps= 0 total=425 Number of alignments=78 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ld8A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ld8A expands to /projects/compbio/data/pdb/1ld8.pdb.gz 1ld8A:# T0368 read from 1ld8A/merged-good-all-a2m # 1ld8A read from 1ld8A/merged-good-all-a2m # adding 1ld8A to template set # found chain 1ld8A in template set Warning: unaligning (T0368)L155 because last residue in template chain is (1ld8A)H367 T0368 5 :KEVVGAYLALSDA 1ld8A 234 :NSVWNQRYFVISN T0368 22 :VAGEYDEAAANCRRAMEISHT 1ld8A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1ld8A 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKAL 1ld8A 289 :LSKYPNLLNQLLDLQ T0368 84 :HY 1ld8A 309 :PY T0368 100 :WISAVY 1ld8A 311 :LIAFLV T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEERK 1ld8A 319 :YEDMLENQCDNKEDILNKALELCEILAKEK T0368 137 :ETPGKERMMEVAIDRIAQ 1ld8A 349 :DTIRKEYWRYIGRSLQSK Number of specific fragments extracted= 8 number of extra gaps= 0 total=433 Number of alignments=79 # 1ld8A read from 1ld8A/merged-good-all-a2m # found chain 1ld8A in template set Warning: unaligning (T0368)L155 because last residue in template chain is (1ld8A)H367 T0368 6 :EVVGAYLALSDAQRQ 1ld8A 235 :SVWNQRYFVISNTTG T0368 22 :VAGEYDEAAANCRRAMEISHT 1ld8A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1ld8A 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKAL 1ld8A 289 :LSKYPNLLNQLLDLQ T0368 94 :QDEGKLWISAVY 1ld8A 304 :PSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEER 1ld8A 319 :YEDMLENQCDNKEDILNKALELCEILAKE T0368 136 :GETPGKERMMEVAIDRIAQ 1ld8A 348 :KDTIRKEYWRYIGRSLQSK Number of specific fragments extracted= 7 number of extra gaps= 0 total=440 Number of alignments=80 # 1ld8A read from 1ld8A/merged-good-all-a2m # found chain 1ld8A in template set T0368 8 :VGAYLALSDAQRQLVAG 1ld8A 94 :DKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1ld8A 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1ld8A 130 :NYTVWHFRRVLLKSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1ld8A 147 :DLHEEMNYITAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1ld8A 168 :VWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=445 Number of alignments=81 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2gw1A/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/T0368/2gw1A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/2gw1A/merged-good-all-a2m.gz for input Trying 2gw1A/merged-good-all-a2m Error: Couldn't open file 2gw1A/merged-good-all-a2m or 2gw1A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1kt0A/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/T0368/1kt0A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0368/1kt0A/merged-good-all-a2m.gz for input Trying 1kt0A/merged-good-all-a2m Error: Couldn't open file 1kt0A/merged-good-all-a2m or 1kt0A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1tn6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0368 read from 1tn6A/merged-good-all-a2m # 1tn6A read from 1tn6A/merged-good-all-a2m # found chain 1tn6A in training set Warning: unaligning (T0368)A157 because last residue in template chain is (1tn6A)T369 T0368 5 :KEVVGAYLALSDAQR 1tn6A 234 :NSVWNQRYFVISNTT T0368 22 :VAGEYDEAAANCRRAMEISHT 1tn6A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALAG 1tn6A 273 :NESAWNYLKGILQD T0368 69 :LRSFDEALHSADKA 1tn6A 289 :LSKYPNLLNQLLDL T0368 93 :NQDEGKLWISAVY 1tn6A 303 :QPSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEERK 1tn6A 319 :YEDMLENQCDNKEDILNKALELCEILAKEK T0368 137 :ETPGKERMMEVAIDRIAQLG 1tn6A 349 :DTIRKEYWRYIGRSLQSKHS Number of specific fragments extracted= 7 number of extra gaps= 0 total=452 Number of alignments=82 # 1tn6A read from 1tn6A/merged-good-all-a2m # found chain 1tn6A in training set Warning: unaligning (T0368)A157 because last residue in template chain is (1tn6A)T369 T0368 6 :EVVGAYLALSDAQRQL 1tn6A 235 :SVWNQRYFVISNTTGY T0368 22 :VAGEYDEAAANCRRAMEISHT 1tn6A 252 :DRAVLEREVQYTLEMIKLVPH T0368 55 :DAFCHAGLAEALA 1tn6A 273 :NESAWNYLKGILQ T0368 68 :GLRSFDEALHSADKA 1tn6A 288 :GLSKYPNLLNQLLDL T0368 86 :F 1tn6A 303 :Q T0368 94 :QDEGKLWISAVY 1tn6A 304 :PSHSSPYLIAFL T0368 106 :SRALALDGLGRGAEAMPEFKKVVEMIEER 1tn6A 319 :YEDMLENQCDNKEDILNKALELCEILAKE T0368 136 :GETPGKERMMEVAIDRIAQLG 1tn6A 348 :KDTIRKEYWRYIGRSLQSKHS Number of specific fragments extracted= 8 number of extra gaps= 0 total=460 Number of alignments=83 # 1tn6A read from 1tn6A/merged-good-all-a2m # found chain 1tn6A in training set T0368 8 :VGAYLALSDAQRQLVAG 1tn6A 94 :DKFRDVYDYFRAVLQRD T0368 25 :EYDEAAANCRRAMEISHT 1tn6A 112 :RSERAFKLTRDAIELNAA T0368 55 :DAFCHAGLAEALAGLR 1tn6A 130 :NYTVWHFRRVLLKSLQ T0368 71 :SFDEALHSADKALHYFNRRGE 1tn6A 147 :DLHEEMNYITAIIEEQPKNYQ T0368 103 :AVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAIDRIAQLGASNQQKKPGYK 1tn6A 168 :VWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR Number of specific fragments extracted= 5 number of extra gaps= 0 total=465 Number of alignments=84 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0368//projects/compbio/experiments/protein-predict/casp7/T0368/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0368//projects/compbio/experiments/protein-predict/casp7/T0368/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0368/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0368/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((T0368)L66.CB, (T0368)A75.CB) [> 2.8552 = 4.7586 < 6.1863] w=1.0000 to align # Constraint # added constraint: constraint((T0368)C33.CB, (T0368)G61.CA) [> 3.6512 = 6.0853 < 7.9109] w=0.9364 to align # Constraint # added constraint: constraint((T0368)A29.CB, (T0368)A65.CB) [> 3.2858 = 5.4764 < 7.1193] w=0.9342 to align # Constraint # added constraint: constraint((T0368)C33.CB, (T0368)C58.CB) [> 3.2536 = 5.4227 < 7.0495] w=0.9230 to align # Constraint # added constraint: constraint((T0368)Y26.CB, (T0368)A65.CB) [> 3.4649 = 5.7748 < 7.5073] w=0.9210 to align # Constraint # added constraint: constraint((T0368)C33.CB, (T0368)L62.CB) [> 2.6749 = 4.4581 < 5.7956] w=0.9098 to align # Constraint # added constraint: constraint((T0368)M37.CB, (T0368)C58.CB) [> 3.0448 = 5.0747 < 6.5971] w=0.8829 to align # Constraint # added constraint: constraint((T0368)A36.CB, (T0368)C58.CB) [> 2.9066 = 4.8444 < 6.2977] w=0.8694 to align # Constraint # added constraint: constraint((T0368)R34.CB, (T0368)L62.CB) [> 4.1990 = 6.9983 < 9.0978] w=0.8571 to align # Constraint # added constraint: constraint((T0368)Q20.CB, (T0368)A29.CB) [> 2.4120 = 4.0199 < 5.2259] w=0.8521 to align # Constraint # added constraint: constraint((T0368)A17.CB, (T0368)C33.CB) [> 2.7882 = 4.6469 < 6.0410] w=0.8152 to align # Constraint # added constraint: constraint((T0368)A17.CB, (T0368)N32.CB) [> 2.2529 = 3.7548 < 4.8812] w=0.8152 to align # Constraint # added constraint: constraint((T0368)M37.CB, (T0368)L62.CB) [> 4.1262 = 6.8770 < 8.9401] w=0.8125 to align # Constraint # added constraint: constraint((T0368)D16.CB, (T0368)N32.CB) [> 2.9249 = 4.8749 < 6.3373] w=0.7766 to align # Constraint # added constraint: constraint((T0368)Q18.CB, (T0368)A29.CB) [> 4.4253 = 7.3754 < 9.5881] w=0.7758 to align # Constraint # added constraint: constraint((T0368)A17.CB, (T0368)A29.CB) [> 2.7946 = 4.6576 < 6.0549] w=0.7374 to align # Constraint # added constraint: constraint((T0368)A17.CB, (T0368)A36.CB) [> 3.8513 = 6.4188 < 8.3444] w=0.7367 to align # Constraint # added constraint: constraint((T0368)A30.CB, (T0368)L66.CB) [> 4.1698 = 6.9496 < 9.0345] w=0.7363 to align # Constraint # added constraint: constraint((T0368)A63.CB, (T0368)A75.CB) [> 2.9994 = 4.9989 < 6.4986] w=0.7287 to align # Constraint # added constraint: constraint((T0368)Y26.CB, (T0368)L69.CB) [> 3.1864 = 5.3106 < 6.9038] w=0.7279 to align # Constraint # added constraint: constraint((T0368)L111.CB, (T0368)A120.CB) [> 2.5965 = 4.3275 < 5.6257] w=0.7273 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)A36.CB) [> 2.9192 = 4.8654 < 6.3250] w=0.7249 to align # Constraint # added constraint: constraint((T0368)A17.CB, (T0368)A30.CB) [> 4.5885 = 7.6475 < 9.9418] w=0.7240 to align # Constraint # added constraint: constraint((T0368)A79.CB, (T0368)A103.CB) [> 3.3628 = 5.6046 < 7.2860] w=0.7167 to align # Constraint # added constraint: constraint((T0368)A79.CB, (T0368)R107.CB) [> 2.7227 = 4.5379 < 5.8993] w=0.7148 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)A82.CB) [> 2.5715 = 4.2859 < 5.5717] w=0.7034 to align # Constraint # added constraint: constraint((T0368)L76.CB, (T0368)R107.CB) [> 3.8176 = 6.3627 < 8.2715] w=0.7025 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)C33.CB) [> 4.1436 = 6.9061 < 8.9779] w=0.6989 to align # Constraint # added constraint: constraint((T0368)M37.CB, (T0368)D55.CB) [> 4.0617 = 6.7695 < 8.8003] w=0.6959 to align # Constraint # added constraint: constraint((T0368)A63.CB, (T0368)S78.CB) [> 2.3406 = 3.9010 < 5.0713] w=0.6900 to align # Constraint # added constraint: constraint((T0368)L83.CB, (T0368)V104.CB) [> 3.9344 = 6.5573 < 8.5244] w=0.6783 to align # Constraint # added constraint: constraint((T0368)A63.CB, (T0368)A79.CB) [> 2.7694 = 4.6157 < 6.0004] w=0.6769 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)S78.CB) [> 3.1642 = 5.2737 < 6.8559] w=0.6764 to align # Constraint # added constraint: constraint((T0368)F72.CB, (T0368)A110.CB) [> 3.1450 = 5.2417 < 6.8143] w=0.6656 to align # Constraint # added constraint: constraint((T0368)A79.CB, (T0368)S106.CB) [> 3.1849 = 5.3082 < 6.9007] w=0.6649 to align # Constraint # added constraint: constraint((T0368)F72.CB, (T0368)L114.CB) [> 3.0036 = 5.0060 < 6.5078] w=0.6645 to align # Constraint # added constraint: constraint((T0368)L76.CB, (T0368)A110.CB) [> 3.1112 = 5.1853 < 6.7409] w=0.6635 to align # Constraint # added constraint: constraint((T0368)A79.CB, (T0368)A110.CB) [> 3.9624 = 6.6039 < 8.5851] w=0.6635 to align # Constraint # added constraint: constraint((T0368)L83.CB, (T0368)A103.CB) [> 2.9069 = 4.8448 < 6.2983] w=0.6524 to align # Constraint # added constraint: constraint((T0368)A75.CB, (T0368)A110.CB) [> 3.0424 = 5.0707 < 6.5919] w=0.6513 to align # Constraint # added constraint: constraint((T0368)L21.CB, (T0368)A65.CB) [> 3.7541 = 6.2568 < 8.1338] w=0.6470 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)D55.CB) [> 2.8318 = 4.7197 < 6.1356] w=0.6421 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)A82.CB) [> 2.8381 = 4.7302 < 6.1492] w=0.6368 to align # Constraint # added constraint: constraint((T0368)Y26.CB, (T0368)G68.CA) [> 3.7963 = 6.3272 < 8.2254] w=0.6362 to align # Constraint # added constraint: constraint((T0368)V104.CB, (T0368)E123.CB) [> 3.1993 = 5.3322 < 6.9318] w=0.6358 to align # Constraint # added constraint: constraint((T0368)Y105.CB, (T0368)V127.CB) [> 3.1705 = 5.2842 < 6.8694] w=0.6347 to align # Constraint # added constraint: constraint((T0368)A13.CB, (T0368)R35.CB) [> 2.9917 = 4.9862 < 6.4820] w=0.6301 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)A82.CB) [> 3.0948 = 5.1580 < 6.7055] w=0.6233 to align # Constraint # added constraint: constraint((T0368)L109.CB, (T0368)A120.CB) [> 4.2959 = 7.1598 < 9.3078] w=0.6220 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)S78.CB) [> 4.4479 = 7.4132 < 9.6372] w=0.6144 to align # Constraint # added constraint: constraint((T0368)D80.CB, (T0368)R107.CB) [> 4.1562 = 6.9271 < 9.0052] w=0.6127 to align # Constraint # added constraint: constraint((T0368)A108.CB, (T0368)F124.CB) [> 2.8277 = 4.7129 < 6.1267] w=0.6109 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)Y85.CB) [> 2.7384 = 4.5640 < 5.9331] w=0.6095 to align # Constraint # added constraint: constraint((T0368)A13.CB, (T0368)A36.CB) [> 2.6142 = 4.3570 < 5.6642] w=0.6051 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)C58.CB) [> 3.9330 = 6.5550 < 8.5215] w=0.6045 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)Y85.CB) [> 4.0900 = 6.8166 < 8.8616] w=0.5960 to align # Constraint # added constraint: constraint((T0368)L111.CB, (T0368)E123.CB) [> 3.8564 = 6.4274 < 8.3556] w=0.5848 to align # Constraint # added constraint: constraint((T0368)L83.CB, (T0368)R107.CB) [> 4.0581 = 6.7636 < 8.7926] w=0.5832 to align # Constraint # added constraint: constraint((T0368)D27.CB, (T0368)L69.CB) [> 4.1923 = 6.9872 < 9.0834] w=0.5668 to align # Constraint # added constraint: constraint((T0368)H41.CB, (T0368)D55.CB) [> 4.2320 = 7.0533 < 9.1692] w=0.5621 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)A79.CB) [> 4.1826 = 6.9710 < 9.0623] w=0.5611 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)C58.CB) [> 3.4132 = 5.6887 < 7.3953] w=0.5608 to align # Constraint # added constraint: constraint((T0368)F72.CB, (T0368)G113.CA) [> 3.5909 = 5.9849 < 7.7804] w=0.5590 to align # Constraint # added constraint: constraint((T0368)V104.CB, (T0368)F124.CB) [> 4.3997 = 7.3328 < 9.5326] w=0.5564 to align # Constraint # added constraint: constraint((T0368)A36.CB, (T0368)D55.CB) [> 4.2270 = 7.0449 < 9.1584] w=0.5491 to align # Constraint # added constraint: constraint((T0368)F86.CB, (T0368)A103.CB) [> 4.0601 = 6.7668 < 8.7969] w=0.5434 to align # Constraint # added constraint: constraint((T0368)T42.CB, (T0368)A56.CB) [> 4.4875 = 7.4793 < 9.7230] w=0.5408 to align # Constraint # added constraint: constraint((T0368)E64.CB, (T0368)A75.CB) [> 4.4751 = 7.4585 < 9.6960] w=0.5342 to align # Constraint # added constraint: constraint((T0368)V104.CB, (T0368)K126.CB) [> 3.2155 = 5.3591 < 6.9668] w=0.5315 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)F86.CB) [> 2.9232 = 4.8719 < 6.3335] w=0.5301 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)M144.CB) [> 3.7407 = 6.2344 < 8.1048] w=0.5297 to align # Constraint # added constraint: constraint((T0368)Y105.CB, (T0368)F124.CB) [> 4.1824 = 6.9706 < 9.0618] w=0.5166 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)F57.CB) [> 4.0619 = 6.7698 < 8.8008] w=0.5071 to align # Constraint # added constraint: constraint((T0368)A108.CB, (T0368)V127.CB) [> 4.0388 = 6.7314 < 8.7508] w=0.5065 to align # Constraint # added constraint: constraint((T0368)A108.CB, (T0368)M121.CB) [> 4.5697 = 7.6161 < 9.9009] w=0.5039 to align # Constraint # added constraint: constraint((T0368)L21.CB, (T0368)G61.CA) [> 4.3582 = 7.2636 < 9.4427] w=0.5026 to align # Constraint # added constraint: constraint((T0368)A63.CB, (T0368)L76.CB) [> 4.5868 = 7.6446 < 9.9380] w=0.4941 to align # Constraint # added constraint: constraint((T0368)L76.CB, (T0368)L111.CB) [> 4.1667 = 6.9445 < 9.0278] w=0.4798 to align # Constraint # added constraint: constraint((T0368)D73.CB, (T0368)L114.CB) [> 4.1802 = 6.9670 < 9.0571] w=0.4790 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)A36.CB) [> 3.0029 = 5.0049 < 6.5064] w=0.4243 to align # Constraint # added constraint: constraint((T0368)V128.CB, (T0368)K141.CB) [> 3.8728 = 6.4546 < 8.3910] w=0.4105 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)A36.CB) [> 4.2098 = 7.0164 < 9.1213] w=0.3839 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)A148.CB) [> 3.7223 = 6.2038 < 8.0650] w=0.3809 to align # Constraint # added constraint: constraint((T0368)L21.CB, (T0368)E64.CB) [> 4.2227 = 7.0379 < 9.1493] w=0.3746 to align # Constraint # added constraint: constraint((T0368)A67.CB, (T0368)L109.CB) [> 3.8597 = 6.4329 < 8.3628] w=0.3737 to align # Constraint # added constraint: constraint((T0368)V104.CB, (T0368)M130.CB) [> 4.2056 = 7.0094 < 9.1122] w=0.3732 to align # Constraint # added constraint: constraint((T0368)L76.CB, (T0368)L114.CB) [> 4.1631 = 6.9385 < 9.0201] w=0.3719 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)A103.CB) [> 4.3693 = 7.2822 < 9.4669] w=0.3709 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)S40.CB) [> 3.2316 = 5.3860 < 7.0018] w=0.3585 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)K141.CB) [> 3.0320 = 5.0533 < 6.5693] w=0.3581 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)I152.CB) [> 4.0482 = 6.7470 < 8.7710] w=0.3434 to align # Constraint # added constraint: constraint((T0368)F57.CB, (T0368)A82.CB) [> 4.5392 = 7.5654 < 9.8350] w=0.3343 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)R89.CB) [> 4.0039 = 6.6732 < 8.6751] w=0.3297 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)L83.CB) [> 4.6598 = 7.7663 < 10.0961] w=0.3210 to align # Constraint # added constraint: constraint((T0368)I101.CB, (T0368)V127.CB) [> 3.1987 = 5.3312 < 6.9306] w=0.3187 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)M145.CB) [> 4.2927 = 7.1544 < 9.3008] w=0.3183 to align # Constraint # added constraint: constraint((T0368)V128.CB, (T0368)M145.CB) [> 3.8922 = 6.4870 < 8.4331] w=0.3141 to align # Constraint # added constraint: constraint((T0368)A108.CB, (T0368)M144.CB) [> 4.2453 = 7.0755 < 9.1981] w=0.2920 to align # Constraint # added constraint: constraint((T0368)I101.CB, (T0368)M130.CB) [> 3.1409 = 5.2348 < 6.8053] w=0.2919 to align # Constraint # added constraint: constraint((T0368)R89.CB, (T0368)V104.CB) [> 4.1765 = 6.9609 < 9.0491] w=0.2768 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)R151.CB) [> 3.4697 = 5.7828 < 7.5176] w=0.2732 to align # Constraint # added constraint: constraint((T0368)F72.CB, (T0368)L111.CB) [> 4.4120 = 7.3533 < 9.5593] w=0.2673 to align # Constraint # added constraint: constraint((T0368)G61.CA, (T0368)A82.CB) [> 4.7000 = 7.8334 < 10.1834] w=0.2669 to align # Constraint # added constraint: constraint((T0368)Y105.CB, (T0368)M144.CB) [> 3.6935 = 6.1558 < 8.0025] w=0.2652 to align # Constraint # added constraint: constraint((T0368)V128.CB, (T0368)M144.CB) [> 3.1180 = 5.1967 < 6.7557] w=0.2606 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)S102.CB) [> 3.5459 = 5.9098 < 7.6827] w=0.2542 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)A103.CB) [> 4.0594 = 6.7657 < 8.7954] w=0.2540 to align # Constraint # added constraint: constraint((T0368)A63.CB, (T0368)H77.CB) [> 4.5676 = 7.6127 < 9.8966] w=0.2532 to align # Constraint # added constraint: constraint((T0368)L83.CB, (T0368)W100.CB) [> 3.4732 = 5.7886 < 7.5252] w=0.2523 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)A148.CB) [> 3.5631 = 5.9385 < 7.7201] w=0.2516 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)M144.CB) [> 3.4010 = 5.6683 < 7.3688] w=0.2514 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)K141.CB) [> 4.0620 = 6.7700 < 8.8011] w=0.2514 to align # Constraint # added constraint: constraint((T0368)A75.CB, (T0368)R107.CB) [> 4.2651 = 7.1085 < 9.2411] w=0.2382 to align # Constraint # added constraint: constraint((T0368)A120.CB, (T0368)M144.CB) [> 2.9545 = 4.9242 < 6.4014] w=0.2381 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)I39.CB) [> 4.2535 = 7.0892 < 9.2160] w=0.2369 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)C58.CB) [> 4.6069 = 7.6782 < 9.9816] w=0.2272 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)W100.CB) [> 3.7946 = 6.3244 < 8.2217] w=0.2251 to align # Constraint # added constraint: constraint((T0368)V127.CB, (T0368)M144.CB) [> 3.2968 = 5.4946 < 7.1430] w=0.2220 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)K81.CB) [> 4.5702 = 7.6171 < 9.9022] w=0.2140 to align # Constraint # added constraint: constraint((T0368)F86.CB, (T0368)W100.CB) [> 2.8266 = 4.7111 < 6.1244] w=0.2138 to align # Constraint # added constraint: constraint((T0368)A82.CB, (T0368)W100.CB) [> 3.8091 = 6.3485 < 8.2531] w=0.2115 to align # Constraint # added constraint: constraint((T0368)I131.CB, (T0368)M144.CB) [> 2.9922 = 4.9870 < 6.4831] w=0.2054 to align # Constraint # added constraint: constraint((T0368)A36.CB, (T0368)L62.CB) [> 4.4370 = 7.3951 < 9.6136] w=0.2048 to align # Constraint # added constraint: constraint((T0368)A108.CB, (T0368)A148.CB) [> 4.3296 = 7.2160 < 9.3808] w=0.2007 to align # Constraint # added constraint: constraint((T0368)Y26.CB, (T0368)L66.CB) [> 4.5700 = 7.6168 < 9.9018] w=0.2005 to align # Constraint # added constraint: constraint((T0368)D112.CB, (T0368)V147.CB) [> 4.3401 = 7.2335 < 9.4035] w=0.2003 to align # Constraint # added constraint: constraint((T0368)S102.CB, (T0368)V127.CB) [> 4.0706 = 6.7843 < 8.8196] w=0.1984 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)R151.CB) [> 3.6465 = 6.0775 < 7.9008] w=0.1960 to align # Constraint # added constraint: constraint((T0368)K125.CB, (T0368)A148.CB) [> 3.4968 = 5.8280 < 7.5764] w=0.1937 to align # Constraint # added constraint: constraint((T0368)M43.CB, (T0368)C58.CB) [> 3.1431 = 5.2386 < 6.8102] w=0.1872 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)L99.CB) [> 3.5389 = 5.8982 < 7.6677] w=0.1854 to align # Constraint # added constraint: constraint((T0368)V128.CB, (T0368)R151.CB) [> 4.3983 = 7.3306 < 9.5298] w=0.1824 to align # Constraint # added constraint: constraint((T0368)R34.CB, (T0368)C58.CB) [> 4.6983 = 7.8304 < 10.1796] w=0.1738 to align # Constraint # added constraint: constraint((T0368)N87.CB, (T0368)W100.CB) [> 3.7854 = 6.3090 < 8.2017] w=0.1738 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)L155.CB) [> 3.2076 = 5.3461 < 6.9499] w=0.1712 to align # Constraint # added constraint: constraint((T0368)G61.CA, (T0368)S106.CB) [> 4.6578 = 7.7630 < 10.0919] w=0.1605 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)C58.CB) [> 4.3059 = 7.1765 < 9.3295] w=0.1559 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)F57.CB) [> 3.0066 = 5.0110 < 6.5142] w=0.1557 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)M145.CB) [> 3.0262 = 5.0436 < 6.5567] w=0.1471 to align # Constraint # added constraint: constraint((T0368)F86.CB, (T0368)L99.CB) [> 3.4328 = 5.7213 < 7.4377] w=0.1471 to align # Constraint # added constraint: constraint((T0368)L62.CB, (T0368)A75.CB) [> 4.3630 = 7.2716 < 9.4531] w=0.1469 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)D55.CB) [> 4.2195 = 7.0325 < 9.1422] w=0.1463 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)H51.CB) [> 3.4804 = 5.8007 < 7.5409] w=0.1447 to align # Constraint # added constraint: constraint((T0368)I101.CB, (T0368)I131.CB) [> 3.6745 = 6.1242 < 7.9615] w=0.1447 to align # Constraint # added constraint: constraint((T0368)E6.CB, (T0368)I39.CB) [> 3.1083 = 5.1805 < 6.7347] w=0.1436 to align # Constraint # added constraint: constraint((T0368)R107.CB, (T0368)F124.CB) [> 3.5209 = 5.8682 < 7.6287] w=0.1426 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)I149.CB) [> 4.1344 = 6.8907 < 8.9579] w=0.1338 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)S40.CB) [> 4.5740 = 7.6234 < 9.9104] w=0.1338 to align # Constraint # added constraint: constraint((T0368)M43.CB, (T0368)Y85.CB) [> 4.4348 = 7.3913 < 9.6086] w=0.1338 to align # Constraint # added constraint: constraint((T0368)A82.CB, (T0368)L99.CB) [> 4.2771 = 7.1285 < 9.2670] w=0.1338 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)L99.CB) [> 3.7290 = 6.2150 < 8.0795] w=0.1338 to align # Constraint # added constraint: constraint((T0368)F57.CB, (T0368)L99.CB) [> 3.7073 = 6.1788 < 8.0325] w=0.1338 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)A60.CB) [> 4.4177 = 7.3628 < 9.5717] w=0.1291 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)G61.CA) [> 3.6173 = 6.0288 < 7.8374] w=0.1291 to align # Constraint # added constraint: constraint((T0368)E38.CB, (T0368)A82.CB) [> 4.5273 = 7.5455 < 9.8091] w=0.1290 to align # Constraint # added constraint: constraint((T0368)R70.CB, (T0368)L114.CB) [> 4.0783 = 6.7972 < 8.8363] w=0.1279 to align # Constraint # added constraint: constraint((T0368)M43.CB, (T0368)F57.CB) [> 3.4885 = 5.8141 < 7.5583] w=0.1204 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)H51.CB) [> 4.0081 = 6.6802 < 8.6842] w=0.1204 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)L155.CB) [> 4.0696 = 6.7826 < 8.8174] w=0.1187 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)G156.CA) [> 3.9348 = 6.5580 < 8.5254] w=0.1177 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)S106.CB) [> 3.6096 = 6.0159 < 7.8207] w=0.1164 to align # Constraint # added constraint: constraint((T0368)L12.CB, (T0368)A65.CB) [> 4.3364 = 7.2273 < 9.3955] w=0.1159 to align # Constraint # added constraint: constraint((T0368)A82.CB, (T0368)G97.CA) [> 4.0233 = 6.7056 < 8.7172] w=0.1158 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)W100.CB) [> 3.2146 = 5.3576 < 6.9649] w=0.1157 to align # Constraint # added constraint: constraint((T0368)S102.CB, (T0368)I131.CB) [> 3.6827 = 6.1379 < 7.9792] w=0.1157 to align # Constraint # added constraint: constraint((T0368)E129.CB, (T0368)A148.CB) [> 4.0702 = 6.7836 < 8.8187] w=0.1157 to align # Constraint # added constraint: constraint((T0368)L76.CB, (T0368)Y105.CB) [> 4.0988 = 6.8312 < 8.8806] w=0.1135 to align # Constraint # added constraint: constraint((T0368)R88.CB, (T0368)I101.CB) [> 4.4175 = 7.3625 < 9.5712] w=0.1071 to align # Constraint # added constraint: constraint((T0368)A60.CB, (T0368)W100.CB) [> 4.1178 = 6.8631 < 8.9220] w=0.1071 to align # Constraint # added constraint: constraint((T0368)A56.CB, (T0368)L92.CB) [> 3.4824 = 5.8040 < 7.5451] w=0.1070 to align # Constraint # added constraint: constraint((T0368)M43.CB, (T0368)A56.CB) [> 3.5765 = 5.9608 < 7.7490] w=0.1070 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)I152.CB) [> 3.1393 = 5.2321 < 6.8018] w=0.1070 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)S40.CB) [> 3.4598 = 5.7664 < 7.4963] w=0.1069 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)S40.CB) [> 3.4612 = 5.7686 < 7.4992] w=0.1067 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)A36.CB) [> 3.6765 = 6.1275 < 7.9657] w=0.1065 to align # Constraint # added constraint: constraint((T0368)F86.CB, (T0368)G97.CA) [> 3.5858 = 5.9763 < 7.7692] w=0.1062 to align # Constraint # added constraint: constraint((T0368)L14.CB, (T0368)F54.CB) [> 3.2611 = 5.4352 < 7.0657] w=0.1046 to align # Constraint # added constraint: constraint((T0368)L111.CB, (T0368)M144.CB) [> 4.3345 = 7.2242 < 9.3914] w=0.1044 to align # Constraint # added constraint: constraint((T0368)L69.CB, (T0368)A108.CB) [> 2.9290 = 4.8817 < 6.3462] w=0.1032 to align # Constraint # added constraint: constraint((T0368)A82.CB, (T0368)S102.CB) [> 4.5786 = 7.6311 < 9.9204] w=0.0937 to align # Constraint # added constraint: constraint((T0368)A120.CB, (T0368)L155.CB) [> 3.6356 = 6.0593 < 7.8770] w=0.0937 to align # Constraint # added constraint: constraint((T0368)G115.CA, (T0368)L155.CB) [> 4.7538 = 7.9230 < 10.2998] w=0.0937 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)F54.CB) [> 3.1547 = 5.2579 < 6.8353] w=0.0937 to align # Constraint # added constraint: constraint((T0368)D80.CB, (T0368)A103.CB) [> 4.5950 = 7.6583 < 9.9558] w=0.0935 to align # Constraint # added constraint: constraint((T0368)A29.CB, (T0368)L69.CB) [> 4.6183 = 7.6972 < 10.0064] w=0.0933 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)F54.CB) [> 3.4413 = 5.7355 < 7.4561] w=0.0931 to align # Constraint # added constraint: constraint((T0368)S102.CB, (T0368)M130.CB) [> 3.8486 = 6.4143 < 8.3386] w=0.0913 to align # Constraint # added constraint: constraint((T0368)M121.CB, (T0368)A153.CB) [> 4.6458 = 7.7430 < 10.0659] w=0.0912 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)Y105.CB) [> 4.5629 = 7.6049 < 9.8863] w=0.0910 to align # Constraint # added constraint: constraint((T0368)S106.CB, (T0368)M121.CB) [> 4.6231 = 7.7052 < 10.0168] w=0.0907 to align # Constraint # added constraint: constraint((T0368)L69.CB, (T0368)L109.CB) [> 4.4704 = 7.4507 < 9.6859] w=0.0894 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)H51.CB) [> 3.7450 = 6.2417 < 8.1142] w=0.0803 to align # Constraint # added constraint: constraint((T0368)F57.CB, (T0368)L92.CB) [> 4.4640 = 7.4401 < 9.6721] w=0.0803 to align # Constraint # added constraint: constraint((T0368)Q18.CB, (T0368)G61.CA) [> 4.2483 = 7.0805 < 9.2046] w=0.0803 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)I39.CB) [> 3.2440 = 5.4066 < 7.0286] w=0.0799 to align # Constraint # added constraint: constraint((T0368)L83.CB, (T0368)I101.CB) [> 4.0132 = 6.6887 < 8.6953] w=0.0787 to align # Constraint # added constraint: constraint((T0368)L62.CB, (T0368)A82.CB) [> 4.1573 = 6.9288 < 9.0075] w=0.0783 to align # Constraint # added constraint: constraint((T0368)L99.CB, (T0368)I131.CB) [> 3.9063 = 6.5104 < 8.4636] w=0.0779 to align # Constraint # added constraint: constraint((T0368)A103.CB, (T0368)I131.CB) [> 3.9224 = 6.5374 < 8.4986] w=0.0779 to align # Constraint # added constraint: constraint((T0368)L21.CB, (T0368)F57.CB) [> 4.4843 = 7.4738 < 9.7160] w=0.0778 to align # Constraint # added constraint: constraint((T0368)H84.CB, (T0368)K126.CB) [> 4.6126 = 7.6876 < 9.9939] w=0.0778 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)D55.CB) [> 4.7026 = 7.8377 < 10.1890] w=0.0669 to align # Constraint # added constraint: constraint((T0368)I101.CB, (T0368)M144.CB) [> 4.4631 = 7.4385 < 9.6701] w=0.0669 to align # Constraint # added constraint: constraint((T0368)S15.CB, (T0368)F57.CB) [> 3.8394 = 6.3990 < 8.3187] w=0.0669 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)A36.CB) [> 3.0630 = 5.1049 < 6.6364] w=0.0666 to align # Constraint # added constraint: constraint((T0368)L92.CB, (T0368)I101.CB) [> 3.5416 = 5.9027 < 7.6736] w=0.0664 to align # Constraint # added constraint: constraint((T0368)K5.CB, (T0368)F57.CB) [> 2.9217 = 4.8695 < 6.3304] w=0.0646 to align # Constraint # added constraint: constraint((T0368)F124.CB, (T0368)I149.CB) [> 3.9108 = 6.5180 < 8.4734] w=0.0535 to align # Constraint # added constraint: constraint((T0368)V8.CB, (T0368)F54.CB) [> 4.2623 = 7.1038 < 9.2350] w=0.0534 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)A36.CB) [> 3.1888 = 5.3146 < 6.9090] w=0.0533 to align # Constraint # added constraint: constraint((T0368)V104.CB, (T0368)M144.CB) [> 4.0148 = 6.6913 < 8.6987] w=0.0512 to align # Constraint # added constraint: constraint((T0368)M37.CB, (T0368)H51.CB) [> 3.4761 = 5.7935 < 7.5315] w=0.0512 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)G53.CA) [> 4.4483 = 7.4139 < 9.6381] w=0.0440 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)F54.CB) [> 4.3222 = 7.2037 < 9.3648] w=0.0401 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)A48.CB) [> 3.9685 = 6.6141 < 8.5983] w=0.0401 to align # Constraint # added constraint: constraint((T0368)E74.CB, (T0368)A110.CB) [> 4.6819 = 7.8031 < 10.1441] w=0.0401 to align # Constraint # added constraint: constraint((T0368)C33.CB, (T0368)H51.CB) [> 3.7815 = 6.3025 < 8.1932] w=0.0401 to align # Constraint # added constraint: constraint((T0368)F57.CB, (T0368)S102.CB) [> 4.7074 = 7.8457 < 10.1994] w=0.0401 to align # Constraint # added constraint: constraint((T0368)P44.CB, (T0368)A82.CB) [> 3.2974 = 5.4956 < 7.1443] w=0.0401 to align # Constraint # added constraint: constraint((T0368)A52.CB, (T0368)R88.CB) [> 4.6664 = 7.7774 < 10.1106] w=0.0400 to align # Constraint # added constraint: constraint((T0368)L92.CB, (T0368)R134.CB) [> 3.5464 = 5.9107 < 7.6839] w=0.0400 to align # Constraint # added constraint: constraint((T0368)F49.CB, (T0368)L62.CB) [> 4.3723 = 7.2872 < 9.4733] w=0.0399 to align # Constraint # added constraint: constraint((T0368)S15.CB, (T0368)Y26.CB) [> 4.4380 = 7.3966 < 9.6156] w=0.0397 to align # Constraint # added constraint: constraint((T0368)A110.CB, (T0368)L155.CB) [> 3.0877 = 5.1462 < 6.6901] w=0.0390 to align # Constraint # added constraint: constraint((T0368)H59.CB, (T0368)K98.CB) [> 4.7557 = 7.9262 < 10.3041] w=0.0389 to align # Constraint # added constraint: constraint((T0368)G97.CA, (T0368)M144.CB) [> 3.6253 = 6.0422 < 7.8548] w=0.0268 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)A48.CB) [> 3.2078 = 5.3464 < 6.9503] w=0.0268 to align # Constraint # added constraint: constraint((T0368)V7.CB, (T0368)M37.CB) [> 4.2799 = 7.1332 < 9.2731] w=0.0268 to align # Constraint # added constraint: constraint((T0368)L12.CB, (T0368)F54.CB) [> 3.9295 = 6.5492 < 8.5140] w=0.0268 to align # Constraint # added constraint: constraint((T0368)P44.CB, (T0368)C58.CB) [> 4.3716 = 7.2860 < 9.4717] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A13.CB, (T0368)D50.CB) [> 3.1371 = 5.2284 < 6.7970] w=0.0268 to align # Constraint # added constraint: constraint((T0368)D112.CB, (T0368)I152.CB) [> 3.6682 = 6.1137 < 7.9478] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A120.CB, (T0368)I152.CB) [> 2.8644 = 4.7741 < 6.2063] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)D50.CB) [> 3.9743 = 6.6239 < 8.6110] w=0.0268 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)F49.CB) [> 4.3940 = 7.3233 < 9.5203] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A36.CB, (T0368)D50.CB) [> 3.6544 = 6.0906 < 7.9178] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A48.CB, (T0368)Y85.CB) [> 4.1452 = 6.9087 < 8.9813] w=0.0268 to align # Constraint # added constraint: constraint((T0368)A48.CB, (T0368)R88.CB) [> 4.6554 = 7.7589 < 10.0866] w=0.0268 to align # Constraint # added constraint: constraint((T0368)F49.CB, (T0368)R89.CB) [> 4.3225 = 7.2041 < 9.3653] w=0.0268 to align # Constraint # added constraint: constraint((T0368)Q18.CB, (T0368)I152.CB) [> 3.6030 = 6.0051 < 7.8066] w=0.0267 to align # Constraint # added constraint: constraint((T0368)V22.CB, (T0368)I152.CB) [> 3.1611 = 5.2686 < 6.8491] w=0.0267 to align # Constraint # added constraint: constraint((T0368)L12.CB, (T0368)A36.CB) [> 3.7148 = 6.1913 < 8.0487] w=0.0267 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)F49.CB) [> 3.3807 = 5.6345 < 7.3249] w=0.0267 to align # Constraint # added constraint: constraint((T0368)P3.CB, (T0368)L12.CB) [> 3.3360 = 5.5599 < 7.2279] w=0.0266 to align # Constraint # added constraint: constraint((T0368)A103.CB, (T0368)F124.CB) [> 4.4712 = 7.4520 < 9.6876] w=0.0265 to align # Constraint # added constraint: constraint((T0368)E25.CB, (T0368)F57.CB) [> 4.1063 = 6.8438 < 8.8969] w=0.0265 to align # Constraint # added constraint: constraint((T0368)F54.CB, (T0368)K98.CB) [> 4.3612 = 7.2686 < 9.4492] w=0.0265 to align # Constraint # added constraint: constraint((T0368)G53.CA, (T0368)G97.CA) [> 4.5648 = 7.6080 < 9.8903] w=0.0265 to align # Constraint # added constraint: constraint((T0368)G53.CA, (T0368)A82.CB) [> 4.2375 = 7.0624 < 9.1812] w=0.0265 to align # Constraint # added constraint: constraint((T0368)A48.CB, (T0368)C58.CB) [> 2.7434 = 4.5723 < 5.9439] w=0.0265 to align # Constraint # added constraint: constraint((T0368)E47.CB, (T0368)S78.CB) [> 4.7374 = 7.8957 < 10.2644] w=0.0265 to align # Constraint # added constraint: constraint((T0368)E47.CB, (T0368)L66.CB) [> 4.6275 = 7.7125 < 10.0263] w=0.0265 to align # Constraint # added constraint: constraint((T0368)F72.CB, (T0368)M144.CB) [> 3.4030 = 5.6717 < 7.3732] w=0.0262 to align # Constraint # added constraint: constraint((T0368)A10.CB, (T0368)A65.CB) [> 4.1019 = 6.8365 < 8.8874] w=0.0232 to align # Constraint # added constraint: constraint((T0368)I39.CB, (T0368)A65.CB) [> 3.8266 = 6.3777 < 8.2910] w=0.0232 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)F57.CB) [> 4.3903 = 7.3172 < 9.5124] w=0.0174 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)A52.CB) [> 3.6159 = 6.0265 < 7.8344] w=0.0173 to align # Constraint # added constraint: constraint((T0368)P3.CB, (T0368)I39.CB) [> 3.9436 = 6.5726 < 8.5444] w=0.0134 to align # Constraint # added constraint: constraint((T0368)P3.CB, (T0368)E47.CB) [> 3.3770 = 5.6284 < 7.3169] w=0.0134 to align # Constraint # added constraint: constraint((T0368)K2.CB, (T0368)S40.CB) [> 3.5378 = 5.8963 < 7.6652] w=0.0134 to align # Constraint # added constraint: constraint((T0368)I101.CB, (T0368)I149.CB) [> 2.3097 = 3.8496 < 5.0044] w=0.0134 to align # Constraint # added constraint: constraint((T0368)Y11.CB, (T0368)G53.CA) [> 4.5588 = 7.5980 < 9.8773] w=0.0134 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)F49.CB) [> 2.1961 = 3.6601 < 4.7582] w=0.0133 to align # Constraint # added constraint: constraint((T0368)L4.CB, (T0368)G53.CA) [> 4.6260 = 7.7100 < 10.0230] w=0.0133 to align # Constraint # added constraint: constraint((T0368)S40.CB, (T0368)A82.CB) [> 4.4699 = 7.4498 < 9.6847] w=0.0133 to align # Constraint # added constraint: constraint((T0368)S71.CB, (T0368)M121.CB) [> 3.7131 = 6.1885 < 8.0450] w=0.0116 to align # Constraint # added constraint: constraint((T0368)G53.CA, (T0368)L111.CB) [> 3.9127 = 6.5212 < 8.4776] w=0.0027 to align # Constraint # added constraint: constraint((T0368)G9.CA, (T0368)E28.CB) [> 3.4634 = 5.7724 < 7.5041] w=0.0013 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0368/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0368/decoys/ # ReadConformPDB reading from PDB file tr368.gromacs0.pdb.gz looking for model 1 # Found a chain break before 134 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file tr368.gromacs0.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 134 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file tr368.pdb.gz looking for model 1 # Found a chain break before 138 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file tr368.repack-nonPC.pdb.gz looking for model 1 # Found a chain break before 138 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file tr368.with.ligand.renum.pdb.gz looking for model 1 # Found a chain break before 138 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 # Found a chain break before 118 # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_POPULUS_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_POPULUS_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # Found a chain break before 146 # copying to AlignedFragments data structure # 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 T0368 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 T0368 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 T0368 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 T0368 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # 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 126 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS1 # ReadConformPDB reading from PDB file servers/3Dpro_TS2.pdb.gz looking for model 1 # Found a chain break before 130 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS2 # ReadConformPDB reading from PDB file servers/3Dpro_TS3.pdb.gz looking for model 1 # Found a chain break before 171 # 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 102 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 169 # 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 168 # 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 173 # 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 160 # 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 158 # 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 130 # 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 # 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 139 # 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 132 # 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 106 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 168 # 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 173 # 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 160 # 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS5 # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 T0368 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 T0368 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 T0368 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 165 # 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 171 # 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 T0368 can't currently be optimized by undertaker # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # Found a chain break before 173 # copying to AlignedFragments data structure # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # Found a chain break before 168 # 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 160 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # naming current conformation FOLDpro_TS1 # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 87 # 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 163 # 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 102 # 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 150 # 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE1_AL3 # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 Skipped atom 129, because occupancy 1 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 130, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 131, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 132, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 333, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 334, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 335, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 336, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 357, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 358, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 359, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 360, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 625, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 626, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 627, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 628, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE2_AL3 # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 Skipped atom 35, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 44, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 49, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 90, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 135, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 160, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 249, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 306, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 315, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 396, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 437, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 482, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 527, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 548, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 565, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 586, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 647, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 668, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 681, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 82 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS1 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS2.pdb.gz looking for model 1 # Found a chain break before 171 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS2 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS3.pdb.gz looking for model 1 # Found a chain break before 128 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS3 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS4.pdb.gz looking for model 1 # Found a chain break before 155 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS4 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS5.pdb.gz looking for model 1 # Found a chain break before 82 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # Found a chain break before 139 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS2 # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # Found a chain break before 100 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS3 # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS4 # ReadConformPDB reading from PDB file servers/FUGMOD_TS5.pdb.gz looking for model 1 # Found a chain break before 116 # 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 T0368 can't currently be optimized by undertaker # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation FUGUE_AL2 # ReadConformPDB reading from PDB file servers/FUGUE_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 T0368 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 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # 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 170 # 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 159 # 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 163 # 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 169 # 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 146 # 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 169 # 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 47 # 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 166 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 89 # 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 T0368 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # naming current conformation HHpred1_TS1 # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 46 # 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 46 # 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 T0368 can't currently be optimized by undertaker # 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 T0368 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 T0368 can't currently be optimized by undertaker # 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 T0368 can't currently be optimized by undertaker # 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 T0368 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 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation LOOPP_TS1 # ReadConformPDB reading from PDB file servers/LOOPP_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS1.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS2.pdb.gz looking for model 1 # Found a chain break before 123 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS3.pdb.gz looking for model 1 # Found a chain break before 166 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS4.pdb.gz looking for model 1 # Found a chain break before 157 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS5.pdb.gz looking for model 1 # Found a chain break before 162 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 156 # 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 166 # 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 172 # 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 123 # 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 145 # 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 157 # 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 172 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS2 # ReadConformPDB reading from PDB file servers/MetaTasser_TS3.pdb.gz looking for model 1 # Found a chain break before 115 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # ReadConformPDB reading from PDB file servers/MetaTasser_TS4.pdb.gz looking for model 1 # Found a chain break before 173 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # ReadConformPDB reading from PDB file servers/MetaTasser_TS5.pdb.gz looking for model 1 # Found a chain break before 159 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS1.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS2.pdb.gz looking for model 1 # Found a chain break before 173 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # ReadConformPDB reading from PDB file servers/POMYSL_TS3.pdb.gz looking for model 1 # Found a chain break before 159 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # ReadConformPDB reading from PDB file servers/POMYSL_TS4.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS4 # ReadConformPDB reading from PDB file servers/POMYSL_TS5.pdb.gz looking for model 1 # Found a chain break before 159 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # Found a chain break before 142 # copying to AlignedFragments data structure # naming current conformation PROTINFO-AB_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # Found a chain break before 143 # copying to AlignedFragments data structure # naming current conformation PROTINFO-AB_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # Found a chain break before 142 # copying to AlignedFragments data structure # naming current conformation PROTINFO-AB_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # Found a chain break before 143 # copying to AlignedFragments data structure # 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 # Found a chain break before 106 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Pcons6_TS1 # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # Found a chain break before 159 # 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 T0368 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 T0368 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 T0368 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 T0368 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 # Found a chain break before 48 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # Found a chain break before 87 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 # Found a chain break before 151 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS5 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS1.pdb.gz looking for model 1 # 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 138 # 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 163 # 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 55 # 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 149 # 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 55 # 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 163 # 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 82 # 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 172 # 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 171 # 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 156 # 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 85 # 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 55 # 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 107 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # naming current conformation RAPTOR_TS5 # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # Found a chain break before 151 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS1 # ReadConformPDB reading from PDB file servers/ROBETTA_TS2.pdb.gz looking for model 1 # Found a chain break before 148 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS2 # ReadConformPDB reading from PDB file servers/ROBETTA_TS3.pdb.gz looking for model 1 # Found a chain break before 48 # copying to AlignedFragments data structure # 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 87 # 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 148 # 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 88 # 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 148 # 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 36 # 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 38 # 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 T0368 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 T0368 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL5 # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 170 # 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 T0368 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 T0368 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 T0368 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 T0368 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 167 # 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 138 # 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 45 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation SP3_TS5 # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 130 # 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 93 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # naming current conformation SP4_TS3 # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 130 # 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 128 # 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 57 # 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 20 # 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 172 # 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 157 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS4 # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation SPARKS2_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # 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 T0368 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 T0368 can't currently be optimized by undertaker # 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 T0368 can't currently be optimized by undertaker # 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 T0368 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 T0368 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 T0368 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 T0368 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 # Found a chain break before 161 # copying to AlignedFragments data structure # 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 159 # 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 140 # 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 # Found a chain break before 148 # copying to AlignedFragments data structure # 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 171 # 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 T0368 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 Skipped atom 129, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 130, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 131, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 132, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 345, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 346, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 347, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 348, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 369, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 370, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 371, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 372, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 637, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 638, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 639, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz Skipped atom 640, because occupancy 1.000 <= existing 1.000 in servers/forecast-s_AL2.pdb.gz # WARNING: incomplete conformation T0368 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 T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # 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 24 # 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 136 # 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 118 # 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 # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # naming current conformation keasar-server_TS2 # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # 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 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 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 T0368 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: atom 1 has residue number 1 < previous residue 174 in servers/nFOLD_TS2.pdb.gz # WARNING: incomplete conformation T0368 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: atom 1 has residue number 1 < previous residue 115 in servers/nFOLD_TS3.pdb.gz # WARNING: incomplete conformation T0368 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: atom 1 has residue number 1 < previous residue 138 in servers/nFOLD_TS4.pdb.gz # WARNING: incomplete conformation T0368 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 T0368 can't currently be optimized by undertaker # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # ReadConformPDB reading from PDB file servers/panther3_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation panther3_TS1 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0368 can't currently be optimized by undertaker # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score -0.4597 model score -0.4620 model score -0.4679 model score -0.4702 model score -0.4679 model score 1.1393 model score 0.9514 model score 0.7151 model score 1.0039 model score 0.3862 model score -0.0582 model score -0.0552 model score -0.2044 model score 0.3746 model score 0.3715 model score 0.1190 model score 0.0764 model score -0.0477 model score 0.2725 model score -0.0301 model score 0.3583 model score -0.0370 model score 0.4512 model score 1.4087 model score 1.3607 model score 0.8478 model score 1.0737 model score 1.2056 model score 0.9313 model score 0.8042 model score -0.3137 model score -0.3483 model score 0.3142 model score -0.2356 model score -0.1231 model score -0.2984 model score -0.2877 model score -0.3450 model score -0.1207 model score -0.4067 model score -0.1530 model score -0.3346 model score -0.1766 model score -0.0257 model score -0.2465 model score 1.2772 model score 1.2771 model score 1.2772 model score 1.2771 model score 1.2773 model score -0.2991 model score -0.2093 model score -0.1163 model score -0.1627 model score 0.1855 model score -0.0661 model score -0.4067 model score -0.2877 model score -0.2984 model score -0.3450 model score -0.1774 model score -0.1876 model score 0.8479 model score 1.1711 model score 1.0977 model score 1.2766 model score 1.2774 model score 1.2775 model score 1.2773 model score 1.2772 model score 1.2766 model score 1.2774 model score 1.2775 model score 1.2773 model score 1.2777 model score 2.1267 model score 2.3641 model score 2.2750 model score 1.9417 model score 2.0786 model score -0.2650 model score -0.3352 model score -0.2090 model score -0.3087 model score 0.6621 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 0.2475 model score 0.8282 model score 0.5768 model score 0.5610 model score -0.2605 model score 2.0243 model score 1.8927 model score 2.0480 model score 1.9770 model score -0.2879 model score -0.3108 model score -0.2362 model score -0.2837 model score -0.1369 model score -0.3270 model score -0.3141 model score -0.3141 model score 0.3628 model score 0.1186 model score -0.1263 model score 1.4273 model score 0.4286 model score -0.1294 model score -0.1754 model score -0.3948 model score 0.0215 model score -0.1825 model score 1.2771 model score 0.1411 model score 0.2125 model score 0.3795 model score -0.2397 model score -0.0379 model score 0.1597 model score 0.3795 model score 0.0053 model score 0.2125 model score 0.2698 model score -0.3731 model score -0.3750 model score -0.1267 model score -0.1887 model score -0.4873 model score 0.0339 model score 2.1974 model score 1.7000 model score 1.7666 model score 1.5692 model score 1.7476 model score 0.4206 model score 0.4109 model score 0.4117 model score 0.4044 model score -0.2400 model score -0.2623 model score 0.3958 model score -0.2118 model score -0.2355 model score -0.0197 model score -0.1944 model score -0.0890 model score -0.2161 model score -0.2145 model score 0.0280 model score -0.3802 model score -0.3083 model score -0.2969 model score -0.2964 model score -0.2967 model score -0.2969 model score -0.3803 model score -0.3511 model score -0.1272 model score -0.2161 model score -0.3436 model score -0.3543 model score -0.2501 model score -0.3261 model score -0.3128 model score -0.1754 model score -0.3029 model score -0.2822 model score -0.2831 model score -0.0852 model score -0.3553 model score -0.3541 model score -0.4006 model score -0.3749 model score -0.2694 model score -0.3961 model score -0.3436 model score -0.1114 model score -0.3803 model score -0.3996 model score -0.3511 model score -0.2572 model score -0.2764 model score 0.1711 model score -0.2253 model score -0.1966 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2773 model score 1.2772 model score 0.5458 model score 0.0049 model score -0.0663 model score -0.3052 model score -0.3331 model score 0.0339 model score -0.3702 model score -0.2501 model score 0.5867 model score 1.2771 model score -0.0439 model score -0.1523 model score -0.2275 model score -0.0405 model score -0.3957 model score 0.0120 model score 0.5776 model score -0.2341 model score 0.6899 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2773 model score 1.2771 model score -0.2597 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score 1.2771 model score -0.4838 model score -0.4849 model score -0.4711 model score -0.4263 model score -0.4482 model score -0.1104 model score 0.0885 model score 1.2771 model score 1.2772 model score 1.2771 model score 1.2771 model score 1.2771 model score -0.2266 model score -0.2622 model score -0.2112 model score 1.7708 model score 1.9515 model score -0.1288 model score -0.2341 model score -0.1314 model score -0.3000 model score -0.2134 model score -0.0861 model score -0.3065 model score -0.2772 model score -0.2512 model score -0.3417 model score -0.3532 model score -0.3028 model score 0.4133 model score 0.4308 model score 0.4018 model score 0.5962 model score 1.3112 model score 1.4014 model score -0.1128 USE_META, weight: 0.9913 cost: -0.4597 min: -0.4873 max: 2.3641 USE_META, weight: 0.9920 cost: -0.4620 min: -0.4873 max: 2.3641 USE_META, weight: 0.9939 cost: -0.4679 min: -0.4873 max: 2.3641 USE_META, weight: 0.9946 cost: -0.4702 min: -0.4873 max: 2.3641 USE_META, weight: 0.9939 cost: -0.4679 min: -0.4873 max: 2.3641 USE_META, weight: 0.4866 cost: 1.1393 min: -0.4873 max: 2.3641 USE_META, weight: 0.5459 cost: 0.9514 min: -0.4873 max: 2.3641 USE_META, weight: 0.6205 cost: 0.7151 min: -0.4873 max: 2.3641 USE_META, weight: 0.5293 cost: 1.0039 min: -0.4873 max: 2.3641 USE_META, weight: 0.7243 cost: 0.3862 min: -0.4873 max: 2.3641 USE_META, weight: 0.8646 cost: -0.0582 min: -0.4873 max: 2.3641 USE_META, weight: 0.8636 cost: -0.0552 min: -0.4873 max: 2.3641 USE_META, weight: 0.9107 cost: -0.2044 min: -0.4873 max: 2.3641 USE_META, weight: 0.7279 cost: 0.3746 min: -0.4873 max: 2.3641 USE_META, weight: 0.7289 cost: 0.3715 min: -0.4873 max: 2.3641 USE_META, weight: 0.8086 cost: 0.1190 min: -0.4873 max: 2.3641 USE_META, weight: 0.8221 cost: 0.0764 min: -0.4873 max: 2.3641 USE_META, weight: 0.8613 cost: -0.0477 min: -0.4873 max: 2.3641 USE_META, weight: 0.7602 cost: 0.2725 min: -0.4873 max: 2.3641 USE_META, weight: 0.8557 cost: -0.0301 min: -0.4873 max: 2.3641 USE_META, weight: 0.7331 cost: 0.3583 min: -0.4873 max: 2.3641 USE_META, weight: 0.8579 cost: -0.0370 min: -0.4873 max: 2.3641 USE_META, weight: 0.7038 cost: 0.4512 min: -0.4873 max: 2.3641 USE_META, weight: 0.4016 cost: 1.4087 min: -0.4873 max: 2.3641 USE_META, weight: 0.4167 cost: 1.3607 min: -0.4873 max: 2.3641 USE_META, weight: 0.5786 cost: 0.8478 min: -0.4873 max: 2.3641 USE_META, weight: 0.5073 cost: 1.0737 min: -0.4873 max: 2.3641 USE_META, weight: 0.4657 cost: 1.2056 min: -0.4873 max: 2.3641 USE_META, weight: 0.5522 cost: 0.9313 min: -0.4873 max: 2.3641 USE_META, weight: 0.5924 cost: 0.8042 min: -0.4873 max: 2.3641 USE_META, weight: 0.9452 cost: -0.3137 min: -0.4873 max: 2.3641 USE_META, weight: 0.9561 cost: -0.3483 min: -0.4873 max: 2.3641 USE_META, weight: 0.7470 cost: 0.3142 min: -0.4873 max: 2.3641 USE_META, weight: 0.9206 cost: -0.2356 min: -0.4873 max: 2.3641 USE_META, weight: 0.8850 cost: -0.1231 min: -0.4873 max: 2.3641 USE_META, weight: 0.9404 cost: -0.2984 min: -0.4873 max: 2.3641 USE_META, weight: 0.9370 cost: -0.2877 min: -0.4873 max: 2.3641 USE_META, weight: 0.9551 cost: -0.3450 min: -0.4873 max: 2.3641 USE_META, weight: 0.8843 cost: -0.1207 min: -0.4873 max: 2.3641 USE_META, weight: 0.9746 cost: -0.4067 min: -0.4873 max: 2.3641 USE_META, weight: 0.8945 cost: -0.1530 min: -0.4873 max: 2.3641 USE_META, weight: 0.9518 cost: -0.3346 min: -0.4873 max: 2.3641 USE_META, weight: 0.9019 cost: -0.1766 min: -0.4873 max: 2.3641 USE_META, weight: 0.8543 cost: -0.0257 min: -0.4873 max: 2.3641 USE_META, weight: 0.9240 cost: -0.2465 min: -0.4873 max: 2.3641 USE_META, weight: 0.4431 cost: 1.2772 min: -0.4873 max: 2.3641 USE_META, weight: 0.4431 cost: 1.2771 min: -0.4873 max: 2.3641 USE_META, weight: 0.4430 cost: 1.2772 min: -0.4873 max: 2.3641 USE_META, weight: 0.4431 cost: 1.2771 min: -0.4873 max: 2.3641 USE_META, weight: 0.4430 cost: 1.2773 min: -0.4873 max: 2.3641 USE_META, weight: 0.9406 cost: -0.2991 min: -0.4873 max: 2.3641 USE_META, weight: 0.9123 cost: -0.2093 min: -0.4873 max: 2.3641 USE_META, weight: 0.8829 cost: -0.1163 min: -0.4873 max: 2.3641 USE_META, weight: 0.8975 cost: -0.1627 min: -0.4873 max: 2.3641 USE_META, weight: 0.7876 cost: 0.1855 min: -0.4873 max: 2.3641 USE_META, weight: 0.8670 cost: -0.0661 min: -0.4873 max: 2.3641 USE_META, weight: 0.9746 cost: -0.4067 min: -0.4873 max: 2.3641 USE_META, weight: 0.9370 cost: -0.2877 min: -0.4873 max: 2.3641 USE_META, weight: 0.9404 cost: -0.2984 min: -0.4873 max: 2.3641 USE_META, weight: 0.9551 cost: -0.3450 min: -0.4873 max: 2.3641 USE_META, weight: 0.9022 cost: -0.1774 min: -0.4873 max: 2.3641 USE_META, weight: 0.9054 cost: -0.1876 min: -0.4873 max: 2.3641 USE_META, weight: 0.5786 cost: 0.8479 min: -0.4873 max: 2.3641 USE_META, weight: 0.4765 cost: 1.1711 min: -0.4873 max: 2.3641 USE_META, weight: 0.4997 cost: 1.0977 min: -0.4873 max: 2.3641 USE_META, weight: 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USE_EVALUE, weight: 0.8857 eval: 2.9984 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.8857 eval: 2.9984 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.8857 eval: 2.9984 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9999 eval: 0.0027 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9999 eval: 0.0027 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9999 eval: 0.0027 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 1.0000 eval: 0.0007 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 1.0000 eval: 0.0007 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 1.0000 eval: 0.0007 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9773 eval: 0.5953 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9773 eval: 0.5953 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9773 eval: 0.5953 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9505 eval: 1.2975 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9505 eval: 1.2975 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9505 eval: 1.2975 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9601 eval: 1.0465 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9601 eval: 1.0465 min: 0.0000 max: 23.6000 USE_EVALUE, weight: 0.9601 eval: 1.0465 min: 0.0000 max: 23.6000 Number of contacts in models: 265 Number of contacts in alignments: 84 NUMB_ALIGNS: 84 Adding 6790 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: -314.6536, CN propb: -314.6536 weights: 0.2780 constraints: 381 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 381 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 381 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 6409 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 6409 # 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 6790 # command: