# 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/T0315/ # command:# Making conformation for sequence T0315 numbered 1 through 257 Created new target T0315 from T0315.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0315/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0315//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0315/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0315//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0315/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0315/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0315/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j6pA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1j6pA expands to /projects/compbio/data/pdb/1j6p.pdb.gz 1j6pA: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 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 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 # T0315 read from 1j6pA/merged-good-all-a2m # 1j6pA read from 1j6pA/merged-good-all-a2m # adding 1j6pA to template set # found chain 1j6pA in template set Warning: unaligning (T0315)S209 because of BadResidue code BAD_PEPTIDE in next template residue (1j6pA)N285 Warning: unaligning (T0315)E219 because of BadResidue code BAD_PEPTIDE at template residue (1j6pA)N285 T0315 2 :LIDTHVHLNDEQY 1j6pA 51 :LFNTHTHAPMTLL # choosing archetypes in rotamer library T0315 15 :DDDLSEV 1j6pA 88 :TEKMAYY T0315 22 :ITRAREAGVDRMFVVGF 1j6pA 100 :QMEMARHGIAGFVDMYF T0315 42 :TIERAMKLIDEYD 1j6pA 117 :HEEWIAKAVRDFG T0315 55 :FLYGIIGWHPV 1j6pA 131 :RALLTRGLVDS T0315 66 :DAIDFTEEHLEWIESLAQHPK 1j6pA 144 :DDGGRLEENLKLYNEWNGFEG T0315 87 :VIGIGE 1j6pA 167 :FVGFGP T0315 97 :YHWDKSP 1j6pA 173 :HSPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHNRE 1j6pA 180 :EEYLKRVFDTAKSLNAPVTIHLYE T0315 132 :ATQD 1j6pA 210 :DLED T0315 140 :LLEEHA 1j6pA 214 :ILNIGL T0315 146 :EEVGGIMHSFSGSP 1j6pA 221 :EVKTIAAHCVHLPE T0315 167 :N 1j6pA 242 :D T0315 169 :LNFYISLG 1j6pA 243 :IPFFVSHN T0315 177 :GPV 1j6pA 260 :GIA T0315 186 :QPKEVAKHVS 1j6pA 263 :PVQRMIEHGM T0315 198 :RLLVETDAPYL 1j6pA 273 :KVTLGTDGAAS T0315 220 :PARVTLVAEQIAEL 1j6pA 286 :SLNLFFEMRLASLL T0315 234 :KG 1j6pA 305 :PR T0315 236 :LSYEEVCEQTTKNAEKLFNLNS 1j6pA 308 :LDVNTCLKMVTYDGAQAMGFKS Number of specific fragments extracted= 20 number of extra gaps= 1 total=20 Number of alignments=1 # 1j6pA read from 1j6pA/merged-good-all-a2m # found chain 1j6pA in template set Warning: unaligning (T0315)N218 because of BadResidue code BAD_PEPTIDE in next template residue (1j6pA)N285 Warning: unaligning (T0315)E219 because of BadResidue code BAD_PEPTIDE at template residue (1j6pA)N285 T0315 2 :LIDTHVHLNDEQYDD 1j6pA 51 :LFNTHTHAPMTLLRG T0315 24 :RAREAGVDRMFVVGFN 1j6pA 102 :EMARHGIAGFVDMYFH T0315 43 :IERAMKLIDEYD 1j6pA 118 :EEWIAKAVRDFG T0315 55 :FLYGIIGWHP 1j6pA 131 :RALLTRGLVD T0315 67 :AIDFTEEHLEWIESLAQ 1j6pA 141 :SNGDDGGRLEENLKLYN T0315 84 :HPKVIGIGEM 1j6pA 164 :GRIFVGFGPH T0315 98 :HWDKSP 1j6pA 174 :SPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1j6pA 180 :EEYLKRVFDTAKSLNAPVTIHL T0315 130 :REA 1j6pA 209 :YDL T0315 134 :QDCI 1j6pA 212 :EDIL T0315 142 :EEHAEEVGGIM 1j6pA 216 :NIGLKEVKTIA T0315 153 :HSFSGSP 1j6pA 228 :HCVHLPE T0315 166 :TNKLNFYISLG 1j6pA 240 :LKDIPFFVSHN T0315 183 :NAKQPKEVAKHVS 1j6pA 260 :GIAPVQRMIEHGM T0315 198 :RLLVETDAPY 1j6pA 273 :KVTLGTDGAA T0315 217 :R 1j6pA 283 :S T0315 220 :PARVTLVAEQIAEL 1j6pA 286 :SLNLFFEMRLASLL T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1j6pA 306 :RNLDVNTCLKMVTYDGAQAMGFK Number of specific fragments extracted= 18 number of extra gaps= 1 total=38 Number of alignments=2 # 1j6pA read from 1j6pA/merged-good-all-a2m # found chain 1j6pA in template set Warning: unaligning (T0315)N218 because of BadResidue code BAD_PEPTIDE in next template residue (1j6pA)N285 Warning: unaligning (T0315)E219 because of BadResidue code BAD_PEPTIDE at template residue (1j6pA)N285 T0315 2 :LIDTHVHLNDEQYDD 1j6pA 51 :LFNTHTHAPMTLLRG T0315 17 :DLSEVIT 1j6pA 71 :SFEEWLF T0315 24 :RAREAGVDRMFVVGFN 1j6pA 102 :EMARHGIAGFVDMYFH T0315 43 :IERAMKLIDEYDF 1j6pA 118 :EEWIAKAVRDFGM T0315 56 :LYGIIGWHPV 1j6pA 132 :ALLTRGLVDS T0315 66 :DAIDFTEEHLEWIESLA 1j6pA 144 :DDGGRLEENLKLYNEWN T0315 83 :QHPKVIGIGE 1j6pA 163 :EGRIFVGFGP T0315 97 :YHWDKSP 1j6pA 173 :HSPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1j6pA 180 :EEYLKRVFDTAKSLNAPVTIHL T0315 130 :RE 1j6pA 209 :YD T0315 133 :TQDC 1j6pA 211 :LEDI T0315 141 :LEEHAEEVGGIMHSFSG 1j6pA 215 :LNIGLKEVKTIAAHCVH T0315 166 :TNKLNFYISLGGPV 1j6pA 240 :LKDIPFFVSHNPAS T0315 183 :NAK 1j6pA 258 :GNG T0315 186 :QPKEVAKH 1j6pA 263 :PVQRMIEH T0315 198 :RLLVETDAPYL 1j6pA 273 :KVTLGTDGAAS T0315 220 :PARVTLVAEQIAEL 1j6pA 286 :SLNLFFEMRLASLL T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1j6pA 306 :RNLDVNTCLKMVTYDGAQAMGFK Number of specific fragments extracted= 18 number of extra gaps= 1 total=56 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1kcxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1kcxA expands to /projects/compbio/data/pdb/1kcx.pdb.gz 1kcxA:# T0315 read from 1kcxA/merged-good-all-a2m # 1kcxA read from 1kcxA/merged-good-all-a2m # adding 1kcxA to template set # found chain 1kcxA in template set T0315 1 :MLIDTHVHLND 1kcxA 68 :GGIDVNTYLQK T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1kcxA 86 :ADDFFQGTKAALAGGTTMIIDHVV T0315 39 :NKST 1kcxA 111 :EPGS T0315 43 :IERAMKLIDEY 1kcxA 120 :FEKWHEAADTK T0315 56 :LYGIIGWHPV 1kcxA 131 :SCCDYSLHVD T0315 67 :AIDFTEEHLEWIESLAQHPKVIGIGEM 1kcxA 141 :ITSWYDGVREELEVLVQDKGVNSFQVY T0315 97 :YHW 1kcxA 168 :MAY T0315 100 :DKSP 1kcxA 172 :DLYQ T0315 107 :QKEVFRKQIALAKRLKLPIIIHNRE 1kcxA 177 :SDSQLYEAFTFLKGLGAVILVHAEN T0315 132 :ATQDCIDILLEE 1kcxA 235 :AVFRAIAIAGRI T0315 146 :EEVGGIM 1kcxA 247 :NCPVYIT T0315 158 :SP 1kcxA 257 :SK T0315 160 :EIADIVTN 1kcxA 262 :DIIALARK T0315 169 :LN 1kcxA 270 :KG T0315 171 :FYIS 1kcxA 273 :LVFG T0315 177 :GPVTFKNAKQPKEVAKHV 1kcxA 285 :TDGTHYWSKNWAKAAAFV T0315 207 :YLSPHPYRGK 1kcxA 303 :TSPPLSPDPT T0315 217 :RNEPARVTLVAEQIAELKG 1kcxA 355 :VNGIEERMTVVWDKAVATG T0315 236 :LSYEEVCEQTTKNAEKLFNL 1kcxA 375 :MDENQFVAVTSTNAAKIFNL Number of specific fragments extracted= 19 number of extra gaps= 0 total=75 Number of alignments=4 # 1kcxA read from 1kcxA/merged-good-all-a2m # found chain 1kcxA in template set Warning: unaligning (T0315)S237 because last residue in template chain is (1kcxA)G490 T0315 1 :MLIDTHVHLND 1kcxA 68 :GGIDVNTYLQK T0315 15 :DD 1kcxA 81 :QG T0315 17 :DLSEVITRAREAGVDRMFVVGFN 1kcxA 88 :DFFQGTKAALAGGTTMIIDHVVP T0315 40 :KSTIERAMKLIDEYDFLYGIIGWH 1kcxA 117 :LTSFEKWHEAADTKSCCDYSLHVD T0315 67 :AIDFTEEHLEWIESLAQHPKVIGIGEM 1kcxA 141 :ITSWYDGVREELEVLVQDKGVNSFQVY T0315 95 :LDYHWDKSPA 1kcxA 168 :MAYKDLYQMS T0315 108 :KEVFRKQIALAKRLKLPIIIHNREA 1kcxA 178 :DSQLYEAFTFLKGLGAVILVHAENG T0315 134 :QDCIDILLEEHAEE 1kcxA 203 :DLIAQEQKRILEMG T0315 155 :FSGSP 1kcxA 217 :ITGPE T0315 160 :EIADIVTN 1kcxA 234 :EAVFRAIA T0315 168 :KLNFYISLGGPVTFKNAKQPKEVAKHVS 1kcxA 245 :RINCPVYITKVMSKSAADIIALARKKGP T0315 198 :RLLVE 1kcxA 273 :LVFGE T0315 203 :TDAPYL 1kcxA 285 :TDGTHY T0315 214 :RGK 1kcxA 291 :WSK T0315 217 :RNEPARVTLVAEQIAEL 1kcxA 472 :KPFPEHLYQRVRIRSKV T0315 236 :L 1kcxA 489 :F Number of specific fragments extracted= 16 number of extra gaps= 0 total=91 Number of alignments=5 # 1kcxA read from 1kcxA/merged-good-all-a2m # found chain 1kcxA in template set Warning: unaligning (T0315)G235 because last residue in template chain is (1kcxA)G490 T0315 2 :LIDTHVHLND 1kcxA 69 :GIDVNTYLQK T0315 14 :YDD 1kcxA 80 :SQG T0315 17 :DLSEVITRAREAGVDRMFVVGFN 1kcxA 88 :DFFQGTKAALAGGTTMIIDHVVP T0315 40 :KSTIERAMKLIDEYDFLYGIIGWH 1kcxA 117 :LTSFEKWHEAADTKSCCDYSLHVD T0315 67 :AIDFTEEHLEWIESLAQHPKVIGIGEMGLDYHWDKSPADVQKEVFR 1kcxA 141 :ITSWYDGVREELEVLVQDKGVNSFQVYMAYKDLYQMSDSQLYEAFT T0315 117 :LAKRLKLPIIIHNRE 1kcxA 187 :FLKGLGAVILVHAEN T0315 133 :TQDCIDILLEEHAEE 1kcxA 202 :GDLIAQEQKRILEMG T0315 159 :PEIADI 1kcxA 237 :FRAIAI T0315 166 :TNKLNFYISLGGPVT 1kcxA 243 :AGRINCPVYITKVMS T0315 185 :KQPKEVAKH 1kcxA 258 :KSAADIIAL T0315 196 :MERLLVE 1kcxA 271 :GPLVFGE T0315 203 :TDAPYLSPHP 1kcxA 285 :TDGTHYWSKN T0315 213 :YRGKRNEPARVTLVAEQIAELK 1kcxA 468 :FIPRKPFPEHLYQRVRIRSKVF Number of specific fragments extracted= 13 number of extra gaps= 0 total=104 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yrrA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yrrA expands to /projects/compbio/data/pdb/1yrr.pdb.gz 1yrrA:Skipped atom 62, because occupancy 0.5 <= existing 0.500 in 1yrrA Skipped atom 64, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 66, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 68, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 847, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 849, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 851, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 872, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 874, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 876, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 878, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 880, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 882, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 884, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 985, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 987, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 989, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1181, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1183, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1185, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1187, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1588, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1590, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1592, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1704, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1706, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1708, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1710, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1712, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1714, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1716, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1832, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1834, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1836, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 1838, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2009, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2011, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2013, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2015, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2459, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2461, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2463, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2660, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2662, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2664, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2666, because occupancy 0.500 <= existing 0.500 in 1yrrA Skipped atom 2668, because occupancy 0.500 <= existing 0.500 in 1yrrA # T0315 read from 1yrrA/merged-good-all-a2m # 1yrrA read from 1yrrA/merged-good-all-a2m # adding 1yrrA to template set # found chain 1yrrA in template set Warning: unaligning (T0315)D66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yrrA)N144 Warning: unaligning (T0315)A67 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yrrA)P145 Warning: unaligning (T0315)N129 because of BadResidue code BAD_PEPTIDE in next template residue (1yrrA)S196 Warning: unaligning (T0315)R130 because of BadResidue code BAD_PEPTIDE at template residue (1yrrA)S196 T0315 1 :MLIDTHVH 1yrrA 54 :GFIDVQLN T0315 9 :LNDEQY 1yrrA 68 :FNDTAE T0315 15 :DDDLSEVITRAREAGVDRMFVV 1yrrA 77 :VETLEIMQKANEKSGCTNYLPT T0315 37 :GFNKSTIERAMKLIDEY 1yrrA 101 :TTSDELMKQGVRVMREY T0315 54 :D 1yrrA 122 :P T0315 55 :FLYGIIGWHPV 1yrrA 124 :QALGLHLEGPW T0315 68 :IDFTEEHLEWIESLAQHPKVIGIGEMGLDYHW 1yrrA 146 :NFVRKPDAALVDFLCENADVITKVTLAPEMVP T0315 112 :RKQIALAKRLKLPIIIH 1yrrA 178 :AEVISKLANAGIVVSAG T0315 131 :EATQDCIDILLEEHA 1yrrA 197 :NATLKEAKAGFRAGI T0315 149 :GGIMHSF 1yrrA 212 :TFATHLY T0315 156 :SGSPEIADIVTNKLNFYISLGGPVTFKNAKQPKEVAKHVS 1yrrA 226 :GREPGLAGAILDEADIYCGIIADGLHVDYANIRNAKRLKG T0315 197 :ERLLVETD 1yrrA 266 :DKLCLVTD T0315 205 :APY 1yrrA 276 :APA T0315 208 :LSPHPYRGK 1yrrA 282 :IEQFIFAGK T0315 217 :RNEPARVTLVAEQI 1yrrA 311 :LTMIEGVRNLVEHC T0315 235 :GLSYEEVCEQTTKNAEKLFNL 1yrrA 325 :GIALDEVLRMATLYPARAIGV Number of specific fragments extracted= 16 number of extra gaps= 2 total=120 Number of alignments=7 # 1yrrA read from 1yrrA/merged-good-all-a2m # found chain 1yrrA in template set Warning: unaligning (T0315)P64 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yrrA)P145 Warning: unaligning (T0315)H128 because of BadResidue code BAD_PEPTIDE in next template residue (1yrrA)S196 Warning: unaligning (T0315)N129 because of BadResidue code BAD_PEPTIDE at template residue (1yrrA)S196 T0315 2 :LIDTHVHL 1yrrA 55 :FIDVQLNG T0315 10 :NDEQ 1yrrA 70 :DTAE T0315 17 :DLSEVITRAREAGVDRM 1yrrA 79 :TLEIMQKANEKSGCTNY T0315 34 :FVVGFNKSTIERAMKLIDEY 1yrrA 98 :TLITTSDELMKQGVRVMREY T0315 54 :D 1yrrA 122 :P T0315 55 :FLYGIIG 1yrrA 126 :LGLHLEG T0315 63 :H 1yrrA 134 :W T0315 65 :VDAIDFTEEHLEWIESLA 1yrrA 146 :NFVRKPDAALVDFLCENA T0315 85 :PKVIGIGEM 1yrrA 164 :DVITKVTLA T0315 95 :LDYHW 1yrrA 173 :PEMVP T0315 112 :RKQIALAKRLKLPIII 1yrrA 178 :AEVISKLANAGIVVSA T0315 130 :REATQDC 1yrrA 197 :NATLKEA T0315 138 :DILLEEHA 1yrrA 204 :KAGFRAGI T0315 149 :GGIMHSF 1yrrA 212 :TFATHLY T0315 156 :SGSPEIADIVTNKLNFYISLGGPVTFKNAKQPKEVAKHVS 1yrrA 226 :GREPGLAGAILDEADIYCGIIADGLHVDYANIRNAKRLKG T0315 197 :ERLLVETDAPYLSPHPYRGK 1yrrA 266 :DKLCLVTDATAPAGANIEQF T0315 219 :EPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 1yrrA 309 :SSLTMIEGVRNLVEHCGIALDEVLRMATLYPARAIGV Number of specific fragments extracted= 17 number of extra gaps= 2 total=137 Number of alignments=8 # 1yrrA read from 1yrrA/merged-good-all-a2m # found chain 1yrrA in template set Warning: unaligning (T0315)V65 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yrrA)L137 Warning: unaligning (T0315)D66 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yrrA)L137 Warning: unaligning (T0315)D69 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1yrrA)T142 Warning: unaligning (T0315)T71 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1yrrA)T142 Warning: unaligning (T0315)N129 because of BadResidue code BAD_PEPTIDE in next template residue (1yrrA)S196 Warning: unaligning (T0315)R130 because of BadResidue code BAD_PEPTIDE at template residue (1yrrA)S196 T0315 2 :LIDTHVH 1yrrA 55 :FIDVQLN T0315 10 :NDEQ 1yrrA 70 :DTAE T0315 14 :YDDDLSEVITRAREAGVDRMFVVGF 1yrrA 76 :SVETLEIMQKANEKSGCTNYLPTLI T0315 39 :NKSTIERAMKLI 1yrrA 103 :SDELMKQGVRVM T0315 51 :DEYDF 1yrrA 119 :AKHPN T0315 56 :LYGIIGWHP 1yrrA 127 :GLHLEGPWL T0315 67 :AI 1yrrA 138 :VK T0315 72 :EEHLEWIESLA 1yrrA 153 :AALVDFLCENA T0315 85 :PKVIGI 1yrrA 164 :DVITKV T0315 92 :EMGLDYHW 1yrrA 170 :TLAPEMVP T0315 112 :RKQIALAKRLKLPIIIH 1yrrA 178 :AEVISKLANAGIVVSAG T0315 131 :EATQDCIDILLEEH 1yrrA 197 :NATLKEAKAGFRAG T0315 148 :VGGIMHSF 1yrrA 211 :ITFATHLY T0315 156 :SGSPEIADIVTNKLNFYISLGGPVTFKNAKQPKEVAKHV 1yrrA 226 :GREPGLAGAILDEADIYCGIIADGLHVDYANIRNAKRLK T0315 196 :MERLLVETDAPYLSPHP 1yrrA 265 :GDKLCLVTDATAPAGAN T0315 214 :RGKR 1yrrA 303 :NGTL T0315 218 :NEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 1yrrA 308 :GSSLTMIEGVRNLVEHCGIALDEVLRMATLYPARAIGV Number of specific fragments extracted= 17 number of extra gaps= 2 total=154 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w3iA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1w3iA/merged-good-all-a2m # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0315)L56 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0315)Y57 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0315)M93 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0315)L199 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0315)L200 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0315 2 :LIDTHVHLNDEQY 1w3iA 4 :IITPIITPFTKDN T0315 15 :DDDLSEVITRAREAGVDRMFVV 1w3iA 20 :KEKLKIHAENLIRKGIDKLFVN T0315 37 :GFNKSTIERAMKLI 1w3iA 49 :SLSPEEKLENLKAV T0315 51 :DEYDF 1w3iA 64 :DVTNK T0315 58 :GIIG 1w3iA 71 :FQVG T0315 68 :IDFTEEHLEWIE 1w3iA 75 :GLNLDDAIRLAK T0315 81 :LAQHPKVIGIG 1w3iA 87 :LSKDFDIVGIA T0315 95 :LDYHWDKSPADVQKEVFRKQIAL 1w3iA 100 :APYYYPRMSEKHLVKYFKTLCEV T0315 122 :KLPIIIHNRE 1w3iA 124 :PHPVYLYNYP T0315 134 :QDC 1w3iA 134 :TAT T0315 137 :IDILLEE 1w3iA 142 :AKVAKEI T0315 146 :EEVGGIMHS 1w3iA 149 :GCFTGVKDT T0315 156 :SGSPEIADIVTN 1w3iA 158 :IENIIHTLDYKR T0315 169 :LNFYISLG 1w3iA 172 :PNMLVYSG T0315 177 :GP 1w3iA 181 :DM T0315 186 :QPKEVAKHVSMER 1w3iA 183 :LIATVASTGLDGN T0315 201 :VETD 1w3iA 198 :AGSN T0315 207 :Y 1w3iA 202 :Y T0315 219 :EPARVTLVAEQIA 1w3iA 203 :LPEVTVTIKKLAM T0315 235 :GLSYEEVCEQTT 1w3iA 216 :ERKIDEALKLQF Number of specific fragments extracted= 20 number of extra gaps= 3 total=174 Number of alignments=10 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0315)L56 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0315)Y57 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0315)M93 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0315)T203 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0315)D204 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0315 2 :LIDTHVHLNDEQ 1w3iA 4 :IITPIITPFTKD T0315 17 :DLSEVITRAREAGVDRMFVVG 1w3iA 22 :KLKIHAENLIRKGIDKLFVNG T0315 38 :FNKSTIERAMKLIDEYD 1w3iA 50 :LSPEEKLENLKAVYDVT T0315 55 :F 1w3iA 68 :K T0315 58 :GIIG 1w3iA 71 :FQVG T0315 68 :IDFTEEHLEWI 1w3iA 75 :GLNLDDAIRLA T0315 80 :SLAQHPKVIGIG 1w3iA 86 :KLSKDFDIVGIA T0315 95 :LDYHWDKSPADVQKEVFRKQIAL 1w3iA 100 :APYYYPRMSEKHLVKYFKTLCEV T0315 122 :KLPIIIHN 1w3iA 124 :PHPVYLYN T0315 137 :IDILLEE 1w3iA 142 :AKVAKEI T0315 146 :EEVGGIMH 1w3iA 149 :GCFTGVKD T0315 155 :FSGSPEIADIVTN 1w3iA 157 :TIENIIHTLDYKR T0315 168 :KLNFYISLGGPVT 1w3iA 171 :NPNMLVYSGSDML T0315 187 :PKEVAKHVS 1w3iA 184 :IATVASTGL T0315 197 :E 1w3iA 193 :D T0315 201 :VE 1w3iA 194 :GN T0315 205 :APYL 1w3iA 198 :AGSN T0315 218 :NEPARVTLVAEQI 1w3iA 202 :YLPEVTVTIKKLA T0315 234 :KGLSYEEVCEQT 1w3iA 215 :MERKIDEALKLQ T0315 247 :KNAEKLF 1w3iA 227 :FLHDEVI Number of specific fragments extracted= 20 number of extra gaps= 3 total=194 Number of alignments=11 # 1w3iA read from 1w3iA/merged-good-all-a2m # found chain 1w3iA in training set Warning: unaligning (T0315)L56 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)I70 Warning: unaligning (T0315)Y57 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)I70 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1w3iA)Y99 Warning: unaligning (T0315)M93 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1w3iA)Y99 Warning: unaligning (T0315)T203 because of BadResidue code NON_PLANAR_PEPTIDE in next template residue (1w3iA)A197 Warning: unaligning (T0315)D204 because of BadResidue code NON_PLANAR_PEPTIDE at template residue (1w3iA)A197 T0315 1 :MLIDTHVHLNDEQ 1w3iA 4 :IITPIITPFTKDN T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 1w3iA 19 :DKEKLKIHAENLIRKGIDKLFVNG T0315 38 :FNKSTIERAMKLIDEYDF 1w3iA 50 :LSPEEKLENLKAVYDVTN T0315 58 :GIIGW 1w3iA 71 :FQVGG T0315 69 :DF 1w3iA 76 :LN T0315 75 :LEWIESLA 1w3iA 78 :LDDAIRLA T0315 83 :QHPKVIGIG 1w3iA 89 :KDFDIVGIA T0315 95 :LDYHWDKSPADVQKEVFRKQIAL 1w3iA 100 :APYYYPRMSEKHLVKYFKTLCEV T0315 121 :LKLPIIIHNREAT 1w3iA 123 :SPHPVYLYNYPTA T0315 137 :IDILLEEH 1w3iA 142 :AKVAKEIG T0315 147 :EVGGIMHSF 1w3iA 150 :CFTGVKDTI T0315 157 :GSPEIADI 1w3iA 159 :ENIIHTLD T0315 166 :TNKL 1w3iA 167 :YKRL T0315 170 :NFYISLGGPVT 1w3iA 173 :NMLVYSGSDML T0315 187 :PKEVAKH 1w3iA 184 :IATVAST T0315 197 :E 1w3iA 193 :D T0315 201 :VE 1w3iA 194 :GN T0315 205 :APYLSP 1w3iA 198 :AGSNYL T0315 223 :VTLVAEQIAELKGLSYEEVCEQT 1w3iA 204 :PEVTVTIKKLAMERKIDEALKLQ T0315 247 :KNAEKL 1w3iA 227 :FLHDEV Number of specific fragments extracted= 20 number of extra gaps= 3 total=214 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1w8sA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1w8sA expands to /projects/compbio/data/pdb/1w8s.pdb.gz 1w8sA:Skipped atom 267, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 269, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 271, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 273, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 790, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 792, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1672, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1674, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1676, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1678, because occupancy 0.350 <= existing 0.650 in 1w8sA Skipped atom 1680, because occupancy 0.350 <= existing 0.650 in 1w8sA # T0315 read from 1w8sA/merged-good-all-a2m # 1w8sA read from 1w8sA/merged-good-all-a2m # adding 1w8sA to template set # found chain 1w8sA in template set T0315 2 :LIDTHVH 1w8sA 19 :IILAYDH T0315 10 :NDEQY 1w8sA 30 :GPADF T0315 15 :DDDLSEVITRAREAGVDRMFVV 1w8sA 40 :SADPEYILRLARDAGFDGVVFQ T0315 47 :MKLIDEY 1w8sA 62 :RGIAEKY T0315 54 :DFLYGIIGWHPV 1w8sA 71 :GSVPLILKLNGK T0315 66 :D 1w8sA 97 :S T0315 75 :LEWIESL 1w8sA 98 :VEEAVSL T0315 86 :KVIGIGEM 1w8sA 105 :GASAVGYT T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNRE 1w8sA 113 :IYPGSGFEWKMFEELARIKRDAVKFDLPLVVESFP T0315 132 :ATQDCIDILLEEHA 1w8sA 160 :IVAYAARIALELGA T0315 149 :GGIMHSFSGSPEIADIVTNKLN 1w8sA 174 :DAMKIKYTGDPKTFSWAVKVAG T0315 171 :FYISLGGPVTFKNAKQPKEVAKHV 1w8sA 197 :VPVLMSGGPKTKTEEDFLKQVEGV T0315 196 :MERLLVETD 1w8sA 223 :AGALGIAVG T0315 205 :A 1w8sA 235 :W T0315 207 :YL 1w8sA 236 :QR T0315 221 :ARVTLVAEQIAEL 1w8sA 238 :RDALKFARALAEL Number of specific fragments extracted= 16 number of extra gaps= 0 total=230 Number of alignments=13 # 1w8sA read from 1w8sA/merged-good-all-a2m # found chain 1w8sA in template set T0315 3 :IDTHVHL 1w8sA 19 :IILAYDH T0315 10 :NDEQYDD 1w8sA 30 :GPADFMD T0315 17 :DLSEVITRAREAGVDRMFVV 1w8sA 42 :DPEYILRLARDAGFDGVVFQ T0315 47 :MKLIDEY 1w8sA 62 :RGIAEKY T0315 54 :DFLYGIIGWH 1w8sA 71 :GSVPLILKLN T0315 68 :IDFT 1w8sA 84 :TLYN T0315 75 :LEWIESL 1w8sA 98 :VEEAVSL T0315 84 :HPKVIGIGE 1w8sA 105 :GASAVGYTI T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1w8sA 114 :YPGSGFEWKMFEELARIKRDAVKFDLPLVVES T0315 130 :REATQDCI 1w8sA 155 :ETAPEIVA T0315 138 :DILLEEHA 1w8sA 166 :RIALELGA T0315 149 :GGIMHSFSGSPEIADIVTNKLN 1w8sA 174 :DAMKIKYTGDPKTFSWAVKVAG T0315 171 :FYISLGGPVTFKNAKQPKEVAKHV 1w8sA 197 :VPVLMSGGPKTKTEEDFLKQVEGV T0315 196 :MERLLVETD 1w8sA 223 :AGALGIAVG T0315 206 :P 1w8sA 236 :Q T0315 220 :PARVTLVAEQIAEL 1w8sA 237 :RRDALKFARALAEL Number of specific fragments extracted= 16 number of extra gaps= 0 total=246 Number of alignments=14 # 1w8sA read from 1w8sA/merged-good-all-a2m # found chain 1w8sA in template set T0315 2 :LIDTHVH 1w8sA 19 :IILAYDH T0315 10 :NDEQYDD 1w8sA 30 :GPADFMD T0315 17 :DLSEVITRAREAGVDRMFVV 1w8sA 42 :DPEYILRLARDAGFDGVVFQ T0315 40 :KSTIE 1w8sA 62 :RGIAE T0315 51 :DEYDF 1w8sA 67 :KYYDG T0315 56 :LYGIIGWHPVDAIDFT 1w8sA 75 :LILKLNGKTTLYNGEP T0315 75 :LEWIESL 1w8sA 98 :VEEAVSL T0315 86 :KVIGIGEMGLDYH 1w8sA 105 :GASAVGYTIYPGS T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHN 1w8sA 118 :GFEWKMFEELARIKRDAVKFDLPLVVES T0315 130 :REATQDCIDILLEEH 1w8sA 158 :PEIVAYAARIALELG T0315 148 :VGGIMHSFSGSPEIADIVTNKL 1w8sA 173 :ADAMKIKYTGDPKTFSWAVKVA T0315 170 :NFYISLGGPVTFKNAKQPKEVAKH 1w8sA 196 :KVPVLMSGGPKTKTEEDFLKQVEG T0315 195 :SMERLLVETD 1w8sA 222 :EAGALGIAVG T0315 213 :YRG 1w8sA 237 :RRD T0315 223 :VTLVAEQIAEL 1w8sA 240 :ALKFARALAEL Number of specific fragments extracted= 15 number of extra gaps= 0 total=261 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dosA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1dosA/merged-good-all-a2m # 1dosA read from 1dosA/merged-good-all-a2m # found chain 1dosA in training set Warning: unaligning (T0315)Y213 because of BadResidue code BAD_PEPTIDE in next template residue (1dosA)A231 Warning: unaligning (T0315)R214 because of BadResidue code BAD_PEPTIDE at template residue (1dosA)A231 T0315 12 :EQY 1dosA 4 :FDF T0315 15 :DDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYD 1dosA 14 :GDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVK T0315 55 :FLYGIIG 1dosA 55 :PVIVQFS T0315 75 :LEWIESLAQHP 1dosA 62 :NGGASFIAGKG T0315 95 :LD 1dosA 73 :VK T0315 100 :DKSP 1dosA 75 :SDVP T0315 104 :ADVQKEVFRKQIALAKRLKLPIIIHNRE 1dosA 83 :ILGAISGAHHVHQMAEHYGVPVILHTDH T0315 132 :ATQDCIDILLEEHA 1dosA 118 :WIDGLLDAGEKHFA T0315 146 :EEVGGIMHS 1dosA 134 :GKPLFSSHM T0315 155 :FSGSP 1dosA 146 :SEESL T0315 160 :EIADIVTN 1dosA 159 :KYLERMSK T0315 169 :LNFYISLGGPVTF 1dosA 167 :IGMTLEIELGCTG T0315 187 :PKEVAKHVS 1dosA 206 :YTELSKISP T0315 198 :RLLVETDAPYLSPHP 1dosA 215 :RFTIAASFGNVHGVY T0315 215 :GK 1dosA 232 :GN T0315 217 :RNEPARVTLVAEQIAEL 1dosA 235 :VLTPTILRDSQEYVSKK T0315 234 :KGLSYEEVCE 1dosA 267 :SGSTAQEIKD Number of specific fragments extracted= 17 number of extra gaps= 1 total=278 Number of alignments=16 # 1dosA read from 1dosA/merged-good-all-a2m # found chain 1dosA in training set Warning: unaligning (T0315)Y213 because of BadResidue code BAD_PEPTIDE in next template residue (1dosA)A231 Warning: unaligning (T0315)R214 because of BadResidue code BAD_PEPTIDE at template residue (1dosA)A231 T0315 11 :DEQYDD 1dosA 3 :IFDFVK T0315 17 :DLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYD 1dosA 16 :DVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVK T0315 55 :FLYGIIG 1dosA 55 :PVIVQFS T0315 75 :LEWIESLAQHP 1dosA 62 :NGGASFIAGKG T0315 95 :LD 1dosA 73 :VK T0315 99 :WDKSP 1dosA 75 :SDVPQ T0315 104 :ADVQKEVFRKQIALAKRLKLPIIIHN 1dosA 83 :ILGAISGAHHVHQMAEHYGVPVILHT T0315 130 :REATQDCIDILLEEH 1dosA 116 :LPWIDGLLDAGEKHF T0315 145 :AEEVGGIMHSF 1dosA 133 :TGKPLFSSHMI T0315 156 :SGSP 1dosA 147 :EESL T0315 160 :EIADIVTN 1dosA 159 :KYLERMSK T0315 169 :LNFYISLGGPVTF 1dosA 167 :IGMTLEIELGCTG T0315 184 :AKQPKEVAKHV 1dosA 199 :PEDVDYAYTEL T0315 195 :SMERLLVETDAPYLSPHP 1dosA 212 :ISPRFTIAASFGNVHGVY T0315 215 :GK 1dosA 232 :GN T0315 217 :RNEPARVTLVAEQIAELKGLS 1dosA 235 :VLTPTILRDSQEYVSKKHNLP Number of specific fragments extracted= 16 number of extra gaps= 1 total=294 Number of alignments=17 # 1dosA read from 1dosA/merged-good-all-a2m # found chain 1dosA in training set Warning: unaligning (T0315)Y213 because of BadResidue code BAD_PEPTIDE in next template residue (1dosA)A231 Warning: unaligning (T0315)R214 because of BadResidue code BAD_PEPTIDE at template residue (1dosA)A231 T0315 14 :YDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGW 1dosA 13 :TGDDVQKVFQVAKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFS T0315 75 :LEWIESLAQHP 1dosA 62 :NGGASFIAGKG T0315 97 :YHWDKSP 1dosA 73 :VKSDVPQ T0315 104 :ADVQKEVFRKQIALAKRLKLPIIIHN 1dosA 83 :ILGAISGAHHVHQMAEHYGVPVILHT T0315 130 :REATQDCIDILLEEHAE 1dosA 116 :LPWIDGLLDAGEKHFAA T0315 148 :VGGIMHSFSGSPEI 1dosA 139 :SSHMIDLSEESLQE T0315 162 :ADI 1dosA 161 :LER T0315 166 :TNKLNFYISLGGPVTFK 1dosA 164 :MSKIGMTLEIELGCTGG T0315 185 :KQ 1dosA 181 :EE T0315 187 :PKEVAKHVS 1dosA 206 :YTELSKISP T0315 198 :RLLVETDAPYLSPHP 1dosA 215 :RFTIAASFGNVHGVY T0315 215 :G 1dosA 232 :G T0315 216 :KRNEPARVTLVAEQIAELKGLS 1dosA 234 :VVLTPTILRDSQEYVSKKHNLP Number of specific fragments extracted= 13 number of extra gaps= 1 total=307 Number of alignments=18 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vflA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vflA expands to /projects/compbio/data/pdb/1vfl.pdb.gz 1vflA:# T0315 read from 1vflA/merged-good-all-a2m # 1vflA read from 1vflA/merged-good-all-a2m # adding 1vflA to template set # found chain 1vflA in template set Warning: unaligning (T0315)N254 because last residue in template chain is (1vflA)R349 T0315 1 :MLIDTHVHLND 1vflA 7 :PKVELHVHLDG T0315 14 :Y 1vflA 18 :A T0315 18 :LSEVITRAREAGVDRMFVV 1vflA 80 :AYEFVEMKAKDGVVYVEVR T0315 37 :GFNK 1vflA 105 :ANSK T0315 41 :ST 1vflA 110 :EP T0315 43 :IERAMKLIDEYD 1vflA 131 :NQGLQEGERDFG T0315 55 :FLYGIIGWHPV 1vflA 144 :KVRSILCCMRH T0315 67 :AIDFTEEHLEWIESLAQHP 1vflA 155 :QPSWSSEVVELCKKYREQT T0315 87 :VIGIGEMG 1vflA 174 :VVAIDLAG T0315 96 :DYHWDKSP 1vflA 182 :DETIEGSS T0315 104 :A 1vflA 191 :F T0315 109 :EVFRKQIALAKRLKLPIIIHNRE 1vflA 192 :PGHVQAYAEAVKSGVHRTVHAGE T0315 132 :ATQDCIDILLEEH 1vflA 216 :GSANVVKEAVDTL T0315 147 :EVGGIMHSF 1vflA 229 :KTERLGHGY T0315 156 :SGSPEIADIVTN 1vflA 240 :LEDTTLYNRLRQ T0315 169 :LNFYISLG 1vflA 252 :ENMHFEIC T0315 177 :GPV 1vflA 267 :GAW T0315 182 :KNAKQ 1vflA 270 :KPDTE T0315 187 :PKEVAKH 1vflA 277 :VIRFKND T0315 198 :RLLVETDAP 1vflA 286 :NYSLNTDDP T0315 220 :PARVTLVAEQIAELKGLSYEEV 1vflA 298 :KSTLDTDYQMTKKDMGFTEEEF T0315 242 :CEQTTKNAEKLF 1vflA 337 :KKELLDLLYKAY Number of specific fragments extracted= 22 number of extra gaps= 0 total=329 Number of alignments=19 # 1vflA read from 1vflA/merged-good-all-a2m # found chain 1vflA in template set Warning: unaligning (T0315)N254 because last residue in template chain is (1vflA)R349 T0315 2 :LIDTHVHLNDEQYDD 1vflA 94 :YVEVRYSPHLLANSK T0315 17 :DLSEVITRA 1vflA 122 :TPDEVVSLV T0315 43 :IERAMKLIDEYD 1vflA 131 :NQGLQEGERDFG T0315 55 :FLYGIIGWHP 1vflA 144 :KVRSILCCMR T0315 66 :DAIDFTEEHLEWIESLAQHP 1vflA 154 :HQPSWSSEVVELCKKYREQT T0315 87 :VIGIGEMG 1vflA 174 :VVAIDLAG T0315 96 :DYHWDKSP 1vflA 182 :DETIEGSS T0315 104 :ADV 1vflA 191 :FPG T0315 111 :FRKQIALAKRLKLPIIIHN 1vflA 194 :HVQAYAEAVKSGVHRTVHA T0315 132 :ATQDCIDILLEE 1vflA 216 :GSANVVKEAVDT T0315 147 :EVGGIMHSF 1vflA 229 :KTERLGHGY T0315 157 :GSPEIADIVTN 1vflA 241 :EDTTLYNRLRQ T0315 169 :LNFYISLG 1vflA 252 :ENMHFEIC T0315 182 :KNAKQ 1vflA 270 :KPDTE T0315 187 :PKEVAKH 1vflA 277 :VIRFKND T0315 198 :RLLVETDAP 1vflA 286 :NYSLNTDDP T0315 219 :EPARVTLVAEQIAELKGLSYEEV 1vflA 297 :FKSTLDTDYQMTKKDMGFTEEEF T0315 242 :CEQTTKNAEKLF 1vflA 337 :KKELLDLLYKAY Number of specific fragments extracted= 18 number of extra gaps= 0 total=347 Number of alignments=20 # 1vflA read from 1vflA/merged-good-all-a2m # found chain 1vflA in template set Warning: unaligning (T0315)N254 because last residue in template chain is (1vflA)R349 T0315 2 :LIDTHVHLNDEQYDD 1vflA 94 :YVEVRYSPHLLANSK T0315 17 :DLSEVITRARE 1vflA 122 :TPDEVVSLVNQ T0315 45 :RAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHP 1vflA 133 :GLQEGERDFGVKVRSILCCMRHQPSWSSEVVELCKKYREQT T0315 87 :VIGIGEMGLDYHWDKSPADVQKEVFRK 1vflA 174 :VVAIDLAGDETIEGSSLFPGHVQAYAE T0315 118 :AKRLKLPIIIHN 1vflA 201 :AVKSGVHRTVHA T0315 132 :ATQDCIDILLEEH 1vflA 216 :GSANVVKEAVDTL T0315 147 :EVGGIMHSFS 1vflA 229 :KTERLGHGYH T0315 157 :GSPEIADI 1vflA 241 :EDTTLYNR T0315 166 :TNKLNFYISLGGPV 1vflA 249 :LRQENMHFEICPWS T0315 180 :TFKNAKQ 1vflA 268 :AWKPDTE T0315 187 :PKEVAKH 1vflA 277 :VIRFKND T0315 198 :RLLVETDAP 1vflA 286 :NYSLNTDDP T0315 220 :PARVTLVAEQIAELKGLSYEEV 1vflA 298 :KSTLDTDYQMTKKDMGFTEEEF T0315 242 :CEQTTKNAEKLF 1vflA 337 :KKELLDLLYKAY Number of specific fragments extracted= 14 number of extra gaps= 0 total=361 Number of alignments=21 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yixA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yixA expands to /projects/compbio/data/pdb/1yix.pdb.gz 1yixA:# T0315 read from 1yixA/merged-good-all-a2m # 1yixA read from 1yixA/merged-good-all-a2m # adding 1yixA to template set # found chain 1yixA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1yixA)E94 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1yixA)E94 T0315 2 :LIDTHVHLNDEQY 1yixA 3 :LVDSHCHLDGLDY T0315 15 :DDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTE 1yixA 19 :HKDVDDVLAKAAARDVKFCLAVATTLPSYLHMRDLVGERDNVVFSCGVHPLNQNDPYD T0315 75 :LEWIESLAQHPKVIGI 1yixA 77 :VEDLRRLAAEEGVVAL T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADIVTN 1yixA 95 :TGLDYYYTPETKVRQQESFIHHIQIGRELNKPVIVHTRDARADTLAILREEKVTDCGGVLHCFTEDRETAGKLLD T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1yixA 170 :LGFYISFSGIVTFRNAEQLRDAARYVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAEYMAVLKGVAVEELAQVTTDNFARLFHID Number of specific fragments extracted= 5 number of extra gaps= 1 total=366 Number of alignments=22 # 1yixA read from 1yixA/merged-good-all-a2m # found chain 1yixA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1yixA)E94 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1yixA)E94 T0315 2 :LIDTHVHLNDEQYDD 1yixA 3 :LVDSHCHLDGLDYES T0315 17 :DLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTE 1yixA 21 :DVDDVLAKAAARDVKFCLAVATTLPSYLHMRDLVGERDNVVFSCGVHPLNQNDPYD T0315 75 :LEWIESLAQHPKVIGI 1yixA 77 :VEDLRRLAAEEGVVAL T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADIVTN 1yixA 95 :TGLDYYYTPETKVRQQESFIHHIQIGRELNKPVIVHTRDARADTLAILREEKVTDCGGVLHCFTEDRETAGKLLD T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1yixA 170 :LGFYISFSGIVTFRNAEQLRDAARYVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAEYMAVLKGVAVEELAQVTTDNFARLFHID Number of specific fragments extracted= 5 number of extra gaps= 1 total=371 Number of alignments=23 # 1yixA read from 1yixA/merged-good-all-a2m # found chain 1yixA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1yixA)E94 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1yixA)E94 T0315 2 :LIDTHVHLNDEQYDD 1yixA 3 :LVDSHCHLDGLDYES T0315 17 :DLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTE 1yixA 21 :DVDDVLAKAAARDVKFCLAVATTLPSYLHMRDLVGERDNVVFSCGVHPLNQNDPYD T0315 75 :LEWIESLAQHPKVIGI 1yixA 77 :VEDLRRLAAEEGVVAL T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADI 1yixA 95 :TGLDYYYTPETKVRQQESFIHHIQIGRELNKPVIVHTRDARADTLAILREEKVTDCGGVLHCFTEDRETAGK T0315 166 :TNKLNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLNS 1yixA 167 :LLDLGFYISFSGIVTFRNAEQLRDAARYVPLDRLLVETDSPYLAPVPHRGKENQPAMVRDVAEYMAVLKGVAVEELAQVTTDNFARLFHIDA Number of specific fragments extracted= 5 number of extra gaps= 1 total=376 Number of alignments=24 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fkx/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fkx expands to /projects/compbio/data/pdb/1fkx.pdb.gz 1fkx:Warning: there is no chain 1fkx will retry with 1fkxA # T0315 read from 1fkx/merged-good-all-a2m # 1fkx read from 1fkx/merged-good-all-a2m # adding 1fkx to template set # found chain 1fkx in template set T0315 1 :MLIDTHVHLNDEQY 1fkx 10 :PKVELHVHLDGAIK T0315 18 :LSEVITRAREAGVDRMFVV 1fkx 83 :AYEFVEMKAKEGVVYVEVR T0315 37 :GFNKST 1fkx 111 :KVDPMP T0315 43 :IERAMKLIDEYD 1fkx 134 :NQGLQEGEQAFG T0315 55 :FLYGIIGWHPV 1fkx 147 :KVRSILCCMRH T0315 67 :AIDFTEEHLEWIESLAQHP 1fkx 158 :QPSWSLEVLELCKKYNQKT T0315 87 :VIGIGEMG 1fkx 177 :VVAMDLAG T0315 96 :DYHWDKS 1fkx 185 :DETIEGS T0315 104 :A 1fkx 194 :F T0315 109 :EVFRKQIALAKRLKLPIIIHNRE 1fkx 195 :PGHVEAYEGAVKNGIHRTVHAGE T0315 132 :ATQDCIDILLEEH 1fkx 219 :GSPEVVREAVDIL T0315 147 :EVGGIMHSFSG 1fkx 232 :KTERVGHGYHT T0315 158 :SPEIADIVTN 1fkx 245 :DEALYNRLLK T0315 169 :LNFYISLG 1fkx 255 :ENMHFEVC T0315 177 :GPVTFKNAKQPKEVAKH 1fkx 270 :GAWDPKTTHAVVRFKND T0315 198 :RLLVETDAP 1fkx 289 :NYSLNTDAP T0315 223 :VTLVAEQIAELKGLSYEEVCE 1fkx 304 :LDTDYQMTKKDMGFTEEEFKR T0315 245 :TTKNAEK 1fkx 325 :LNINAAK Number of specific fragments extracted= 18 number of extra gaps= 0 total=394 Number of alignments=25 # 1fkx read from 1fkx/merged-good-all-a2m # found chain 1fkx in template set T0315 1 :MLIDTHVHLND 1fkx 10 :PKVELHVHLDG T0315 15 :DD 1fkx 24 :PE T0315 18 :LSEVITRAREAGVDR 1fkx 83 :AYEFVEMKAKEGVVY T0315 58 :GIIGWHPVDAIDFT 1fkx 98 :VEVRYSPHLLANSK T0315 72 :EEHLEWIESLAQ 1fkx 127 :DDVVDLVNQGLQ T0315 84 :H 1fkx 145 :G T0315 86 :KVIGIGEMGL 1fkx 147 :KVRSILCCMR T0315 101 :KS 1fkx 157 :HQ T0315 108 :KEVFRKQIALAKRL 1fkx 159 :PSWSLEVLELCKKY T0315 123 :LPIIIHN 1fkx 176 :TVVAMDL T0315 133 :TQDCIDILLEEHAEEVGGIMHSF 1fkx 194 :FPGHVEAYEGAVKNGIHRTVHAG T0315 156 :SGSPEIADIVTNKLNFYISLGGPVTF 1fkx 218 :VGSPEVVREAVDILKTERVGHGYHTI T0315 182 :KNAKQPKEVAKH 1fkx 275 :KTTHAVVRFKND T0315 198 :RLLVETDAP 1fkx 289 :NYSLNTDAP T0315 221 :AR 1fkx 298 :LI T0315 223 :VTLVAEQIAELKGLSYEEVCE 1fkx 304 :LDTDYQMTKKDMGFTEEEFKR T0315 245 :TTKNAEK 1fkx 325 :LNINAAK Number of specific fragments extracted= 17 number of extra gaps= 0 total=411 Number of alignments=26 # 1fkx read from 1fkx/merged-good-all-a2m # found chain 1fkx in template set T0315 2 :LIDTHVHLNDEQ 1fkx 11 :KVELHVHLDGAI T0315 17 :DLSEVITRAREAGVD 1fkx 23 :KPETILYFGKKRGIA T0315 35 :VVGFNKST 1fkx 38 :LPADTVEE T0315 43 :IERAMKLIDEYDFLYGIIGWHPVDAIDFT 1fkx 83 :AYEFVEMKAKEGVVYVEVRYSPHLLANSK T0315 72 :EEHLEWIESLA 1fkx 127 :DDVVDLVNQGL T0315 84 :HPKVIGIGEMGLD 1fkx 145 :GIKVRSILCCMRH T0315 107 :QKEVFRKQIALAKRL 1fkx 158 :QPSWSLEVLELCKKY T0315 122 :KLPIIIHN 1fkx 175 :KTVVAMDL T0315 132 :ATQDCIDILLEEHAEEVGGIMHSFS 1fkx 193 :LFPGHVEAYEGAVKNGIHRTVHAGE T0315 157 :GSPEIADI 1fkx 219 :GSPEVVRE T0315 166 :TNKL 1fkx 227 :AVDI T0315 170 :NFYISLGGPVTFKNAKQPKEVAKH 1fkx 232 :KTERVGHGYHTIEDEALYNRLLKE T0315 198 :RLLVETD 1fkx 256 :NMHFEVC T0315 207 :YLSPH 1fkx 269 :TGAWD T0315 222 :RVTLVAEQIAELKGLSYEEVC 1fkx 303 :TLDTDYQMTKKDMGFTEEEFK T0315 244 :QTTKNAEK 1fkx 324 :RLNINAAK Number of specific fragments extracted= 16 number of extra gaps= 0 total=427 Number of alignments=27 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pta/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1pta expands to /projects/compbio/data/pdb/1pta.pdb.gz 1pta:Warning: there is no chain 1pta will retry with 1ptaA # T0315 read from 1pta/merged-good-all-a2m # 1pta read from 1pta/merged-good-all-a2m # adding 1pta to template set # found chain 1pta in template set Warning: unaligning (T0315)D100 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)G174 Warning: unaligning (T0315)K101 because of BadResidue code BAD_PEPTIDE at template residue (1pta)G174 Warning: unaligning (T0315)N183 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1pta)A270 Warning: unaligning (T0315)A184 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1pta)A270 Warning: unaligning (T0315)P210 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)M317 Warning: unaligning (T0315)H211 because of BadResidue code BAD_PEPTIDE at template residue (1pta)M317 T0315 1 :MLIDTHVHLNDEQY 1pta 50 :GFTLTHEHICGSSA T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1pta 80 :AEKAVRGLRRARAAGVRTIVDVST T0315 39 :NK 1pta 105 :DI T0315 41 :STIERAMKLIDEYD 1pta 108 :RDVSLLAEVSRAAD T0315 55 :FLYGIIGWHPV 1pta 123 :HIVAATGLWFD T0315 66 :DA 1pta 142 :SV T0315 72 :EEHLEWIESLA 1pta 144 :EELTQFFLREI T0315 83 :QHPKVIG 1pta 159 :EDTGIRA T0315 91 :GEM 1pta 166 :GII T0315 96 :DYHW 1pta 169 :KVAT T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHNRE 1pta 175 :KATPFQELVLKAAARASLATGVPVTTHTAA T0315 132 :ATQDCIDILLEEHAEEVGG 1pta 208 :DGEQQAAIFESEGLSPSRV T0315 151 :IMHS 1pta 228 :IGHS T0315 155 :FSGSPEIADIVTN 1pta 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTFK 1pta 246 :RGYLIGLDHIPHSA T0315 185 :KQ 1pta 271 :LL T0315 187 :PKEVAKHVSMERLLVETDA 1pta 284 :IKALIDQGYMKQILVSNDW T0315 206 :PYLS 1pta 312 :NIMD T0315 212 :PYRGKRNEPARVTLVAEQIAEL 1pta 318 :DRVNPDGMAFIPLRVIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNL 1pta 340 :GVPQETLAGITVTNPARFLSP Number of specific fragments extracted= 20 number of extra gaps= 3 total=447 Number of alignments=28 # 1pta read from 1pta/merged-good-all-a2m # found chain 1pta in template set Warning: unaligning (T0315)D100 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)G174 Warning: unaligning (T0315)K101 because of BadResidue code BAD_PEPTIDE at template residue (1pta)G174 Warning: unaligning (T0315)P210 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)M317 Warning: unaligning (T0315)H211 because of BadResidue code BAD_PEPTIDE at template residue (1pta)M317 T0315 1 :MLIDTHVHLNDEQ 1pta 50 :GFTLTHEHICGSS T0315 15 :DD 1pta 63 :AG T0315 17 :DLSEVITRAREAGVDRMFVVGF 1pta 82 :KAVRGLRRARAAGVRTIVDVST T0315 42 :TIERAMKLIDEYD 1pta 109 :DVSLLAEVSRAAD T0315 55 :FLYGIIGWH 1pta 123 :HIVAATGLW T0315 64 :PVDAIDFT 1pta 135 :PLSMRLRS T0315 72 :EEHLEWIESLAQHP 1pta 144 :EELTQFFLREIQYG T0315 86 :KVIGIGEM 1pta 164 :RAGIIKVA T0315 99 :W 1pta 172 :T T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHN 1pta 175 :KATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1pta 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 1pta 230 :HS T0315 155 :FSGSPEIADIVTN 1pta 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1pta 246 :RGYLIGLDHIPHS T0315 182 :KNAKQPKEVAKHVSMERLLVETDA 1pta 279 :TRALLIKALIDQGYMKQILVSNDW T0315 206 :PYLS 1pta 312 :NIMD T0315 212 :PYRGKRNEPARVTLVAEQIAE 1pta 318 :DRVNPDGMAFIPLRVIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNL 1pta 339 :KGVPQETLAGITVTNPARFLSP Number of specific fragments extracted= 18 number of extra gaps= 2 total=465 Number of alignments=29 # 1pta read from 1pta/merged-good-all-a2m # found chain 1pta in template set Warning: unaligning (T0315)D100 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)G174 Warning: unaligning (T0315)K101 because of BadResidue code BAD_PEPTIDE at template residue (1pta)G174 Warning: unaligning (T0315)P210 because of BadResidue code BAD_PEPTIDE in next template residue (1pta)M317 Warning: unaligning (T0315)H211 because of BadResidue code BAD_PEPTIDE at template residue (1pta)M317 T0315 3 :IDTHVHL 1pta 52 :TLTHEHI T0315 10 :NDEQYDDDLSEVITRAREAGVDRMFVVGF 1pta 75 :SRKALAEKAVRGLRRARAAGVRTIVDVST T0315 43 :IERAMKLIDEYDF 1pta 110 :VSLLAEVSRAADV T0315 56 :LYGIIGWH 1pta 124 :IVAATGLW T0315 64 :PVDAIDFT 1pta 135 :PLSMRLRS T0315 72 :EEHLEWIESLA 1pta 144 :EELTQFFLREI T0315 84 :HPKVIGIG 1pta 164 :RAGIIKVA T0315 99 :W 1pta 172 :T T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHNREA 1pta 175 :KATPFQELVLKAAARASLATGVPVTTHTAAS T0315 133 :TQDCIDILLEEHAEEVGGIMHSFSG 1pta 209 :GEQQAAIFESEGLSPSRVCIGHSDD T0315 158 :SPEIADI 1pta 236 :DLSYLTA T0315 166 :TNKLNFYISLGGPVTFK 1pta 243 :LAARGYLIGLDHIPHSA T0315 184 :AKQPKEVAKHVSMERLLV 1pta 281 :ALLIKALIDQGYMKQILV T0315 207 :YLS 1pta 313 :IMD T0315 212 :PYRGKRNEPARVTLVAEQIAE 1pta 318 :DRVNPDGMAFIPLRVIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1pta 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 16 number of extra gaps= 2 total=481 Number of alignments=30 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1k1dA/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/T0315/1k1dA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1k1dA/merged-good-all-a2m.gz for input Trying 1k1dA/merged-good-all-a2m Error: Couldn't open file 1k1dA/merged-good-all-a2m or 1k1dA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1onwA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1onwA/merged-good-all-a2m # 1onwA read from 1onwA/merged-good-all-a2m # found chain 1onwA in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)C163 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onwA)C163 Warning: unaligning (T0315)L208 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)G303 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE in next template residue (1onwA)D322 Warning: unaligning (T0315)G235 because of BadResidue code BAD_PEPTIDE at template residue (1onwA)D322 T0315 1 :MLIDTHVHL 1onwA 63 :GFIDQHVHL T0315 10 :NDEQYDDDLS 1onwA 79 :GPTTRTPEVA T0315 22 :ITRAREAGVDRMFVV 1onwA 89 :LSRLTEAGVTSVVGL T0315 37 :GFNKST 1onwA 105 :GTDSIS T0315 43 :IERAMKLIDEY 1onwA 113 :PESLLAKTRAL T0315 54 :D 1onwA 127 :G T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESL 1onwA 129 :SAWMLTGAYHVPSRTITGSVEKDVAII T0315 85 :PKVIG 1onwA 156 :DRVIG T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLP 1onwA 164 :AISDHRSAAPDVYHLANMAAESRVGGLLGGKP T0315 125 :IIIHNRE 1onwA 198 :TVFHMGD T0315 132 :AT 1onwA 208 :AL T0315 135 :DCIDILLEEHA 1onwA 210 :QPIYDLLENCD T0315 146 :EEVGGIMHSFSGSP 1onwA 223 :ISKLLPTHVNRNVP T0315 160 :EIADIVTN 1onwA 239 :EQALEFAR T0315 169 :LNFYISLGGPVTFKN 1onwA 247 :KGGTIDITSSIDEPV T0315 186 :Q 1onwA 262 :A T0315 187 :PKEVAKH 1onwA 267 :IARAVQA T0315 194 :VSMERLLVETDAPY 1onwA 275 :IPLARVTLSSDGNG T0315 217 :RNEPARVTLVAEQIAEL 1onwA 304 :VAGFETLLETVQVLVKD T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1onwA 323 :FSISDALRPLTSSVAGFLNLT Number of specific fragments extracted= 20 number of extra gaps= 1 total=501 Number of alignments=31 # 1onwA read from 1onwA/merged-good-all-a2m # found chain 1onwA in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)C163 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onwA)C163 Warning: unaligning (T0315)L208 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)G303 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE in next template residue (1onwA)D322 Warning: unaligning (T0315)G235 because of BadResidue code BAD_PEPTIDE at template residue (1onwA)D322 T0315 2 :LIDTHVHL 1onwA 64 :FIDQHVHL T0315 11 :DEQYDDDLS 1onwA 80 :PTTRTPEVA T0315 22 :ITRAREAGVDRMFVV 1onwA 89 :LSRLTEAGVTSVVGL T0315 37 :GFN 1onwA 105 :GTD T0315 42 :TIERAMKLIDEY 1onwA 112 :HPESLLAKTRAL T0315 54 :D 1onwA 127 :G T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESL 1onwA 129 :SAWMLTGAYHVPSRTITGSVEKDVAII T0315 85 :PKVIG 1onwA 156 :DRVIG T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLP 1onwA 164 :AISDHRSAAPDVYHLANMAAESRVGGLLGGKP T0315 125 :IIIHN 1onwA 198 :TVFHM T0315 130 :REATQDCIDILLEEHAE 1onwA 206 :KKALQPIYDLLENCDVP T0315 147 :EVGGIMHSFS 1onwA 224 :SKLLPTHVNR T0315 158 :SP 1onwA 234 :NV T0315 160 :EIADIVTN 1onwA 239 :EQALEFAR T0315 169 :LNFYISLGGPVTF 1onwA 247 :KGGTIDITSSIDE T0315 184 :AKQPKEVAK 1onwA 260 :PVAPAEGIA T0315 193 :HVSMERLLVETDAPY 1onwA 274 :GIPLARVTLSSDGNG T0315 217 :RNEPARVTLVAEQIAEL 1onwA 304 :VAGFETLLETVQVLVKD T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1onwA 323 :FSISDALRPLTSSVAGFLNLT Number of specific fragments extracted= 19 number of extra gaps= 1 total=520 Number of alignments=32 # 1onwA read from 1onwA/merged-good-all-a2m # found chain 1onwA in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)C163 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onwA)C163 Warning: unaligning (T0315)L208 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onwA)G303 Warning: unaligning (T0315)K216 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onwA)G303 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE in next template residue (1onwA)D322 Warning: unaligning (T0315)G235 because of BadResidue code BAD_PEPTIDE at template residue (1onwA)D322 T0315 2 :LIDTHVHL 1onwA 64 :FIDQHVHL T0315 10 :NDEQYDD 1onwA 79 :GPTTRTP T0315 22 :ITRAREAGVDRMFVVGFN 1onwA 89 :LSRLTEAGVTSVVGLLGT T0315 40 :KS 1onwA 108 :SI T0315 43 :IERAMKLIDEYDF 1onwA 113 :PESLLAKTRALNE T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESL 1onwA 130 :AWMLTGAYHVPSRTITGSVEKDVAII T0315 85 :PKVIG 1onwA 156 :DRVIG T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLP 1onwA 164 :AISDHRSAAPDVYHLANMAAESRVGGLLGGKP T0315 125 :IIIHN 1onwA 198 :TVFHM T0315 130 :REATQDCIDILLEEHAEEVGGIMHSFSGSPEIADI 1onwA 206 :KKALQPIYDLLENCDVPISKLLPTHVNRNVPLFEQ T0315 166 :TNKL 1onwA 241 :ALEF T0315 170 :NFYISLGGPVT 1onwA 248 :GGTIDITSSID T0315 183 :NAKQPKEVA 1onwA 259 :EPVAPAEGI T0315 194 :VSMERLLVETDAPY 1onwA 275 :IPLARVTLSSDGNG T0315 217 :RNEPARVTLVAEQIAEL 1onwA 304 :VAGFETLLETVQVLVKD T0315 236 :LSYEEV 1onwA 323 :FSISDA Number of specific fragments extracted= 16 number of extra gaps= 1 total=536 Number of alignments=33 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hjsA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1hjsA expands to /projects/compbio/data/pdb/1hjs.pdb.gz 1hjsA:Skipped atom 1871, because occupancy 0.500 <= existing 0.500 in 1hjsA Skipped atom 1875, because occupancy 0.500 <= existing 0.500 in 1hjsA Skipped atom 1877, because occupancy 0.500 <= existing 0.500 in 1hjsA Skipped atom 1879, because occupancy 0.500 <= existing 0.500 in 1hjsA Skipped atom 1881, because occupancy 0.500 <= existing 0.500 in 1hjsA # T0315 read from 1hjsA/merged-good-all-a2m # 1hjsA read from 1hjsA/merged-good-all-a2m # adding 1hjsA to template set # found chain 1hjsA in template set T0315 21 :VITRAREAGVDRMFV 1hjsA 32 :LENILAANGVNTVRQ T0315 36 :VGFNKST 1hjsA 48 :VWVNPAD T0315 43 :IERAMKLIDEY 1hjsA 59 :LDYNIAIAKRA T0315 55 :FLYGIIGWHPV 1hjsA 73 :GLGVYIDFHYS T0315 66 :DAIDFTEEHLEWIESL 1hjsA 97 :GWPSDIDNLSWKLYNY T0315 111 :FRKQIALAKRLKLP 1hjsA 113 :TLDAANKLQNAGIQ T0315 125 :III 1hjsA 129 :IVS T0315 129 :NRE 1hjsA 132 :IGN T0315 132 :ATQDCIDILLE 1hjsA 149 :NWANIARLLHS T0315 143 :EH 1hjsA 163 :GI T0315 146 :EEVGGIMHSFSG 1hjsA 171 :PKPKIMIHLDNG T0315 158 :SP 1hjsA 184 :DW T0315 160 :EIADIVTN 1hjsA 190 :WWYTNVLK T0315 169 :LN 1hjsA 198 :QG T0315 171 :FYISLGGPVTFKNAKQ 1hjsA 207 :DMMGVSFYPFYSSSAT T0315 187 :PKEVAKHV 1hjsA 226 :LKSSLDNM T0315 195 :SMERLLVETDAPYLSPHPYRGK 1hjsA 238 :NKEIAVVETNWPISCPNPRYSF T0315 217 :RNEPARVTLVAEQIAEL 1hjsA 267 :PFSPEGQTTFITNVANI Number of specific fragments extracted= 18 number of extra gaps= 0 total=554 Number of alignments=34 # 1hjsA read from 1hjsA/merged-good-all-a2m # found chain 1hjsA in template set Warning: unaligning (T0315)K101 because of BadResidue code BAD_PEPTIDE in next template residue (1hjsA)E148 Warning: unaligning (T0315)S102 because of BadResidue code BAD_PEPTIDE at template residue (1hjsA)E148 T0315 21 :VITRAREAGVDRMFVVG 1hjsA 32 :LENILAANGVNTVRQRV T0315 38 :FNKST 1hjsA 50 :VNPAD T0315 43 :IERAMKLIDEY 1hjsA 59 :LDYNIAIAKRA T0315 54 :D 1hjsA 73 :G T0315 55 :FLYGIIGWH 1hjsA 75 :GVYIDFHYS T0315 64 :PVDAIDFTEEHLEWIESLAQ 1hjsA 95 :PAGWPSDIDNLSWKLYNYTL T0315 84 :HPKVIGIG 1hjsA 126 :QPTIVSIG T0315 92 :EMGLDYHW 1hjsA 135 :EIRAGLLW T0315 100 :D 1hjsA 146 :R T0315 103 :PADVQKEVFRKQIALAKRLKLP 1hjsA 149 :NWANIARLLHSAAWGIKDSSLS T0315 146 :EEVGGIMHSFSG 1hjsA 171 :PKPKIMIHLDNG T0315 158 :SPEIADIVTN 1hjsA 184 :DWGTQNWWYT T0315 168 :KLN 1hjsA 197 :KQG T0315 171 :FYISLGGPVTFKN 1hjsA 207 :DMMGVSFYPFYSS T0315 184 :AKQPKEVAKHV 1hjsA 223 :LSALKSSLDNM T0315 195 :SMERLLVETDAPYLSPHPYRGK 1hjsA 238 :NKEIAVVETNWPISCPNPRYSF T0315 217 :RNEPARVTLVAEQIAEL 1hjsA 267 :PFSPEGQTTFITNVANI T0315 245 :T 1hjsA 284 :V Number of specific fragments extracted= 18 number of extra gaps= 1 total=572 Number of alignments=35 # 1hjsA read from 1hjsA/merged-good-all-a2m # found chain 1hjsA in template set Warning: unaligning (T0315)K101 because of BadResidue code BAD_PEPTIDE in next template residue (1hjsA)E148 Warning: unaligning (T0315)S102 because of BadResidue code BAD_PEPTIDE at template residue (1hjsA)E148 T0315 2 :LIDTHVHLNDEQYDDDLSEVIT 1hjsA 43 :TVRQRVWVNPADGNYNLDYNIA T0315 24 :RAREAGVDRMFVVGFNKS 1hjsA 68 :RAKAAGLGVYIDFHYSDT T0315 64 :PVDAIDFTEEHLEWIESLA 1hjsA 95 :PAGWPSDIDNLSWKLYNYT T0315 84 :HPKVIGIG 1hjsA 126 :QPTIVSIG T0315 92 :EMGLDYHW 1hjsA 135 :EIRAGLLW T0315 100 :D 1hjsA 146 :R T0315 103 :PADVQKEVFRKQIALAKRL 1hjsA 149 :NWANIARLLHSAAWGIKDS T0315 122 :KLPIIIHNREA 1hjsA 172 :KPKIMIHLDNG T0315 133 :TQDCIDILLEEH 1hjsA 185 :WGTQNWWYTNVL T0315 145 :AEEVGGIMHSF 1hjsA 203 :LSDFDMMGVSF T0315 156 :SGSPEIADIV 1hjsA 220 :SATLSALKSS T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHP 1hjsA 230 :LDNMAKTWNKEIAVVETNWPISCPNP T0315 213 :YRGKRNEPARVTLVAEQIAEL 1hjsA 263 :VKNIPFSPEGQTTFITNVANI Number of specific fragments extracted= 13 number of extra gaps= 1 total=585 Number of alignments=36 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ejxC/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ejxC expands to /projects/compbio/data/pdb/1ejx.pdb.gz 1ejxC:Skipped atom 387, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 389, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 391, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 700, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 702, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 704, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 1365, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 1367, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 1369, because occupancy 0.500 <= existing 0.500 in 1ejxC Bad short name: CX for alphabet: pdb_atoms Bad short name: OQ1 for alphabet: pdb_atoms Bad short name: OQ2 for alphabet: pdb_atoms Skipped atom 1699, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 1701, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 1703, because occupancy 0.500 <= existing 0.500 in 1ejxC Skipped atom 2582, because occupancy 0.500 <= existing 0.500 in 1ejxC # T0315 read from 1ejxC/merged-good-all-a2m # 1ejxC read from 1ejxC/merged-good-all-a2m # adding 1ejxC to template set # found chain 1ejxC in template set Warning: unaligning (T0315)L95 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ejxC)I1218 Warning: unaligning (T0315)Y97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ejxC)I1218 T0315 1 :MLIDTHVHLNDEQ 1ejxC 1129 :GGIDTHIHWICPQ T0315 21 :VITRAREAGVDRMFVVGFNK 1ejxC 1142 :QAEEALVSGVTTMVGGGTGP T0315 41 :ST 1ejxC 1163 :AG T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 1ejxC 1174 :PWYISRMLQAADSLPVNIGLLGK T0315 66 :DAID 1ejxC 1198 :NVSQ T0315 75 :LEWIESLAQH 1ejxC 1202 :PDALREQVAA T0315 91 :GEMG 1ejxC 1212 :GVIG T0315 98 :HWDKSPAD 1ejxC 1219 :HEDWGATP T0315 109 :EVFRKQIALAKRLKLPIIIHN 1ejxC 1227 :AAIDCALTVADEMDIQVALHS T0315 132 :ATQDCIDIL 1ejxC 1255 :FVEDTLAAI T0315 145 :AEEVGGIMHS 1ejxC 1264 :GGRTIHTFHT T0315 155 :FSGSP 1ejxC 1277 :GGGHA T0315 165 :VTNKLNFYISLG 1ejxC 1287 :ACAHPNILPSST T0315 177 :GPVTF 1ejxC 1300 :PTLPY Number of specific fragments extracted= 14 number of extra gaps= 0 total=599 Number of alignments=37 # 1ejxC read from 1ejxC/merged-good-all-a2m # found chain 1ejxC in template set Warning: unaligning (T0315)L95 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ejxC)I1218 Warning: unaligning (T0315)Y97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ejxC)I1218 Warning: unaligning (T0315)V194 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ejxC)V1330 T0315 2 :LIDTHVHLNDEQ 1ejxC 1130 :GIDTHIHWICPQ T0315 21 :VITRAREAGVDRMFVVGFNK 1ejxC 1142 :QAEEALVSGVTTMVGGGTGP T0315 41 :ST 1ejxC 1163 :AG T0315 43 :IERAMKLIDEYD 1ejxC 1174 :PWYISRMLQAAD T0315 55 :FLYGIIGWH 1ejxC 1189 :VNIGLLGKG T0315 66 :DAID 1ejxC 1198 :NVSQ T0315 75 :LEWIESLAQH 1ejxC 1202 :PDALREQVAA T0315 91 :GEMG 1ejxC 1212 :GVIG T0315 98 :HWDKSPA 1ejxC 1219 :HEDWGAT T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1ejxC 1226 :PAAIDCALTVADEMDIQVALHS T0315 130 :REATQDCIDIL 1ejxC 1253 :SGFVEDTLAAI T0315 146 :EEVGGIM 1ejxC 1264 :GGRTIHT T0315 153 :H 1ejxC 1272 :H T0315 154 :SFSGSP 1ejxC 1276 :AGGGHA T0315 165 :VTNKLNFYISLGGPVTF 1ejxC 1287 :ACAHPNILPSSTNPTLP T0315 182 :KNA 1ejxC 1306 :LNT T0315 185 :KQPKEVAKH 1ejxC 1310 :DEHLDMLMV Number of specific fragments extracted= 17 number of extra gaps= 0 total=616 Number of alignments=38 # 1ejxC read from 1ejxC/merged-good-all-a2m # found chain 1ejxC in template set Warning: unaligning (T0315)I88 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1ejxC)I1218 Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1ejxC)I1218 T0315 2 :LIDTHVHLNDEQ 1ejxC 1130 :GIDTHIHWICPQ T0315 21 :VITRAREAGVDRMFVVGFNKST 1ejxC 1142 :QAEEALVSGVTTMVGGGTGPAA T0315 43 :IERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLA 1ejxC 1174 :PWYISRMLQAADSLPVNIGLLGKGNVSQPDALREQVAAGV T0315 87 :V 1ejxC 1215 :G T0315 91 :GE 1ejxC 1219 :HE T0315 96 :DYHWD 1ejxC 1221 :DWGAT T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1ejxC 1226 :PAAIDCALTVADEMDIQVALHS T0315 130 :REATQDCIDIL 1ejxC 1253 :SGFVEDTLAAI T0315 146 :EEVGGIMHSFSG 1ejxC 1264 :GGRTIHTFHTEG T0315 176 :GGPVT 1ejxC 1277 :GGGHA T0315 188 :KEVAKHVSMERLLVETDAPYLSPHPY 1ejxC 1282 :PDIITACAHPNILPSSTNPTLPYTLN T0315 238 :YEEVCEQTTK 1ejxC 1309 :IDEHLDMLMV Number of specific fragments extracted= 12 number of extra gaps= 0 total=628 Number of alignments=39 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yxcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yxcA expands to /projects/compbio/data/pdb/1yxc.pdb.gz 1yxcA:# T0315 read from 1yxcA/merged-good-all-a2m # 1yxcA read from 1yxcA/merged-good-all-a2m # adding 1yxcA to template set # found chain 1yxcA in template set Warning: unaligning (T0315)V36 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0315)G37 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0315)V201 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0315 1 :MLIDTHVHLNDEQY 1yxcA 4 :GSIVAIVTPMDEKG T0315 15 :DDDLSEVITRAREAGVDRMFV 1yxcA 21 :RASLKKLIDYHVASGTSAIVS T0315 38 :F 1yxcA 44 :T T0315 41 :ST 1yxcA 49 :AT T0315 43 :IERAMKLIDEY 1yxcA 53 :HDEHADVVMMT T0315 54 :DFLYGIIGWHPVDA 1yxcA 69 :GRIPVIAGTGANAT T0315 72 :EEHLEWIES 1yxcA 83 :AEAISLTQR T0315 82 :AQHPKVIGIGEM 1yxcA 92 :FNDSGIVGCLTV T0315 98 :HWDKSP 1yxcA 104 :TPYYNR T0315 107 :QKEVFRKQIALAKRL 1yxcA 111 :SQEGLYQHFKAIAEH T0315 122 :KLPIIIHNRE 1yxcA 127 :DLPQILYNVP T0315 132 :ATQDCIDILLEE 1yxcA 143 :LLPETVGRLAKV T0315 146 :EEVGGIM 1yxcA 155 :KNIIGIK T0315 154 :SFSGSPEIADIVTNKLN 1yxcA 162 :EATGNLTRVNQIKELVS T0315 171 :FYISLG 1yxcA 182 :VLLSGD T0315 184 :AKQPKEVAKHVS 1yxcA 188 :DASALDFMQLGG T0315 198 :RLL 1yxcA 200 :HGV T0315 203 :TDAPY 1yxcA 205 :VTANV T0315 222 :RVTLVAEQIAELKGLSYEEVCEQ 1yxcA 210 :AARDMAQMCKLAAEGHFAEARVI T0315 245 :TTKNAEKLF 1yxcA 236 :LMPLHNKLF Number of specific fragments extracted= 20 number of extra gaps= 2 total=648 Number of alignments=40 # 1yxcA read from 1yxcA/merged-good-all-a2m # found chain 1yxcA in template set Warning: unaligning (T0315)V36 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0315)G37 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0315)V201 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0315 1 :MLIDTHVHLNDEQ 1yxcA 4 :GSIVAIVTPMDEK T0315 14 :YDDDLSEVITRAREAGVDRMFV 1yxcA 20 :CRASLKKLIDYHVASGTSAIVS T0315 38 :FNKST 1yxcA 51 :LNHDE T0315 43 :IERAMKLID 1yxcA 60 :VMMTLDLAD T0315 54 :DFLYGIIGWHPVD 1yxcA 69 :GRIPVIAGTGANA T0315 71 :TEEHLEWI 1yxcA 82 :TAEAISLT T0315 80 :SLAQHPKVIGIGEM 1yxcA 90 :QRFNDSGIVGCLTV T0315 96 :DYHWDKSPADVQKEVFRKQIA 1yxcA 104 :TPYYNRPSQEGLYQHFKAIAE T0315 120 :RLKLPIIIHN 1yxcA 125 :HTDLPQILYN T0315 130 :REATQDCIDILL 1yxcA 141 :CDLLPETVGRLA T0315 144 :HAEEVGGIM 1yxcA 153 :KVKNIIGIK T0315 154 :SFSGSPEIADIVTNKLN 1yxcA 162 :EATGNLTRVNQIKELVS T0315 171 :FYISL 1yxcA 182 :VLLSG T0315 183 :NAKQPKEVAKHVS 1yxcA 187 :DDASALDFMQLGG T0315 198 :RLL 1yxcA 200 :HGV T0315 203 :TDAPY 1yxcA 205 :VTANV T0315 222 :RVTLVAEQIAELKGLSYEEVCEQ 1yxcA 210 :AARDMAQMCKLAAEGHFAEARVI T0315 245 :TTKNAEKLF 1yxcA 236 :LMPLHNKLF Number of specific fragments extracted= 18 number of extra gaps= 2 total=666 Number of alignments=41 # 1yxcA read from 1yxcA/merged-good-all-a2m # found chain 1yxcA in template set Warning: unaligning (T0315)V36 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)G43 Warning: unaligning (T0315)G37 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)G43 Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1yxcA)S204 Warning: unaligning (T0315)T203 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1yxcA)S204 T0315 2 :LIDTHVHLNDEQ 1yxcA 6 :IVAIVTPMDEKG T0315 14 :YDDDLSEVITRAREAGVDRMFV 1yxcA 20 :CRASLKKLIDYHVASGTSAIVS T0315 38 :FNKST 1yxcA 51 :LNHDE T0315 43 :IERAMKLI 1yxcA 60 :VMMTLDLA T0315 54 :DF 1yxcA 68 :DG T0315 56 :LYGIIGWHPV 1yxcA 71 :IPVIAGTGAN T0315 70 :FTEEHLEWIESLAQHPKVIGIGEM 1yxcA 81 :ATAEAISLTQRFNDSGIVGCLTVT T0315 97 :YHWDKSPADVQKEVFRKQ 1yxcA 105 :PYYNRPSQEGLYQHFKAI T0315 118 :AKRLKLPIIIHN 1yxcA 123 :AEHTDLPQILYN T0315 130 :REATQDCIDIL 1yxcA 141 :CDLLPETVGRL T0315 143 :EHAEEVGGIMHS 1yxcA 152 :AKVKNIIGIKEA T0315 156 :SGSPEIADI 1yxcA 164 :TGNLTRVNQ T0315 166 :TNKL 1yxcA 173 :IKEL T0315 170 :NFYISLG 1yxcA 180 :DFVLLSG T0315 183 :NAKQPKEVAKH 1yxcA 187 :DDASALDFMQL T0315 198 :R 1yxcA 200 :H T0315 200 :LV 1yxcA 201 :GV T0315 204 :DAPYLS 1yxcA 205 :VTANVA T0315 223 :VTLVAEQIAELKGLSYEEV 1yxcA 211 :ARDMAQMCKLAAEGHFAEA T0315 242 :CEQTTKNAEKLF 1yxcA 233 :NQRLMPLHNKLF Number of specific fragments extracted= 20 number of extra gaps= 2 total=686 Number of alignments=42 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2a6lA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2a6lA expands to /projects/compbio/data/pdb/2a6l.pdb.gz 2a6lA:# T0315 read from 2a6lA/merged-good-all-a2m # 2a6lA read from 2a6lA/merged-good-all-a2m # adding 2a6lA to template set # found chain 2a6lA in template set Warning: unaligning (T0315)V201 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0315 1 :MLIDTHVHLNDEQY 2a6lA 4 :GSIVAIVTPMDEKG T0315 15 :DDDLSEVITRAREAGVDRMFVV 2a6lA 21 :RASLKKLIDYHVASGTSAIVSV T0315 37 :GFNKST 2a6lA 50 :TLNHDE T0315 43 :IERAMKLID 2a6lA 60 :VMMTLDLAD T0315 54 :DFLYGIIGWHPVDA 2a6lA 69 :GRIPVIAGTGANAT T0315 72 :EEHLEWIES 2a6lA 83 :AEAISLTQR T0315 82 :AQHPKVIGIGEM 2a6lA 92 :FNDSGIVGCLTV T0315 98 :HWDKSP 2a6lA 104 :TPYYNR T0315 107 :QKEVFRKQIALAKRL 2a6lA 111 :SQEGLYQHFKAIAEH T0315 122 :KLPIIIHNRE 2a6lA 127 :DLPQILYNVP T0315 132 :ATQDCIDILLEE 2a6lA 143 :LLPETVGRLAKV T0315 146 :EEVGGIM 2a6lA 155 :KNIIGIK T0315 154 :SFSGSPEIADIVTNKLN 2a6lA 162 :EATGNLTRVNQIKELVS T0315 171 :FYISLG 2a6lA 182 :VLLSGD T0315 184 :AKQPKEVAKHVS 2a6lA 188 :DASALDFMQLGG T0315 198 :RLL 2a6lA 200 :HGV T0315 203 :TDAPY 2a6lA 205 :VTANV T0315 222 :RVTLVAEQIAELKGLSYEEVCEQTT 2a6lA 210 :AARDMAQMCKLAAEGHFAEARVINQ Number of specific fragments extracted= 18 number of extra gaps= 1 total=704 Number of alignments=43 # 2a6lA read from 2a6lA/merged-good-all-a2m # found chain 2a6lA in template set Warning: unaligning (T0315)V201 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0315 1 :MLIDTHVHLNDEQ 2a6lA 4 :GSIVAIVTPMDEK T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 2a6lA 20 :CRASLKKLIDYHVASGTSAIVSVG T0315 38 :FNKST 2a6lA 51 :LNHDE T0315 43 :IERAMKLID 2a6lA 60 :VMMTLDLAD T0315 54 :DFLYGIIGWHPVD 2a6lA 69 :GRIPVIAGTGANA T0315 71 :TEEHLEWI 2a6lA 82 :TAEAISLT T0315 80 :SLAQHPKVIGIGEM 2a6lA 90 :QRFNDSGIVGCLTV T0315 96 :DYHWDKSPADVQKEVFRKQIA 2a6lA 104 :TPYYNRPSQEGLYQHFKAIAE T0315 120 :RLKLPIIIHN 2a6lA 125 :HTDLPQILYN T0315 130 :REATQDCIDILLEE 2a6lA 141 :CDLLPETVGRLAKV T0315 146 :EEVGGIM 2a6lA 155 :KNIIGIK T0315 154 :SFSGSPEIADIVTNKLN 2a6lA 162 :EATGNLTRVNQIKELVS T0315 171 :FYISL 2a6lA 182 :VLLSG T0315 183 :NAKQPKEVAKHVS 2a6lA 187 :DDASALDFMQLGG T0315 198 :RLL 2a6lA 200 :HGV T0315 203 :TDAPY 2a6lA 205 :VTANV T0315 222 :RVTLVAEQIAELKGLSYEEVCEQ 2a6lA 210 :AARDMAQMCKLAAEGHFAEARVI T0315 245 :TTKNAEKLF 2a6lA 236 :LMPLHNKLF Number of specific fragments extracted= 18 number of extra gaps= 1 total=722 Number of alignments=44 # 2a6lA read from 2a6lA/merged-good-all-a2m # found chain 2a6lA in template set Warning: unaligning (T0315)E202 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2a6lA)S204 Warning: unaligning (T0315)T203 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2a6lA)S204 T0315 2 :LIDTHVHLNDEQ 2a6lA 6 :IVAIVTPMDEKG T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 2a6lA 20 :CRASLKKLIDYHVASGTSAIVSVG T0315 38 :FNKST 2a6lA 51 :LNHDE T0315 43 :IERAMKLID 2a6lA 60 :VMMTLDLAD T0315 54 :DFLYGIIGWHP 2a6lA 69 :GRIPVIAGTGA T0315 69 :DFTEEHLEWIESLAQHPKVIGIGE 2a6lA 80 :NATAEAISLTQRFNDSGIVGCLTV T0315 96 :DYHWDKSPADVQKEVFRKQ 2a6lA 104 :TPYYNRPSQEGLYQHFKAI T0315 118 :AKRLKLPIIIHN 2a6lA 123 :AEHTDLPQILYN T0315 130 :REATQDCIDILL 2a6lA 141 :CDLLPETVGRLA T0315 144 :HAEEVGGIMHS 2a6lA 153 :KVKNIIGIKEA T0315 156 :SGSPEIADI 2a6lA 164 :TGNLTRVNQ T0315 166 :TNKL 2a6lA 173 :IKEL T0315 170 :NFYISLG 2a6lA 180 :DFVLLSG T0315 183 :NAKQPKEVAKH 2a6lA 187 :DDASALDFMQL T0315 200 :LV 2a6lA 201 :GV T0315 204 :DAPYLS 2a6lA 205 :VTANVA T0315 223 :VTLVAEQIAELKGLSYEEVCEQ 2a6lA 211 :ARDMAQMCKLAAEGHFAEARVI T0315 245 :TTKNAEKLF 2a6lA 236 :LMPLHNKLF Number of specific fragments extracted= 18 number of extra gaps= 1 total=740 Number of alignments=45 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j5sA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1j5sA expands to /projects/compbio/data/pdb/1j5s.pdb.gz 1j5sA:# T0315 read from 1j5sA/merged-good-all-a2m # 1j5sA read from 1j5sA/merged-good-all-a2m # adding 1j5sA to template set # found chain 1j5sA in template set Warning: unaligning (T0315)G176 because of BadResidue code BAD_PEPTIDE in next template residue (1j5sA)W366 Warning: unaligning (T0315)G177 because of BadResidue code BAD_PEPTIDE at template residue (1j5sA)W366 T0315 1 :MLIDTHVHLNDEQY 1j5sA 25 :PIVDPHNHLDAKDI T0315 15 :DDDLSEVITRAREA 1j5sA 117 :EETAEEIWEETKKK T0315 29 :GVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPV 1j5sA 144 :KVEILCTTDDPVSTLEHHRKAKEAVEGVTILPTWRPD T0315 66 :DAIDF 1j5sA 204 :DTSTL T0315 72 :EEHLEWIESLAQ 1j5sA 209 :DGFLNALWKSHE T0315 84 :HPKVIGIGEMGLDYHWDKSPADVQKEVFRK 1j5sA 224 :EHGCVASDHALLEPSVYYVDENRARAVHEK T0315 114 :QIALAKRLKLPIIIHN 1j5sA 276 :FGKMNQETNWVTQLHI T0315 130 :RE 1j5sA 295 :RD T0315 132 :ATQDCIDILLEEHAEEVGGIMHSFSGS 1j5sA 319 :RIAEGLRYFLNEFDGKLKIVLYVLDPT T0315 159 :PEIADIVTNKLNFYISL 1j5sA 348 :PTISTIARAFPNVYVGA T0315 178 :PVTF 1j5sA 367 :WFND T0315 187 :PKEVAKHVSMERL 1j5sA 379 :LKYLASVDLLYNL T0315 201 :VETDAPYL 1j5sA 394 :MVTDSRKL T0315 217 :RNEPARVTLVAEQIAEL 1j5sA 402 :LSFGSRTEMFRRVLSNV T0315 234 :KG 1j5sA 425 :KG T0315 236 :LSYEEVCEQT 1j5sA 428 :IPIKEARELV T0315 246 :TKNAEKLF 1j5sA 442 :YDGPKALF Number of specific fragments extracted= 17 number of extra gaps= 1 total=757 Number of alignments=46 # 1j5sA read from 1j5sA/merged-good-all-a2m # found chain 1j5sA in template set Warning: unaligning (T0315)G176 because of BadResidue code BAD_PEPTIDE in next template residue (1j5sA)W366 Warning: unaligning (T0315)G177 because of BadResidue code BAD_PEPTIDE at template residue (1j5sA)W366 T0315 1 :MLIDTHVHLNDEQYDD 1j5sA 25 :PIVDPHNHLDAKDIVE T0315 17 :DLSEVITRAREA 1j5sA 119 :TAEEIWEETKKK T0315 29 :GVDRMFVVG 1j5sA 144 :KVEILCTTD T0315 38 :FNKSTIERAM 1j5sA 156 :STLEHHRKAK T0315 51 :DEYDFLYGIIGWHPVDAIDFT 1j5sA 166 :EAVEGVTILPTWRPDRAMNVD T0315 72 :EEHLEWIE 1j5sA 209 :DGFLNALW T0315 80 :SLAQHPKVIGIGEMGLDYHWDKSPADVQKEVFRKQ 1j5sA 220 :EHFKEHGCVASDHALLEPSVYYVDENRARAVHEKA T0315 115 :IALAKRLKLPIIIHN 1j5sA 277 :GKMNQETNWVTQLHI T0315 130 :REATQDCIDILLEEH 1j5sA 318 :LRIAEGLRYFLNEFD T0315 146 :EEVGGIMHSFSGS 1j5sA 333 :GKLKIVLYVLDPT T0315 159 :PEIADIVTN 1j5sA 347 :LPTISTIAR T0315 168 :KLNFYISL 1j5sA 357 :FPNVYVGA T0315 178 :PVTF 1j5sA 367 :WFND T0315 185 :KQPKEVAKHVSMERL 1j5sA 377 :MHLKYLASVDLLYNL T0315 202 :ETDAPYLS 1j5sA 395 :VTDSRKLL T0315 218 :NEPARVTLVAEQIAEL 1j5sA 403 :SFGSRTEMFRRVLSNV T0315 234 :KG 1j5sA 425 :KG T0315 236 :LSYEEVCEQT 1j5sA 428 :IPIKEARELV T0315 246 :TKNAEKLF 1j5sA 442 :YDGPKALF Number of specific fragments extracted= 19 number of extra gaps= 1 total=776 Number of alignments=47 # 1j5sA read from 1j5sA/merged-good-all-a2m # found chain 1j5sA in template set Warning: unaligning (T0315)G176 because of BadResidue code BAD_PEPTIDE in next template residue (1j5sA)W366 Warning: unaligning (T0315)G177 because of BadResidue code BAD_PEPTIDE at template residue (1j5sA)W366 T0315 15 :DDDLSEVITRARE 1j5sA 117 :EETAEEIWEETKK T0315 28 :AGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFT 1j5sA 143 :MKVEILCTTDDPVSTLEHHRKAKEAVEGVTILPTWRPDRAMNVD T0315 72 :EEHLEWIESLA 1j5sA 209 :DGFLNALWKSH T0315 83 :QHPKVIGIGEMGLDYHWDKSPADVQKEVFRK 1j5sA 223 :KEHGCVASDHALLEPSVYYVDENRARAVHEK T0315 114 :QIALAKRLKLPIIIHN 1j5sA 276 :FGKMNQETNWVTQLHI T0315 130 :REATQD 1j5sA 295 :RDYRDS T0315 136 :CIDILLEEHAEEVGGIMHSFSGS 1j5sA 323 :GLRYFLNEFDGKLKIVLYVLDPT T0315 159 :PEIADIVTNKL 1j5sA 347 :LPTISTIARAF T0315 170 :NFYISL 1j5sA 359 :NVYVGA T0315 178 :PVTFK 1j5sA 367 :WFNDS T0315 187 :PKEVAKHVSMERL 1j5sA 379 :LKYLASVDLLYNL T0315 203 :TDAPYLSP 1j5sA 396 :TDSRKLLS T0315 221 :ARVTLVAEQIAELK 1j5sA 406 :SRTEMFRRVLSNVV T0315 235 :GLSYEEVCEQTTK 1j5sA 427 :QIPIKEARELVKH T0315 248 :NAEKLF 1j5sA 444 :GPKALF Number of specific fragments extracted= 15 number of extra gaps= 1 total=791 Number of alignments=48 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1dpmA/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/T0315/1dpmA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1dpmA/merged-good-all-a2m.gz for input Trying 1dpmA/merged-good-all-a2m Error: Couldn't open file 1dpmA/merged-good-all-a2m or 1dpmA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xwyA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xwyA expands to /projects/compbio/data/pdb/1xwy.pdb.gz 1xwyA:# T0315 read from 1xwyA/merged-good-all-a2m # 1xwyA read from 1xwyA/merged-good-all-a2m # adding 1xwyA to template set # found chain 1xwyA in template set Warning: unaligning (T0315)L2 because first residue in template chain is (1xwyA)M1 Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1xwyA)E91 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1xwyA)E91 T0315 3 :IDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1xwyA 2 :FDIGVNLTSSQFAKDRDDVVACAFDAGVNGLLITGTNLRESQQAQKLARQYSSCWSTAGVHPHDSSQWQAATEEAIIELAAQPEVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADIVTN 1xwyA 92 :CGLDFNRNFSTPEEQERAFVAQLRIAADLNMPVFMHCRDAHERFMTLLEPWLDKLPGAVLHCFTGTREEMQACVA T0315 169 :LNFYISLGGPVT 1xwyA 167 :HGIYIGITGWVC T0315 181 :FKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGK 1xwyA 180 :ERRGLELRELLPLIPAEKLLIETDAPYLLPRDLTPK T0315 217 :RNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1xwyA 220 :RNEPAHLPHILQRIAHWRGEDAAWLAATTDANVKTLFGIA Number of specific fragments extracted= 5 number of extra gaps= 1 total=796 Number of alignments=49 # 1xwyA read from 1xwyA/merged-good-all-a2m # found chain 1xwyA in template set Warning: unaligning (T0315)L2 because first residue in template chain is (1xwyA)M1 Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1xwyA)E91 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1xwyA)E91 T0315 3 :IDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1xwyA 2 :FDIGVNLTSSQFAKDRDDVVACAFDAGVNGLLITGTNLRESQQAQKLARQYSSCWSTAGVHPHDSSQWQAATEEAIIELAAQPEVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDIL 1xwyA 92 :CGLDFNRNFSTPEEQERAFVAQLRIAADLNMPVFMHCRDAHERFMTLL T0315 144 :HAEEVG 1xwyA 142 :WLDKLP T0315 150 :GIMHSFSGSPEIADIVTN 1xwyA 149 :AVLHCFTGTREEMQACVA T0315 169 :LNFYISLGGPVTF 1xwyA 167 :HGIYIGITGWVCD T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGK 1xwyA 181 :RRGLELRELLPLIPAEKLLIETDAPYLLPRDLTPK T0315 217 :RNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1xwyA 220 :RNEPAHLPHILQRIAHWRGEDAAWLAATTDANVKTLFGIA Number of specific fragments extracted= 7 number of extra gaps= 1 total=803 Number of alignments=50 # 1xwyA read from 1xwyA/merged-good-all-a2m # found chain 1xwyA in template set Warning: unaligning (T0315)L2 because first residue in template chain is (1xwyA)M1 Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1xwyA)E91 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1xwyA)E91 T0315 3 :IDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1xwyA 2 :FDIGVNLTSSQFAKDRDDVVACAFDAGVNGLLITGTNLRESQQAQKLARQYSSCWSTAGVHPHDSSQWQAATEEAIIELAAQPEVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADI 1xwyA 92 :CGLDFNRNFSTPEEQERAFVAQLRIAADLNMPVFMHCRDAHERFMTLLEPWLDKLPGAVLHCFTGTREEMQA T0315 166 :TNKLNFYISLGGPVTFK 1xwyA 164 :CVAHGIYIGITGWVCDE T0315 183 :NAKQPKEVAKHVSMERLLVETDAPYLSPHP 1xwyA 182 :RGLELRELLPLIPAEKLLIETDAPYLLPRD T0315 213 :YRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLNS 1xwyA 216 :PSSRRNEPAHLPHILQRIAHWRGEDAAWLAATTDANVKTLFGIAF Number of specific fragments extracted= 5 number of extra gaps= 1 total=808 Number of alignments=51 # Reading fragments from alignment file # Attempting to read fragment alignments from file 4ubpC/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 4ubpC/merged-good-all-a2m # 4ubpC read from 4ubpC/merged-good-all-a2m # found chain 4ubpC in training set Warning: unaligning (T0315)L95 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (4ubpC)I221 Warning: unaligning (T0315)Y97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (4ubpC)I221 Warning: unaligning (T0315)I127 because of BadResidue code BAD_PEPTIDE in next template residue (4ubpC)H249 Warning: unaligning (T0315)H128 because of BadResidue code BAD_PEPTIDE at template residue (4ubpC)H249 T0315 1 :MLIDTHVHLNDEQ 4ubpC 132 :GGIDTHVHFINPD T0315 21 :VITRAREAGVDRMFVVGFNK 4ubpC 145 :QVDVALANGITTLFGGGTGP T0315 41 :ST 4ubpC 166 :EG T0315 43 :IERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIES 4ubpC 177 :PWNIEKMLKSTEGLPINVGILGKGHGSSIAPIMEQIDA T0315 91 :GEMG 4ubpC 215 :GAAG T0315 98 :HWDKSPAD 4ubpC 222 :HEDWGATP T0315 109 :EVFRKQIALAKRLKLPII 4ubpC 230 :ASIDRSLTVADEADVQVA T0315 129 :N 4ubpC 250 :S T0315 132 :ATQDCIDIL 4ubpC 258 :FLEDTLRAI T0315 145 :AEEVGGIMHSFS 4ubpC 267 :NGRVIHSFHVEG T0315 169 :LN 4ubpC 279 :AG T0315 176 :GGPVT 4ubpC 281 :GGHAP T0315 189 :EVAKHVSMERLLVETDAPYLSPHP 4ubpC 286 :DIMAMAGHPNVLPSSTNPTRPFTV T0315 221 :ARVTLVAEQIAELKGLS 4ubpC 310 :NTIDEHLDMLMVCHHLK T0315 238 :YEEVC 4ubpC 330 :PEDVA Number of specific fragments extracted= 15 number of extra gaps= 1 total=823 Number of alignments=52 # 4ubpC read from 4ubpC/merged-good-all-a2m # found chain 4ubpC in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (4ubpC)I221 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (4ubpC)I221 Warning: unaligning (T0315)I127 because of BadResidue code BAD_PEPTIDE in next template residue (4ubpC)H249 Warning: unaligning (T0315)H128 because of BadResidue code BAD_PEPTIDE at template residue (4ubpC)H249 Warning: unaligning (T0315)Y238 because of BadResidue code BAD_PEPTIDE in next template residue (4ubpC)N328 T0315 2 :LIDTHVHLNDEQ 4ubpC 133 :GIDTHVHFINPD T0315 21 :VITRAREAGVDRMFVVGFNK 4ubpC 145 :QVDVALANGITTLFGGGTGP T0315 41 :STIER 4ubpC 166 :EGSKA T0315 46 :AMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLA 4ubpC 180 :IEKMLKSTEGLPINVGILGKGHGSSIAPIMEQIDAGA T0315 88 :IG 4ubpC 217 :AG T0315 93 :M 4ubpC 222 :H T0315 95 :LDYHWD 4ubpC 223 :EDWGAT T0315 108 :KEVFRKQIALAKRLKLPII 4ubpC 229 :PASIDRSLTVADEADVQVA T0315 129 :N 4ubpC 250 :S T0315 130 :REATQDCIDIL 4ubpC 256 :AGFLEDTLRAI T0315 146 :EEVGGIM 4ubpC 267 :NGRVIHS T0315 153 :HSFS 4ubpC 275 :HVEG T0315 169 :LN 4ubpC 279 :AG T0315 176 :GGPVT 4ubpC 281 :GGHAP T0315 189 :EVAKHVSMERLLVETDAPYLSPHP 4ubpC 286 :DIMAMAGHPNVLPSSTNPTRPFTV T0315 221 :ARVTLVAEQIAELKGLS 4ubpC 310 :NTIDEHLDMLMVCHHLK Number of specific fragments extracted= 16 number of extra gaps= 2 total=839 Number of alignments=53 # 4ubpC read from 4ubpC/merged-good-all-a2m # found chain 4ubpC in training set Warning: unaligning (T0315)I88 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (4ubpC)I221 Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (4ubpC)I221 Warning: unaligning (T0315)I127 because of BadResidue code BAD_PEPTIDE in next template residue (4ubpC)H249 Warning: unaligning (T0315)H128 because of BadResidue code BAD_PEPTIDE at template residue (4ubpC)H249 T0315 2 :LIDTHVHLNDEQ 4ubpC 133 :GIDTHVHFINPD T0315 21 :VITRAREAGVDRMFVVGFNK 4ubpC 145 :QVDVALANGITTLFGGGTGP T0315 41 :ST 4ubpC 166 :EG T0315 43 :IERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLA 4ubpC 177 :PWNIEKMLKSTEGLPINVGILGKGHGSSIAPIMEQIDAGA T0315 86 :KV 4ubpC 217 :AG T0315 91 :GE 4ubpC 222 :HE T0315 96 :DYHWD 4ubpC 224 :DWGAT T0315 108 :KEVFRKQIALAKRLKLPII 4ubpC 229 :PASIDRSLTVADEADVQVA T0315 129 :N 4ubpC 250 :S T0315 130 :REATQDCIDIL 4ubpC 256 :AGFLEDTLRAI T0315 148 :VGGIMHSFS 4ubpC 267 :NGRVIHSFH T0315 176 :GGPVT 4ubpC 281 :GGHAP T0315 189 :EVAKHVSMERLLVETDAPYLSPHPY 4ubpC 286 :DIMAMAGHPNVLPSSTNPTRPFTVN T0315 222 :RVTLVAEQIAELKGLS 4ubpC 311 :TIDEHLDMLMVCHHLK Number of specific fragments extracted= 14 number of extra gaps= 1 total=853 Number of alignments=54 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ojxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ojxA expands to /projects/compbio/data/pdb/1ojx.pdb.gz 1ojxA:# T0315 read from 1ojxA/merged-good-all-a2m # 1ojxA read from 1ojxA/merged-good-all-a2m # adding 1ojxA to template set # found chain 1ojxA in template set T0315 11 :DEQY 1ojxA 31 :PADF T0315 15 :DDDLSEVITRAREAGVDRMFVV 1ojxA 40 :SADPEYILRLARDAGFDGVVFQ T0315 47 :MKLIDEY 1ojxA 62 :RGIAEKY T0315 54 :DFLYGIIGWHPV 1ojxA 71 :GSVPLILKLNGK T0315 66 :D 1ojxA 97 :S T0315 75 :LEWIESL 1ojxA 98 :VEEAVSL T0315 86 :KVIGIGEM 1ojxA 105 :GASAVGYT T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNRE 1ojxA 113 :IYPGSGFEWKMFEELARIKRDAVKFDLPLVVWSYP T0315 132 :ATQDCIDILLEEHA 1ojxA 160 :IVAYAARIALELGA T0315 149 :GGIMHSFSGSPEIADIVTNKLN 1ojxA 174 :DAMKIKYTGDPKTFSWAVKVAG T0315 171 :FYISLGGPVTFKNAKQPKEVAKHV 1ojxA 197 :VPVLMSGGPKTKTEEDFLKQVEGV T0315 195 :SMERLLVETD 1ojxA 222 :EAGALGIAVG T0315 205 :AP 1ojxA 235 :WQ T0315 208 :L 1ojxA 237 :R T0315 221 :ARVTLVAEQIAEL 1ojxA 238 :RDALKFARALAEL Number of specific fragments extracted= 15 number of extra gaps= 0 total=868 Number of alignments=55 # 1ojxA read from 1ojxA/merged-good-all-a2m # found chain 1ojxA in template set T0315 2 :LIDTHVHL 1ojxA 18 :SIILAYDH T0315 10 :NDEQYDD 1ojxA 30 :GPADFMD T0315 17 :DLSEVITRAREAGVDRMFVV 1ojxA 42 :DPEYILRLARDAGFDGVVFQ T0315 47 :MKLIDEY 1ojxA 62 :RGIAEKY T0315 54 :DFLYGIIGWH 1ojxA 71 :GSVPLILKLN T0315 75 :LEWIESL 1ojxA 98 :VEEAVSL T0315 84 :HPKVIGIGE 1ojxA 105 :GASAVGYTI T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1ojxA 114 :YPGSGFEWKMFEELARIKRDAVKFDLPLVVWS T0315 130 :REATQDCIDILLEEHA 1ojxA 158 :PEIVAYAARIALELGA T0315 149 :GGIMHSFSGSPEIADIVTNKLN 1ojxA 174 :DAMKIKYTGDPKTFSWAVKVAG T0315 171 :FYISLGGPVTFKNAKQPKEVAKHV 1ojxA 197 :VPVLMSGGPKTKTEEDFLKQVEGV T0315 196 :MERLLVETD 1ojxA 223 :AGALGIAVG T0315 220 :PARVTLVAEQIAEL 1ojxA 237 :RRDALKFARALAEL Number of specific fragments extracted= 13 number of extra gaps= 0 total=881 Number of alignments=56 # 1ojxA read from 1ojxA/merged-good-all-a2m # found chain 1ojxA in template set T0315 2 :LIDTHVH 1ojxA 19 :IILAYDH T0315 10 :NDEQYDD 1ojxA 30 :GPADFMD T0315 17 :DLSEVITRAREAGVDRMFVV 1ojxA 42 :DPEYILRLARDAGFDGVVFQ T0315 40 :KS 1ojxA 62 :RG T0315 49 :LID 1ojxA 64 :IAE T0315 52 :EYDF 1ojxA 68 :YYDG T0315 56 :LYGIIGWHPVDAIDFT 1ojxA 75 :LILKLNGKTTLYNGEP T0315 75 :LEWIESL 1ojxA 98 :VEEAVSL T0315 86 :KVIGIGEMGLDYH 1ojxA 105 :GASAVGYTIYPGS T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHN 1ojxA 118 :GFEWKMFEELARIKRDAVKFDLPLVVWS T0315 130 :REATQDCIDILLEEH 1ojxA 158 :PEIVAYAARIALELG T0315 148 :VGGIMHSFSGSPEIADIVTNKL 1ojxA 173 :ADAMKIKYTGDPKTFSWAVKVA T0315 170 :NFYISLGGPVTFKNAKQPKEVAKH 1ojxA 196 :KVPVLMSGGPKTKTEEDFLKQVEG T0315 195 :SMERLLVETD 1ojxA 222 :EAGALGIAVG T0315 213 :YRG 1ojxA 237 :RRD T0315 223 :VTLVAEQIAEL 1ojxA 240 :ALKFARALAEL Number of specific fragments extracted= 16 number of extra gaps= 0 total=897 Number of alignments=57 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2ffiA/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/T0315/2ffiA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/2ffiA/merged-good-all-a2m.gz for input Trying 2ffiA/merged-good-all-a2m Error: Couldn't open file 2ffiA/merged-good-all-a2m or 2ffiA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j79A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1j79A/merged-good-all-a2m # 1j79A read from 1j79A/merged-good-all-a2m # found chain 1j79A in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1j79A)L103 Warning: unaligning (T0315)Y97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1j79A)L103 T0315 4 :DTHVHLNDE 1j79A 14 :DWHLHLRDG T0315 16 :DDLSEVITRAREA 1j79A 23 :DMLKTVVPYTSEI T0315 30 :VDRMFVVGFNKST 1j79A 36 :YGRAIVMPNLAPP T0315 43 :IERAMKLIDEY 1j79A 52 :VEAAVAYRQRI T0315 54 :D 1j79A 69 :P T0315 55 :FLYGIIGWHPV 1j79A 71 :DFTPLMTCYLT T0315 68 :IDFT 1j79A 82 :DSLD T0315 75 :LEWIESLAQHPKVIG 1j79A 86 :PNELERGFNEGVFTA T0315 98 :HW 1j79A 104 :YP T0315 102 :SPADV 1j79A 117 :TSVDA T0315 111 :FRKQIALAKRLKLPIIIHNRE 1j79A 122 :IMPVLERMEKIGMPLLVHGEV T0315 132 :ATQDCIDILLEEHAEEVGGIMHSF 1j79A 156 :FIESVMEPLRQRLTALKVVFEHIT T0315 158 :SPEIADIVTN 1j79A 180 :TKDAADYVRD T0315 168 :KLNFYIS 1j79A 191 :NERLAAT T0315 175 :LGGPVTF 1j79A 221 :CLPILKR T0315 182 :KNAKQPKEVAKHVS 1j79A 229 :IHQQALRELVASGF T0315 197 :ERLLVETD 1j79A 243 :QRVFLGTD T0315 205 :APYL 1j79A 252 :APHA T0315 209 :SPHPYRGKRNEPARVTLVAEQIAEL 1j79A 261 :SSCGCAGCFNAPTALGSYATVFEEM T0315 235 :G 1j79A 286 :N T0315 237 :SYEEVCEQTTKNAEKLFNLN 1j79A 287 :ALQHFEAFCSVNGPQFYGLP Number of specific fragments extracted= 21 number of extra gaps= 0 total=918 Number of alignments=58 # 1j79A read from 1j79A/merged-good-all-a2m # found chain 1j79A in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1j79A)L103 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1j79A)L103 T0315 4 :DTHVHLNDEQ 1j79A 14 :DWHLHLRDGD T0315 17 :DLSEVITRAREA 1j79A 24 :MLKTVVPYTSEI T0315 30 :VDRMFVVG 1j79A 36 :YGRAIVMP T0315 38 :FNKSTIERAMKLIDEY 1j79A 50 :TTVEAAVAYRQRILDA T0315 54 :D 1j79A 69 :P T0315 55 :FLYGIIGWHP 1j79A 71 :DFTPLMTCYL T0315 67 :AIDFT 1j79A 81 :TDSLD T0315 75 :LEWIESLAQHPKVIG 1j79A 86 :PNELERGFNEGVFTA T0315 93 :MGLDYHWDKSP 1j79A 104 :YPANATTNSSH T0315 111 :FRKQIALAKRLKLPIIIHN 1j79A 122 :IMPVLERMEKIGMPLLVHG T0315 130 :REATQDCIDI 1j79A 147 :IDIFDREARF T0315 140 :LLE 1j79A 164 :LRQ T0315 144 :HAEEVGGIM 1j79A 167 :RLTALKVVF T0315 153 :HSF 1j79A 177 :HIT T0315 158 :SPEIADIVTN 1j79A 180 :TKDAADYVRD T0315 168 :KLNFYISLGGP 1j79A 191 :NERLAATITPQ T0315 182 :KNAKQPKEVAKHVS 1j79A 229 :IHQQALRELVASGF T0315 197 :ERLLVETDAPYL 1j79A 243 :QRVFLGTDSAPH T0315 209 :SPHPYRGKRNEPARVTLVAEQIAEL 1j79A 261 :SSCGCAGCFNAPTALGSYATVFEEM T0315 235 :GL 1j79A 286 :NA T0315 238 :YEEVCEQTTKNAEKLFNLN 1j79A 288 :LQHFEAFCSVNGPQFYGLP Number of specific fragments extracted= 21 number of extra gaps= 0 total=939 Number of alignments=59 # 1j79A read from 1j79A/merged-good-all-a2m # found chain 1j79A in training set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1j79A)L103 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1j79A)L103 T0315 4 :DTHVHLND 1j79A 14 :DWHLHLRD T0315 15 :DDDLSEVITRARE 1j79A 22 :GDMLKTVVPYTSE T0315 29 :GVDRMFVV 1j79A 35 :IYGRAIVM T0315 37 :GFNKSTIERAMKLI 1j79A 49 :VTTVEAAVAYRQRI T0315 51 :DEYDF 1j79A 64 :DAVPA T0315 56 :LYGIIGWH 1j79A 74 :PLMTCYLT T0315 68 :IDFT 1j79A 82 :DSLD T0315 75 :LEWIESLAQHPKVIG 1j79A 86 :PNELERGFNEGVFTA T0315 93 :M 1j79A 104 :Y T0315 97 :YHWDKSP 1j79A 105 :PANATTN T0315 112 :RKQIALAKRLKLPIIIHN 1j79A 123 :MPVLERMEKIGMPLLVHG T0315 130 :RE 1j79A 150 :FD T0315 132 :ATQDCIDILLEEHAE 1j79A 156 :FIESVMEPLRQRLTA T0315 148 :VGGIMHSFS 1j79A 171 :LKVVFEHIT T0315 158 :SPEIADI 1j79A 180 :TKDAADY T0315 166 :TNKL 1j79A 187 :VRDG T0315 170 :NFYISLG 1j79A 193 :RLAATIT T0315 178 :PVTFK 1j79A 223 :PILKR T0315 184 :AKQPKEVAKH 1j79A 231 :QQALRELVAS T0315 195 :SMERLLVETDA 1j79A 241 :GFQRVFLGTDS T0315 209 :SPHP 1j79A 252 :APHA T0315 213 :YRGKRNEPARVTLVAEQIAELK 1j79A 265 :CAGCFNAPTALGSYATVFEEMN T0315 237 :SYEEVCEQTTKNAEKLFNLNS 1j79A 287 :ALQHFEAFCSVNGPQFYGLPV Number of specific fragments extracted= 23 number of extra gaps= 0 total=962 Number of alignments=60 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bf6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1bf6A/merged-good-all-a2m # 1bf6A read from 1bf6A/merged-good-all-a2m # found chain 1bf6A in training set Warning: unaligning (T0315)G91 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1bf6A)E125 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1bf6A)E125 T0315 1 :MLIDTHVHL 1bf6A 7 :GYTLAHEHL T0315 10 :NDEQY 1bf6A 18 :DLSGF T0315 15 :DDDLSEVITRAREAGVDRMFVVGFNK 1bf6A 33 :YAFICQEMNDLMTRGVRNVIEMTNRY T0315 41 :STIERAMKLIDEYD 1bf6A 61 :RNAQFMLDVMRETG T0315 55 :FLYGIIGWHPVDA 1bf6A 76 :NVVACTGYYQDAF T0315 68 :IDF 1bf6A 90 :PEH T0315 71 :TEEHLEWIESLAQ 1bf6A 98 :VQELAQEMVDEIE T0315 84 :HPKVIGI 1bf6A 117 :ELKAGII T0315 93 :MGLD 1bf6A 126 :IGTS T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHNRE 1bf6A 130 :EGKITPLEEKVFIAAALAHNQTGRPISTHTSF T0315 132 :ATQDCIDILLEEHAEEVGGIM 1bf6A 164 :MGLEQLALLQAHGVDLSRVTV T0315 153 :HSFSG 1bf6A 186 :HCDLK T0315 158 :SPEIADIVTN 1bf6A 192 :NLDNILKMID T0315 169 :LNFYISLGGPVT 1bf6A 202 :LGAYVQFDTIGK T0315 181 :FKNAKQ 1bf6A 216 :YYPDEK T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAEL 1bf6A 226 :LHALRDRGLLNRVMLSMDITRRSHLKANGGYGYDYLLTTFIPQLRQS T0315 235 :GLSYEEVCEQTTKNAEKLF 1bf6A 273 :GFSQADVDVMLRENPSQFF Number of specific fragments extracted= 17 number of extra gaps= 1 total=979 Number of alignments=61 # 1bf6A read from 1bf6A/merged-good-all-a2m # found chain 1bf6A in training set Warning: unaligning (T0315)G91 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1bf6A)E125 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1bf6A)E125 T0315 1 :MLIDTHVHL 1bf6A 7 :GYTLAHEHL T0315 10 :NDEQYDD 1bf6A 18 :DLSGFKN T0315 17 :DLSEVITRAREAGVDRMFVVGFNK 1bf6A 35 :FICQEMNDLMTRGVRNVIEMTNRY T0315 41 :STIERAMKLIDEYD 1bf6A 61 :RNAQFMLDVMRETG T0315 55 :FLYGIIGWHPVDAIDFT 1bf6A 76 :NVVACTGYYQDAFFPEH T0315 72 :EEHLEWIESLAQHP 1bf6A 99 :QELAQEMVDEIEQG T0315 86 :KVIGI 1bf6A 119 :KAGII T0315 93 :MGL 1bf6A 126 :IGT T0315 99 :WDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1bf6A 129 :SEGKITPLEEKVFIAAALAHNQTGRPISTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1bf6A 162 :STMGLEQLALLQAHGVDLSRVTV T0315 153 :HS 1bf6A 186 :HC T0315 155 :FSGSPEIADIVTN 1bf6A 189 :LKDNLDNILKMID T0315 169 :LNFYISLGGPVTF 1bf6A 202 :LGAYVQFDTIGKN T0315 182 :KNA 1bf6A 217 :YPD T0315 185 :KQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAE 1bf6A 224 :AMLHALRDRGLLNRVMLSMDITRRSHLKANGGYGYDYLLTTFIPQLRQ T0315 234 :KGLSYEEVCEQTTKNAEKLF 1bf6A 272 :SGFSQADVDVMLRENPSQFF Number of specific fragments extracted= 16 number of extra gaps= 1 total=995 Number of alignments=62 # 1bf6A read from 1bf6A/merged-good-all-a2m # found chain 1bf6A in training set Warning: unaligning (T0315)G91 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1bf6A)E125 Warning: unaligning (T0315)E92 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1bf6A)E125 T0315 2 :LIDTHVHLNDEQYDD 1bf6A 10 :LAHEHLHIDLSGFKN T0315 17 :DLSEVITRAREAGVDRMFVVGFNKS 1bf6A 35 :FICQEMNDLMTRGVRNVIEMTNRYM T0315 43 :IERAMKLIDEYDF 1bf6A 63 :AQFMLDVMRETGI T0315 56 :LYGIIGWHPVDAIDFT 1bf6A 77 :VVACTGYYQDAFFPEH T0315 72 :EEHLEWIESLA 1bf6A 99 :QELAQEMVDEI T0315 84 :HPKVIGI 1bf6A 117 :ELKAGII T0315 93 :MGLD 1bf6A 126 :IGTS T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHN 1bf6A 130 :EGKITPLEEKVFIAAALAHNQTGRPISTHT T0315 130 :REATQDCIDILLEEHAEEVGGIMHSF 1bf6A 162 :STMGLEQLALLQAHGVDLSRVTVGHC T0315 156 :SGSPEIADI 1bf6A 190 :KDNLDNILK T0315 166 :TNKLNFYISLGGPVTFK 1bf6A 199 :MIDLGAYVQFDTIGKNS T0315 183 :NAKQPKEVAKHV 1bf6A 218 :PDEKRIAMLHAL T0315 195 :SMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAE 1bf6A 234 :LLNRVMLSMDITRRSHLKANGGYGYDYLLTTFIPQLRQ T0315 234 :KGLSYEEVCEQTTKNAEKLF 1bf6A 272 :SGFSQADVDVMLRENPSQFF Number of specific fragments extracted= 14 number of extra gaps= 1 total=1009 Number of alignments=63 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ynyA/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/T0315/1ynyA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1ynyA/merged-good-all-a2m.gz for input Trying 1ynyA/merged-good-all-a2m Error: Couldn't open file 1ynyA/merged-good-all-a2m or 1ynyA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2gwgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2gwgA expands to /projects/compbio/data/pdb/2gwg.pdb.gz 2gwgA: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 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 # T0315 read from 2gwgA/merged-good-all-a2m # 2gwgA read from 2gwgA/merged-good-all-a2m # adding 2gwgA to template set # found chain 2gwgA in template set Warning: unaligning (T0315)N39 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2gwgA)G80 Warning: unaligning (T0315)R130 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2gwgA)T190 Warning: unaligning (T0315)E131 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2gwgA)T190 T0315 1 :MLIDTHVHLNDEQY 2gwgA 1 :MIIDIHGHYTTAPK T0315 15 :DDDLSE 2gwgA 43 :DDELQA T0315 21 :VITRAREAGVDRMFVVGF 2gwgA 54 :QLKKMQERGSDLTVFSPR T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 2gwgA 93 :NELCYRVSQLFPDNFIGAAMLPQ T0315 66 :DA 2gwgA 120 :DP T0315 72 :EEHLEWIESLAQHPKVIGIG 2gwgA 122 :KTCIPELEKCVKEYGFVAIN T0315 95 :LDYHWDKSPAD 2gwgA 142 :LNPDPSGGHWT T0315 106 :VQKEVFRKQIALAKRLKLPIIIHN 2gwgA 156 :LTDRIWYPIYEKMVELEIPAMIHV T0315 132 :ATQDCID 2gwgA 201 :AFMQCVA T0315 140 :LLEEHAEEVGGIMHSFSG 2gwgA 210 :LFKDFPELKFVIPHGGGA T0315 158 :SPEIADIVTN 2gwgA 231 :HWGRFRGLAQ T0315 168 :K 2gwgA 242 :M T0315 169 :LNFYISLGG 2gwgA 253 :NNIFFDTCV T0315 182 :KNAKQPKEVAKHVSMERLLVETD 2gwgA 262 :YHQPGIDLLNTVIPVDNVLFASE T0315 205 :APYLSPHPYRGKRNE 2gwgA 287 :GAVRGIDPRTGFYYD T0315 222 :RVTLVAEQ 2gwgA 302 :DTKRYIEA T0315 233 :L 2gwgA 310 :S T0315 235 :G 2gwgA 311 :T T0315 236 :LSYEEVCEQTTKNAEKLF 2gwgA 313 :LTPEEKQQIYEGNARRVY Number of specific fragments extracted= 19 number of extra gaps= 1 total=1028 Number of alignments=64 # 2gwgA read from 2gwgA/merged-good-all-a2m # found chain 2gwgA in template set Warning: unaligning (T0315)N39 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2gwgA)G80 T0315 1 :MLIDTHVHLN 2gwgA 1 :MIIDIHGHYT T0315 15 :DD 2gwgA 13 :PK T0315 17 :DLSEV 2gwgA 45 :ELQAS T0315 22 :ITRAREAGVDRMFVVGF 2gwgA 55 :LKKMQERGSDLTVFSPR T0315 43 :IERAMKLIDEYD 2gwgA 93 :NELCYRVSQLFP T0315 55 :FLYGIIGWH 2gwgA 106 :NFIGAAMLP T0315 64 :PVDA 2gwgA 121 :PKTC T0315 75 :LEWIESLAQHPKVIGIGE 2gwgA 125 :IPELEKCVKEYGFVAINL T0315 94 :GLDY 2gwgA 143 :NPDP T0315 98 :HWDKSP 2gwgA 150 :HWTSPP T0315 112 :RKQIALAKRLKLPIIIHN 2gwgA 162 :YPIYEKMVELEIPAMIHV T0315 134 :QDCID 2gwgA 203 :MQCVA T0315 139 :ILLEE 2gwgA 210 :LFKDF T0315 146 :EEVGGIM 2gwgA 215 :PELKFVI T0315 153 :HSFSG 2gwgA 223 :HGGGA T0315 158 :SPEIADIVTN 2gwgA 231 :HWGRFRGLAQ T0315 168 :KLNFYISL 2gwgA 252 :LNNIFFDT T0315 178 :PVT 2gwgA 260 :CVY T0315 183 :NAKQPKEVAKHVSMERLLVETDAP 2gwgA 263 :HQPGIDLLNTVIPVDNVLFASEMI T0315 208 :LSPH 2gwgA 287 :GAVR T0315 212 :PYRGKRNEP 2gwgA 294 :PRTGFYYDD T0315 223 :V 2gwgA 303 :T T0315 227 :AEQIAELKGLSYEEVCEQTTKNAEKLF 2gwgA 304 :KRYIEASTILTPEEKQQIYEGNARRVY Number of specific fragments extracted= 23 number of extra gaps= 0 total=1051 Number of alignments=65 # 2gwgA read from 2gwgA/merged-good-all-a2m # found chain 2gwgA in template set Warning: unaligning (T0315)N39 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2gwgA)G80 T0315 1 :MLIDTHVHL 2gwgA 1 :MIIDIHGHY T0315 11 :DEQYD 2gwgA 36 :VSELK T0315 16 :DDLSE 2gwgA 44 :DELQA T0315 21 :VITRAREAGVDRMFVVGF 2gwgA 54 :QLKKMQERGSDLTVFSPR T0315 43 :IERAMKLIDEYDFLYGIIGWHPVD 2gwgA 93 :NELCYRVSQLFPDNFIGAAMLPQS T0315 68 :IDFT 2gwgA 117 :PGVD T0315 72 :EEHLEWIESLAQHPKVIGIG 2gwgA 122 :KTCIPELEKCVKEYGFVAIN T0315 95 :LDYHW 2gwgA 142 :LNPDP T0315 101 :KSP 2gwgA 150 :HWT T0315 112 :RKQIALAKRLKLPIIIHN 2gwgA 162 :YPIYEKMVELEIPAMIHV T0315 130 :REATQDCIDILLE 2gwgA 195 :LNADTTAFMQCVA T0315 145 :AEEVGGIM 2gwgA 214 :FPELKFVI T0315 159 :PEIADIVTNKL 2gwgA 232 :WGRFRGLAQEM T0315 173 :ISLGGPVT 2gwgA 255 :IFFDTCVY T0315 183 :NAKQPKEVAKHVSMERLLVETDAP 2gwgA 263 :HQPGIDLLNTVIPVDNVLFASEMI T0315 208 :LSPHP 2gwgA 287 :GAVRG T0315 220 :PARVTLVAEQ 2gwgA 300 :YDDTKRYIEA T0315 236 :LSYEE 2gwgA 313 :LTPEE T0315 242 :CEQTTK 2gwgA 318 :KQQIYE T0315 248 :NAEKLF 2gwgA 325 :NARRVY Number of specific fragments extracted= 20 number of extra gaps= 0 total=1071 Number of alignments=66 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zzmA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1zzmA expands to /projects/compbio/data/pdb/1zzm.pdb.gz 1zzmA:# T0315 read from 1zzmA/merged-good-all-a2m # 1zzmA read from 1zzmA/merged-good-all-a2m # adding 1zzmA to template set # found chain 1zzmA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1zzmA)E97 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1zzmA)E97 Warning: unaligning (T0315)N256 because last residue in template chain is (1zzmA)P259 T0315 1 :MLIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQ 1zzmA 4 :RFIDTHCHFDFPPFSGDEEASLQRAAQAGVGKIIVPATEAENFARVLALAENYQPLYAALGLHPGMLEKHSDVSLEQLQQALE T0315 84 :HPKVIGI 1zzmA 89 :PAKVVAV T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHA 1zzmA 98 :IGLDLFGDDPQFERQQWLLDEQLKLAKRYDLPVILHSRRTHDKLAMHLKRHDL T0315 147 :EVGGIMHSFSGSPEIADIVTN 1zzmA 151 :PRTGVVHGFSGSLQQAERFVQ T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 1zzmA 172 :LGYKIGVGGTITYPRASKTRDVIAKLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFAVLCELRREPADEIAQALLNNTYTLFNV Number of specific fragments extracted= 5 number of extra gaps= 1 total=1076 Number of alignments=67 # 1zzmA read from 1zzmA/merged-good-all-a2m # found chain 1zzmA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1zzmA)E97 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1zzmA)E97 Warning: unaligning (T0315)N256 because last residue in template chain is (1zzmA)P259 T0315 1 :MLIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHP 1zzmA 4 :RFIDTHCHFDFPPFSGDEEASLQRAAQAGVGKIIVPATEAENFARVLALAENYQPLYAALGLHPGMLEKHSDVSLEQLQQALERR T0315 86 :KVIGI 1zzmA 91 :KVVAV T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHA 1zzmA 98 :IGLDLFGDDPQFERQQWLLDEQLKLAKRYDLPVILHSRRTHDKLAMHLKRHDL T0315 147 :EVGGIMHSFSGSPEIADIVTN 1zzmA 151 :PRTGVVHGFSGSLQQAERFVQ T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 1zzmA 172 :LGYKIGVGGTITYPRASKTRDVIAKLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFAVLCELRREPADEIAQALLNNTYTLFNV Number of specific fragments extracted= 5 number of extra gaps= 1 total=1081 Number of alignments=68 # 1zzmA read from 1zzmA/merged-good-all-a2m # found chain 1zzmA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1zzmA)E97 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1zzmA)E97 Warning: unaligning (T0315)N256 because last residue in template chain is (1zzmA)P259 T0315 2 :LIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLA 1zzmA 5 :FIDTHCHFDFPPFSGDEEASLQRAAQAGVGKIIVPATEAENFARVLALAENYQPLYAALGLHPGMLEKHSDVSLEQLQQAL T0315 83 :QHPKVIGI 1zzmA 88 :RPAKVVAV T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAE 1zzmA 98 :IGLDLFGDDPQFERQQWLLDEQLKLAKRYDLPVILHSRRTHDKLAMHLKRHDLP T0315 148 :VGGIMHSFSGSPEIADI 1zzmA 152 :RTGVVHGFSGSLQQAER T0315 166 :TNKLNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 1zzmA 169 :FVQLGYKIGVGGTITYPRASKTRDVIAKLPLASLLLETDAPDMPLNGFQGQPNRPEQAARVFAVLCELRREPADEIAQALLNNTYTLFNV Number of specific fragments extracted= 5 number of extra gaps= 1 total=1086 Number of alignments=69 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1i0dA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1i0dA/merged-good-all-a2m # 1i0dA read from 1i0dA/merged-good-all-a2m # found chain 1i0dA in training set T0315 1 :MLIDTHVHL 1i0dA 50 :GFTLTHEHI T0315 10 :NDEQY 1i0dA 69 :WPEFF T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1i0dA 80 :AEKAVRGLRRARAAGVRTIVDVST T0315 41 :STIERAMKLIDEYD 1i0dA 108 :RDVSLLAEVSRAAD T0315 55 :FLYGIIGWHPV 1i0dA 123 :HIVAATGLWFD T0315 68 :IDFT 1i0dA 139 :RLRS T0315 72 :EEHLEWIESLAQ 1i0dA 144 :EELTQFFLREIQ T0315 84 :HPKVIG 1i0dA 160 :DTGIRA T0315 91 :GEMG 1i0dA 166 :GIIK T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1i0dA 170 :VATTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1i0dA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HSF 1i0dA 230 :HSD T0315 156 :SGSPEIADIVTN 1i0dA 234 :TDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1i0dA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQ 1i0dA 275 :RSWQT T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGK 1i0dA 284 :IKALIDQGYMKQILVSNDWLFGFSSYVTNI T0315 217 :RNEPARVTL 1i0dA 322 :PDGMAFIPL T0315 226 :VAEQIAEL 1i0dA 332 :VIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNLN 1i0dA 340 :GVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 19 number of extra gaps= 0 total=1105 Number of alignments=70 # 1i0dA read from 1i0dA/merged-good-all-a2m # found chain 1i0dA in training set T0315 1 :MLIDTHVHLN 1i0dA 50 :GFTLTHEHIC T0315 11 :DEQYDDDLSEV 1i0dA 69 :WPEFFGSRKAL T0315 22 :ITRAREAGVDRMFVVGF 1i0dA 87 :LRRARAAGVRTIVDVST T0315 42 :TIERAMKLIDEYD 1i0dA 109 :DVSLLAEVSRAAD T0315 55 :FLYGIIGWH 1i0dA 123 :HIVAATGLW T0315 64 :PVDAIDFT 1i0dA 135 :PLSMRLRS T0315 72 :EEHLEWIESLAQHP 1i0dA 144 :EELTQFFLREIQYG T0315 86 :KVIGIG 1i0dA 166 :GIIKVA T0315 99 :WDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1i0dA 172 :TTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1i0dA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 1i0dA 230 :HS T0315 155 :FSGSPEIADIVTN 1i0dA 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1i0dA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLSPH 1i0dA 279 :TRALLIKALIDQGYMKQILVSNDWLFGFSS T0315 217 :RNEPARVTL 1i0dA 322 :PDGMAFIPL T0315 226 :VAEQIAE 1i0dA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1i0dA 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 17 number of extra gaps= 0 total=1122 Number of alignments=71 # 1i0dA read from 1i0dA/merged-good-all-a2m # found chain 1i0dA in training set T0315 2 :LIDTHVHL 1i0dA 51 :FTLTHEHI T0315 11 :DEQYDDDLSEVITRA 1i0dA 69 :WPEFFGSRKALAEKA T0315 26 :REAGVDRMFVVGF 1i0dA 91 :RAAGVRTIVDVST T0315 43 :IERAMKLIDEYDF 1i0dA 110 :VSLLAEVSRAADV T0315 56 :LYGIIGW 1i0dA 124 :IVAATGL T0315 63 :HPVDAIDFT 1i0dA 134 :PPLSMRLRS T0315 72 :EEHLEWIESLA 1i0dA 144 :EELTQFFLREI T0315 84 :HPKVIGIGE 1i0dA 164 :RAGIIKVAT T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHN 1i0dA 173 :TGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAE 1i0dA 206 :QRDGEQQAAIFESEGLS T0315 148 :VGGIMHSF 1i0dA 223 :PSRVCIGH T0315 156 :SGSPEIADI 1i0dA 234 :TDDLSYLTA T0315 166 :TNKLNFYISLGGPV 1i0dA 243 :LAARGYLIGLDHIP T0315 180 :TFKNAKQPKEVAKHVS 1i0dA 261 :GLEDNASASALLGIRS T0315 196 :MERLLVETDAPYLSPHP 1i0dA 293 :MKQILVSNDWLFGFSSY T0315 220 :PARVTL 1i0dA 325 :MAFIPL T0315 226 :VAEQIAE 1i0dA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLNS 1i0dA 339 :KGVPQETLAGITVTNPARFLSPTL Number of specific fragments extracted= 18 number of extra gaps= 0 total=1140 Number of alignments=72 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jgmA/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/T0315/1jgmA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1jgmA/merged-good-all-a2m.gz for input Trying 1jgmA/merged-good-all-a2m Error: Couldn't open file 1jgmA/merged-good-all-a2m or 1jgmA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2d2jA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2d2jA expands to /projects/compbio/data/pdb/2d2j.pdb.gz 2d2jA:# T0315 read from 2d2jA/merged-good-all-a2m # 2d2jA read from 2d2jA/merged-good-all-a2m # adding 2d2jA to template set # found chain 2d2jA in template set Warning: unaligning (T0315)H98 because of BadResidue code BAD_PEPTIDE in next template residue (2d2jA)T172 Warning: unaligning (T0315)W99 because of BadResidue code BAD_PEPTIDE at template residue (2d2jA)T172 Warning: unaligning (T0315)N129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)S203 Warning: unaligning (T0315)R130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2d2jA)S203 Warning: unaligning (T0315)L175 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)D253 Warning: unaligning (T0315)G176 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2d2jA)D253 T0315 1 :MLIDTHVHL 2d2jA 50 :GFTLTHEHI T0315 10 :NDEQY 2d2jA 69 :WPEFF T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 2d2jA 80 :AEKAVRGLRHARAAGVQTIVDVST T0315 41 :STIERAMKLIDEYD 2d2jA 108 :RDVRLLAEVSRAAD T0315 55 :FLYGIIGWHPV 2d2jA 123 :HIVAATGLWFD T0315 66 :DA 2d2jA 142 :SV T0315 72 :EEHLEWIESLAQ 2d2jA 144 :EELTQFFLREIQ T0315 84 :HPKVIG 2d2jA 160 :DTGIRA T0315 91 :GEMG 2d2jA 166 :GIIK T0315 97 :Y 2d2jA 170 :V T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIH 2d2jA 173 :TGKATPFQELVLKAAARASLATGVPVTTH T0315 132 :ATQDCIDILLEEHAEEVGGIM 2d2jA 208 :DGEQQAAIFESEGLSPSRVCI T0315 153 :HSF 2d2jA 230 :HSD T0315 156 :SGSPEIADIVTN 2d2jA 234 :TDDLSYLTGLAA T0315 169 :LNFYIS 2d2jA 246 :RGYLVG T0315 177 :GPVTF 2d2jA 255 :MPYSA T0315 182 :KN 2d2jA 275 :RS T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGK 2d2jA 284 :IKALIDRGYKDRILVSHDWLFGFSSYVTNI T0315 217 :RNEPARVTL 2d2jA 322 :PDGMAFVPL T0315 226 :VAEQIAEL 2d2jA 332 :VIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNL 2d2jA 340 :GVPPETLAGVTVANPARFLSP Number of specific fragments extracted= 21 number of extra gaps= 3 total=1161 Number of alignments=73 # 2d2jA read from 2d2jA/merged-good-all-a2m # found chain 2d2jA in template set Warning: unaligning (T0315)M93 because of BadResidue code BAD_PEPTIDE in next template residue (2d2jA)T172 Warning: unaligning (T0315)W99 because of BadResidue code BAD_PEPTIDE at template residue (2d2jA)T172 Warning: unaligning (T0315)N129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)S203 Warning: unaligning (T0315)L175 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)D253 Warning: unaligning (T0315)G176 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2d2jA)D253 T0315 1 :MLIDTHVHLN 2d2jA 50 :GFTLTHEHIC T0315 11 :DEQYDDDLSEVITR 2d2jA 69 :WPEFFGSRKALAEK T0315 25 :AREAGVDRMFVVGF 2d2jA 90 :ARAAGVQTIVDVST T0315 42 :TIERAMKLIDEYD 2d2jA 109 :DVRLLAEVSRAAD T0315 55 :FLYGIIGWH 2d2jA 123 :HIVAATGLW T0315 64 :PVDAIDFT 2d2jA 135 :PLSMRMRS T0315 72 :EEHLEWIESLAQHP 2d2jA 144 :EELTQFFLREIQHG T0315 86 :KVIGIGE 2d2jA 164 :RAGIIKV T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIH 2d2jA 173 :TGKATPFQELVLKAAARASLATGVPVTTH T0315 130 :REATQDCIDILLEEHAEEVGGIM 2d2jA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 2d2jA 230 :HS T0315 155 :FSGSPEIADIVTN 2d2jA 233 :DTDDLSYLTGLAA T0315 169 :LNFYIS 2d2jA 246 :RGYLVG T0315 177 :GPVTF 2d2jA 254 :RMPYS T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLSPH 2d2jA 279 :TRALLIKALIDRGYKDRILVSHDWLFGFSS T0315 218 :NEPARVTLVAEQIAE 2d2jA 324 :GMAFVPLRVIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNL 2d2jA 339 :KGVPPETLAGVTVANPARFLSP Number of specific fragments extracted= 17 number of extra gaps= 3 total=1178 Number of alignments=74 # 2d2jA read from 2d2jA/merged-good-all-a2m # found chain 2d2jA in template set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (2d2jA)T172 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (2d2jA)T172 Warning: unaligning (T0315)N129 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)S203 Warning: unaligning (T0315)L175 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2d2jA)D253 Warning: unaligning (T0315)G176 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2d2jA)D253 T0315 2 :LIDTHVHL 2d2jA 51 :FTLTHEHI T0315 11 :DEQYDDDLSEVITRA 2d2jA 69 :WPEFFGSRKALAEKA T0315 26 :REAGVDRMFVVGF 2d2jA 91 :RAAGVQTIVDVST T0315 43 :IERAMKLIDEYDF 2d2jA 110 :VRLLAEVSRAADV T0315 56 :LYGIIGW 2d2jA 124 :IVAATGL T0315 63 :HPVDAIDFT 2d2jA 134 :PPLSMRMRS T0315 72 :EEHLEWIESLA 2d2jA 144 :EELTQFFLREI T0315 84 :HPKVIGI 2d2jA 164 :RAGIIKV T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIH 2d2jA 173 :TGKATPFQELVLKAAARASLATGVPVTTH T0315 130 :REATQDCIDILLEEHAEEVGGIM 2d2jA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 154 :SF 2d2jA 229 :GH T0315 156 :SGSPEIADI 2d2jA 234 :TDDLSYLTG T0315 166 :TNKLNFYIS 2d2jA 243 :LAARGYLVG T0315 177 :GPVT 2d2jA 254 :RMPY T0315 181 :FKNAKQPKEVAKHVS 2d2jA 262 :LEGNASALALFGTRS T0315 196 :MERLLVETDAPYLSPHP 2d2jA 293 :KDRILVSHDWLFGFSSY T0315 221 :ARVTL 2d2jA 326 :AFVPL T0315 226 :VAEQI 2d2jA 332 :VIPFL T0315 232 :ELKGLSYEEVCEQTTKNAEKLFN 2d2jA 337 :REKGVPPETLAGVTVANPARFLS Number of specific fragments extracted= 19 number of extra gaps= 3 total=1197 Number of alignments=75 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1rk6A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1rk6A/merged-good-all-a2m # 1rk6A read from 1rk6A/merged-good-all-a2m # found chain 1rk6A in training set Warning: unaligning (T0315)D4 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rk6A)S66 Warning: unaligning (T0315)T5 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rk6A)S66 T0315 1 :MLI 1rk6A 62 :GFI T0315 6 :HVHLN 1rk6A 67 :HTHDD T0315 11 :DEQY 1rk6A 77 :HRDM T0315 23 :TRAREAGVDRMFVV 1rk6A 81 :TPKISQGVTTVVTG T0315 37 :GFNK 1rk6A 99 :SLAP T0315 41 :ST 1rk6A 106 :AN T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 1rk6A 126 :FSDYLEALRAAPPAVNAACMVGH T0315 66 :DA 1rk6A 158 :DL T0315 68 :IDFTEEHLEWIESLAQ 1rk6A 161 :REATADEIQAMQALAD T0315 84 :HPKVIGIGEMGLDYHWDKSP 1rk6A 180 :ASGAIGISTGAFYPPAAHAS T0315 108 :KEVFRKQIALAKRLKLPIIIHNRE 1rk6A 200 :TEEIIEVCRPLITHGGVYATHMRD T0315 132 :ATQDCIDILLEE 1rk6A 231 :ALEETFRIGREL T0315 146 :EEVGGIMHSFSGSP 1rk6A 243 :DVPVVISHHKVMGK T0315 160 :EIADIVTNKLNFYISLGGPVTF 1rk6A 267 :ALIEAAMASQDVSLDAYPYVAG T0315 183 :NAKQ 1rk6A 347 :MDEP T0315 187 :PKEVAK 1rk6A 352 :VQRILA T0315 194 :V 1rk6A 358 :F T0315 197 :ERLLVETDAPYLSPHPYR 1rk6A 359 :GPTMIGSDGLPHDERPHP T0315 218 :NEPARVTLVAEQIAELKG 1rk6A 377 :RLWGTFPRVLGHYSRDLG T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1rk6A 396 :FPLETAVWKMTGLTAAKFGLA Number of specific fragments extracted= 20 number of extra gaps= 1 total=1217 Number of alignments=76 # 1rk6A read from 1rk6A/merged-good-all-a2m # found chain 1rk6A in training set Warning: unaligning (T0315)D4 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1rk6A)S66 Warning: unaligning (T0315)T5 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1rk6A)S66 T0315 1 :MLI 1rk6A 62 :GFI T0315 6 :HVHLN 1rk6A 67 :HTHDD T0315 17 :DLSEVITRARE 1rk6A 125 :RFSDYLEALRA T0315 31 :DRMFVV 1rk6A 140 :VNAACM T0315 37 :GFNKSTIERAMKLIDEY 1rk6A 162 :EATADEIQAMQALADDA T0315 54 :DFLYGIIG 1rk6A 182 :GAIGISTG T0315 62 :WHP 1rk6A 191 :FYP T0315 66 :DAIDFTE 1rk6A 194 :PAAHAST T0315 76 :EWIESLAQ 1rk6A 201 :EEIIEVCR T0315 84 :HPKVIGIGEM 1rk6A 212 :THGGVYATHM T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIII 1rk6A 222 :RDEGEHIVQALEETFRIGRELDVPVVI T0315 128 :HN 1rk6A 250 :HH T0315 130 :REATQDCIDILLEE 1rk6A 259 :FGRSKETLALIEAA T0315 166 :TNKLNFYISLGGPVTF 1rk6A 273 :MASQDVSLDAYPYVAG T0315 185 :KQPKEVAKH 1rk6A 350 :PDVQRILAF T0315 197 :ERLLVETDAPYLSP 1rk6A 359 :GPTMIGSDGLPHDE T0315 217 :RNEPAR 1rk6A 373 :RPHPRL T0315 223 :VTLVAEQIAELKG 1rk6A 382 :FPRVLGHYSRDLG T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1rk6A 396 :FPLETAVWKMTGLTAAKFGLA Number of specific fragments extracted= 19 number of extra gaps= 1 total=1236 Number of alignments=77 # 1rk6A read from 1rk6A/merged-good-all-a2m # found chain 1rk6A in training set T0315 9 :LNDEQYDD 1rk6A 112 :LDLLDEGG T0315 17 :DLSEVITRARE 1rk6A 125 :RFSDYLEALRA T0315 31 :DRMFVVG 1rk6A 140 :VNAACMV T0315 38 :FNKSTIERAMKLIDEYDF 1rk6A 163 :ATADEIQAMQALADDALA T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESLA 1rk6A 184 :IGISTGAFYPPAAHASTEEIIEVCRPL T0315 83 :QHPKVIGIGE 1rk6A 212 :THGGVYATHM T0315 97 :YHW 1rk6A 222 :RDE T0315 100 :DK 1rk6A 226 :EH T0315 107 :QKEVFRKQIALAKRLKLPIIIHN 1rk6A 228 :IVQALEETFRIGRELDVPVVISH T0315 130 :REATQDCIDILLEEHAE 1rk6A 259 :FGRSKETLALIEAAMAS T0315 148 :VGGIMHSFSGS 1rk6A 276 :QDVSLDAYPYV T0315 176 :GGPVTFKNAK 1rk6A 287 :AGSTMLKQDR T0315 192 :KHVSMERLLVETD 1rk6A 297 :VLLAGRTLITWCK T0315 205 :APYLSPHP 1rk6A 311 :YPELSGRD T0315 227 :AEQIAELKGLSYEEVC 1rk6A 319 :LEEIAAERGKSKYDVV Number of specific fragments extracted= 15 number of extra gaps= 0 total=1251 Number of alignments=78 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ur4A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ur4A expands to /projects/compbio/data/pdb/1ur4.pdb.gz 1ur4A:# T0315 read from 1ur4A/merged-good-all-a2m # 1ur4A read from 1ur4A/merged-good-all-a2m # adding 1ur4A to template set # found chain 1ur4A in template set T0315 15 :DDDLSEVITRAREAGVDRMFVV 1ur4A 47 :SGKKQDIFKTLKEAGVNYVRVR T0315 37 :GFNKST 1ur4A 73 :PYDANG T0315 43 :IERAMKLIDEY 1ur4A 88 :LEKAIQIGKRA T0315 54 :DFLYGIIGWHPV 1ur4A 101 :NGMKLLADFHYS T0315 66 :DAIDFT 1ur4A 126 :AWANLN T0315 72 :EEHLEWIESLAQ 1ur4A 133 :EDKKTALYQYTK T0315 84 :HPKVIGIGEMGLDYHWDKSPADVQKEVFRKQIALAKRL 1ur4A 156 :DIGMVQVGNETNGGLAGETDWAKMSQLFNAGSQAVRET T0315 122 :KLPIIIHNRE 1ur4A 196 :NILVALHFTN T0315 132 :ATQDCIDILLEEHAEEVGGIMHSF 1ur4A 211 :RYAWIAETLHRHHVDYDVFASSYY T0315 156 :SGSP 1ur4A 238 :HGTL T0315 160 :EIADIVTNKLNFYISLGGPVTFKNAKQ 1ur4A 246 :SVLTSVADTYGKKVMVAETSYTYTAED T0315 203 :TDAPYLSPHPYRGKRNEPARVTLVAEQIAEL 1ur4A 273 :GDGHGNTAPKNGQTLNNPVTVQGQANAVRDV T0315 249 :AEKLFNLN 1ur4A 304 :IQAVSDVG Number of specific fragments extracted= 13 number of extra gaps= 0 total=1264 Number of alignments=79 # 1ur4A read from 1ur4A/merged-good-all-a2m # found chain 1ur4A in template set T0315 17 :D 1ur4A 52 :D T0315 21 :VITRAREAGVDRMFVV 1ur4A 53 :IFKTLKEAGVNYVRVR T0315 37 :GFNKSTIERAMKLIDEYD 1ur4A 85 :NNDLEKAIQIGKRATANG T0315 55 :FLYGIIGWH 1ur4A 104 :KLLADFHYS T0315 64 :PVDAIDFT 1ur4A 124 :PKAWANLN T0315 72 :EEHLEWIESLAQ 1ur4A 133 :EDKKTALYQYTK T0315 84 :HP 1ur4A 153 :AG T0315 86 :KVIGIGE 1ur4A 156 :DIGMVQV T0315 94 :GLDY 1ur4A 163 :GNET T0315 98 :HWDKSPADVQKEVFRKQIALAKRL 1ur4A 170 :LAGETDWAKMSQLFNAGSQAVRET T0315 122 :KLPIIIHN 1ur4A 196 :NILVALHF T0315 130 :REATQDCIDILLEEHAE 1ur4A 209 :SGRYAWIAETLHRHHVD T0315 148 :VGGIMHSF 1ur4A 226 :YDVFASSY T0315 156 :SGSP 1ur4A 238 :HGTL T0315 160 :EIADIVTNKLNFYISLGGPVTF 1ur4A 246 :SVLTSVADTYGKKVMVAETSYT T0315 194 :VSME 1ur4A 268 :YTAE T0315 202 :ETDAPYLSPHPYRGKRNEPARVTLVAEQIAEL 1ur4A 272 :DGDGHGNTAPKNGQTLNNPVTVQGQANAVRDV T0315 249 :AEKLFNL 1ur4A 304 :IQAVSDV Number of specific fragments extracted= 18 number of extra gaps= 0 total=1282 Number of alignments=80 # 1ur4A read from 1ur4A/merged-good-all-a2m # found chain 1ur4A in template set T0315 21 :VITRAREAGVDRMFVVGF 1ur4A 53 :IFKTLKEAGVNYVRVRIW T0315 39 :NKSTIERAMKLIDEYDF 1ur4A 87 :DLEKAIQIGKRATANGM T0315 56 :LYGIIGW 1ur4A 105 :LLADFHY T0315 64 :PVDAIDFT 1ur4A 124 :PKAWANLN T0315 72 :EEHLEWIESLA 1ur4A 133 :EDKKTALYQYT T0315 84 :HPKVIGIGEMGLDYHWDKSPADVQKEVFRKQIALAKRL 1ur4A 156 :DIGMVQVGNETNGGLAGETDWAKMSQLFNAGSQAVRET T0315 122 :KLPIIIHN 1ur4A 196 :NILVALHF T0315 130 :REATQDCIDILLEEHAE 1ur4A 209 :SGRYAWIAETLHRHHVD T0315 148 :VGGIMHSF 1ur4A 226 :YDVFASSY T0315 156 :SGSPEIADIVTNKL 1ur4A 238 :HGTLKNLTSVLTSV T0315 170 :NFYISLGGPVTFKNAK 1ur4A 256 :GKKVMVAETSYTYTAE T0315 202 :ETDAPYLSPHPYRGKRNEPARVTLVAEQIAEL 1ur4A 272 :DGDGHGNTAPKNGQTLNNPVTVQGQANAVRDV T0315 249 :AEKLFNLN 1ur4A 304 :IQAVSDVG Number of specific fragments extracted= 13 number of extra gaps= 0 total=1295 Number of alignments=81 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1j6oA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1j6oA/merged-good-all-a2m # 1j6oA read from 1j6oA/merged-good-all-a2m # found chain 1j6oA in training set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1j6oA)E90 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1j6oA)E90 T0315 2 :LIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1j6oA 0 :MVDTHAHLHFHQFDDDRNAVISSFEENNIEFVVNVGVNLEDSKKSLDLSKTSDRIFCSVGVHPHDAKEVPEDFIEHLEKFAKDEKVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADIVTN 1j6oA 91 :TGLDFFRNISPAEVQKRVFVEQIELAGKLNLPLVVHIRDAYSEAYEILRTESLPEKRGVIHAFSSDYEWAKKFID T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLF 1j6oA 166 :LGFLLGIGGPVTYPKNEALREVVKRVGLEYIVLETDCPFLPPQPFRGKRNEPKYLKYVVETISQVLGVPEAKVDEATTENARRIF Number of specific fragments extracted= 3 number of extra gaps= 1 total=1298 Number of alignments=82 # 1j6oA read from 1j6oA/merged-good-all-a2m # found chain 1j6oA in training set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1j6oA)E90 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1j6oA)E90 T0315 1 :MLIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1j6oA -1 :HMVDTHAHLHFHQFDDDRNAVISSFEENNIEFVVNVGVNLEDSKKSLDLSKTSDRIFCSVGVHPHDAKEVPEDFIEHLEKFAKDEKVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADIVTN 1j6oA 91 :TGLDFFRNISPAEVQKRVFVEQIELAGKLNLPLVVHIRDAYSEAYEILRTESLPEKRGVIHAFSSDYEWAKKFID T0315 169 :LNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLF 1j6oA 166 :LGFLLGIGGPVTYPKNEALREVVKRVGLEYIVLETDCPFLPPQPFRGKRNEPKYLKYVVETISQVLGVPEAKVDEATTENARRIF Number of specific fragments extracted= 3 number of extra gaps= 1 total=1301 Number of alignments=83 # 1j6oA read from 1j6oA/merged-good-all-a2m # found chain 1j6oA in training set Warning: unaligning (T0315)G91 because of BadResidue code BAD_PEPTIDE in next template residue (1j6oA)E90 Warning: unaligning (T0315)E92 because of BadResidue code BAD_PEPTIDE at template residue (1j6oA)E90 T0315 2 :LIDTHVHLNDEQYDDDLSEVITRAREAGVDRMFVVGFNKSTIERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQHPKVIGI 1j6oA 0 :MVDTHAHLHFHQFDDDRNAVISSFEENNIEFVVNVGVNLEDSKKSLDLSKTSDRIFCSVGVHPHDAKEVPEDFIEHLEKFAKDEKVVAI T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQDCIDILLEEHAEEVGGIMHSFSGSPEIADI 1j6oA 91 :TGLDFFRNISPAEVQKRVFVEQIELAGKLNLPLVVHIRDAYSEAYEILRTESLPEKRGVIHAFSSDYEWAKK T0315 166 :TNKLNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRGKRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLF 1j6oA 163 :FIDLGFLLGIGGPVTYPKNEALREVVKRVGLEYIVLETDCPFLPPQPFRGKRNEPKYLKYVVETISQVLGVPEAKVDEATTENARRIF Number of specific fragments extracted= 3 number of extra gaps= 1 total=1304 Number of alignments=84 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1nal1/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1nal1 expands to /projects/compbio/data/pdb/1nal.pdb.gz 1nal1:# T0315 read from 1nal1/merged-good-all-a2m # 1nal1 read from 1nal1/merged-good-all-a2m # adding 1nal1 to template set # found chain 1nal1 in template set Warning: unaligning (T0315)D54 because of BadResidue code BAD_PEPTIDE in next template residue (1nal1)G72 T0315 1 :MLIDTHVHLNDEQY 1nal1 7 :GVMAALLTPFDQQQ T0315 15 :DDDLSEVITRAREAGVDRMFVVG 1nal1 24 :KASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLI 1nal1 54 :QSLSEREQVLEIV T0315 51 :DEY 1nal1 68 :EEG T0315 55 :FLYGIIGWHPVDA 1nal1 73 :KIKLIAHVGCVTT T0315 72 :EEHLEWIESLAQ 1nal1 86 :AESQQLAASAKR T0315 85 :PKVIGIGEM 1nal1 98 :YGFDAVSAV T0315 98 :HWDKSP 1nal1 107 :TPFYYP T0315 104 :ADVQKEVFRKQIALA 1nal1 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1nal1 131 :GLPMVVYN T0315 130 :REATQDCIDIL 1nal1 145 :VKLTLDQINTL T0315 144 :HAEEVGGIMHS 1nal1 157 :TLPGVGALKQT T0315 156 :SGSPEIADIVTN 1nal1 168 :SGDLYQMEQIRR T0315 168 :KLNFYISLGG 1nal1 181 :HPDLVLYNGY T0315 184 :AKQPKEVAKHVS 1nal1 191 :DEIFASGLLAGA T0315 197 :ERLLVET 1nal1 203 :DGGIGST T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTTK 1nal1 212 :IMGWRYQGIVKALKEGDIQTAQKLQTE T0315 249 :AEKLFN 1nal1 239 :CNKVID Number of specific fragments extracted= 18 number of extra gaps= 1 total=1322 Number of alignments=85 # 1nal1 read from 1nal1/merged-good-all-a2m # found chain 1nal1 in template set Warning: unaligning (T0315)D54 because of BadResidue code BAD_PEPTIDE in next template residue (1nal1)G72 T0315 1 :MLIDTHVHLNDEQ 1nal1 7 :GVMAALLTPFDQQ T0315 15 :DDDLSEVITRAREAGVDRMFVVG 1nal1 24 :KASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLIDEY 1nal1 54 :QSLSEREQVLEIVAEE T0315 55 :FLYGIIGWHP 1nal1 73 :KIKLIAHVGC T0315 69 :DFTEEHL 1nal1 83 :VTTAESQ T0315 76 :EWIESL 1nal1 93 :ASAKRY T0315 86 :KVIGIGEMG 1nal1 99 :GFDAVSAVT T0315 97 :YHWDKS 1nal1 108 :PFYYPF T0315 104 :ADVQKEVFRKQIALA 1nal1 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1nal1 131 :GLPMVVYN T0315 130 :REATQDCIDIL 1nal1 145 :VKLTLDQINTL T0315 144 :HAEEVGGIMH 1nal1 157 :TLPGVGALKQ T0315 155 :FSGSPEIADIVTN 1nal1 167 :TSGDLYQMEQIRR T0315 168 :KLNFYISLG 1nal1 181 :HPDLVLYNG T0315 183 :NAKQPKEVAKHVS 1nal1 190 :YDEIFASGLLAGA T0315 197 :ERLLVET 1nal1 203 :DGGIGST T0315 219 :EPARVTLVAEQIAELKGLSYEEVCEQ 1nal1 210 :YNIMGWRYQGIVKALKEGDIQTAQKL T0315 245 :TTKNAE 1nal1 239 :CNKVID Number of specific fragments extracted= 18 number of extra gaps= 1 total=1340 Number of alignments=86 # 1nal1 read from 1nal1/merged-good-all-a2m # found chain 1nal1 in template set Warning: unaligning (T0315)D54 because of BadResidue code BAD_PEPTIDE in next template residue (1nal1)G72 Warning: unaligning (T0315)F55 because of BadResidue code BAD_PEPTIDE at template residue (1nal1)G72 T0315 1 :MLIDTHVHLNDEQ 1nal1 8 :VMAALLTPFDQQQ T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 1nal1 23 :DKASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMK 1nal1 54 :QSLSEREQVLE T0315 49 :LIDEY 1nal1 66 :VAEEG T0315 56 :LYGIIGWHPV 1nal1 74 :IKLIAHVGCV T0315 70 :FTEEHLEWIESLA 1nal1 84 :TTAESQQLAASAK T0315 83 :QHPKVIGI 1nal1 99 :GFDAVSAV T0315 96 :DYHWDKSPADVQKEVFRKQIALA 1nal1 107 :TPFYYPFSFEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1nal1 131 :GLPMVVYN T0315 130 :REAT 1nal1 145 :VKLT T0315 137 :IDILLEEHAEEVGGIMHSFSGSPEIADI 1nal1 149 :LDQINTLVTLPGVGALKQTSGDLYQMEQ T0315 166 :TNKL 1nal1 177 :IRRE T0315 170 :NFYISLG 1nal1 183 :DLVLYNG T0315 183 :NAKQPKEVAKHVSMERLL 1nal1 190 :YDEIFASGLLAGADGGIG T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQ 1nal1 212 :IMGWRYQGIVKALKEGDIQTAQKL T0315 245 :TTKNAEKL 1nal1 239 :CNKVIDLL Number of specific fragments extracted= 16 number of extra gaps= 1 total=1356 Number of alignments=87 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1m65A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1m65A/merged-good-all-a2m # 1m65A read from 1m65A/merged-good-all-a2m # found chain 1m65A in training set Warning: unaligning (T0315)T180 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1m65A)T195 Warning: unaligning (T0315)F181 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1m65A)T195 T0315 3 :IDTHVHL 1m65A 4 :VDLHMHT T0315 10 :NDEQYDDDLSEVITRAREAGVDRMFVV 1m65A 12 :ASTHAYSTLSDYIAQAKQKGIKLFAIT T0315 37 :GFNKST 1m65A 47 :APHHWH T0315 54 :D 1m65A 65 :G T0315 55 :FLYGIIGWHPVDAIDF 1m65A 67 :GILRGIEANIKNVDGE T0315 71 :TEEHLEWI 1m65A 86 :SGKMFDSL T0315 86 :KVIGIGEM 1m65A 94 :DLIIAGFH T0315 96 :DYHWDKSPADVQKEVFRKQIA 1m65A 102 :EPVFAPHDKATNTQAMIATIA T0315 121 :LK 1m65A 123 :SG T0315 123 :LPIIIHNRE 1m65A 126 :VHIISHPGN T0315 132 :ATQDCIDILLEE 1m65A 140 :DVKAVAEAAAKH T0315 146 :EEVGGIM 1m65A 152 :QVALEIN T0315 160 :EIADIVTN 1m65A 175 :EVAAAVRD T0315 169 :LNFYISLGGPV 1m65A 183 :AGGWVALGSDS T0315 182 :KNAKQPKEVAKHV 1m65A 200 :GEFEECLKILDAV T0315 195 :SMERLL 1m65A 215 :PPERIL T0315 207 :YL 1m65A 221 :NV T0315 222 :RVTLVAEQIAEL 1m65A 223 :SPRRLLNFLESR T0315 235 :GLS 1m65A 235 :GMA Number of specific fragments extracted= 19 number of extra gaps= 1 total=1375 Number of alignments=88 # 1m65A read from 1m65A/merged-good-all-a2m # found chain 1m65A in training set Warning: unaligning (T0315)S154 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1m65A)N172 Warning: unaligning (T0315)T180 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1m65A)T195 Warning: unaligning (T0315)F181 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1m65A)T195 T0315 3 :IDTHVHLN 1m65A 4 :VDLHMHTV T0315 11 :DEQYDDDLSEVITRAREAGVDRMFVVGFN 1m65A 13 :STHAYSTLSDYIAQAKQKGIKLFAITDHG T0315 40 :KSTIE 1m65A 50 :HWHFI T0315 52 :EY 1m65A 55 :NM T0315 54 :D 1m65A 65 :G T0315 55 :FLYGIIGWH 1m65A 67 :GILRGIEAN T0315 72 :EEHLEWI 1m65A 87 :GKMFDSL T0315 86 :KVIGIGE 1m65A 94 :DLIIAGF T0315 95 :LDYHWDKSPADVQKEVFRKQIA 1m65A 101 :HEPVFAPHDKATNTQAMIATIA T0315 122 :KLPIIIHN 1m65A 125 :NVHIISHP T0315 131 :EA 1m65A 138 :EI T0315 133 :TQDCIDILLEEHA 1m65A 141 :VKAVAEAAAKHQV T0315 149 :GGIMH 1m65A 154 :ALEIN T0315 160 :EIADIVTN 1m65A 175 :EVAAAVRD T0315 169 :LNFYISLGGPV 1m65A 183 :AGGWVALGSDS T0315 182 :KN 1m65A 197 :FT T0315 184 :AKQPKEVAKHV 1m65A 202 :FEECLKILDAV T0315 195 :SMERL 1m65A 215 :PPERI T0315 205 :AP 1m65A 220 :LN T0315 221 :ARVTLVAEQIAE 1m65A 222 :VSPRRLLNFLES T0315 234 :KGLS 1m65A 234 :RGMA Number of specific fragments extracted= 21 number of extra gaps= 1 total=1396 Number of alignments=89 # 1m65A read from 1m65A/merged-good-all-a2m # found chain 1m65A in training set Warning: unaligning (T0315)S158 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1m65A)N172 Warning: unaligning (T0315)T180 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1m65A)T195 T0315 3 :IDTHVH 1m65A 4 :VDLHMH T0315 11 :DEQYDD 1m65A 10 :TVASTH T0315 17 :DLSEVITRAREAGVDRMFVVGFNK 1m65A 19 :TLSDYIAQAKQKGIKLFAITDHGP T0315 41 :STIER 1m65A 51 :WHFIN T0315 50 :IDEYDF 1m65A 56 :MRIWPR T0315 56 :LYGIIGWHPVDA 1m65A 68 :ILRGIEANIKNV T0315 69 :DFT 1m65A 80 :DGE T0315 72 :EEHLEWI 1m65A 87 :GKMFDSL T0315 86 :KVIGIGEM 1m65A 94 :DLIIAGFH T0315 96 :DYHWDKSPADVQKEVFRKQIA 1m65A 102 :EPVFAPHDKATNTQAMIATIA T0315 122 :KLPIIIHN 1m65A 125 :NVHIISHP T0315 133 :TQDCIDILLEE 1m65A 141 :VKAVAEAAAKH T0315 149 :GGIMHSFSG 1m65A 152 :QVALEINNS T0315 159 :PEIADI 1m65A 174 :REVAAA T0315 166 :TNKLNFYISLGGPV 1m65A 180 :VRDAGGWVALGSDS T0315 181 :FK 1m65A 196 :AF T0315 183 :NAKQPKEVAKH 1m65A 201 :EFEECLKILDA T0315 194 :VSMERLL 1m65A 214 :FPPERIL T0315 237 :SYEEVCEQTTK 1m65A 223 :SPRRLLNFLES Number of specific fragments extracted= 19 number of extra gaps= 1 total=1415 Number of alignments=90 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2ftwA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2ftwA expands to /projects/compbio/data/pdb/2ftw.pdb.gz 2ftwA:Skipped atom 14, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 18, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 20, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 22, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 322, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 326, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 328, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 330, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 332, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 334, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 594, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 598, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 600, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 602, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 604, because occupancy 0.500 <= existing 0.500 in 2ftwA Bad short name: CX for alphabet: pdb_atoms Bad short name: OQ1 for alphabet: pdb_atoms Bad short name: OQ2 for alphabet: pdb_atoms Skipped atom 1397, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1401, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1403, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1405, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1407, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1409, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1821, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1825, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1827, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1923, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1927, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1929, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1931, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 1933, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2340, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2344, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2346, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2348, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2350, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2352, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2354, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2356, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2491, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2495, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2497, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2499, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2542, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2546, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2548, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2737, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2741, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 2743, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3160, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3164, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3166, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3168, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3170, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3172, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3205, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3209, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3211, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3488, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3492, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3494, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3496, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3498, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3500, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3767, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3771, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3773, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3775, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3777, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3779, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3781, because occupancy 0.500 <= existing 0.500 in 2ftwA Skipped atom 3783, because occupancy 0.500 <= existing 0.500 in 2ftwA # T0315 read from 2ftwA/merged-good-all-a2m # 2ftwA read from 2ftwA/merged-good-all-a2m # adding 2ftwA to template set # found chain 2ftwA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2ftwA)C159 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2ftwA)C159 Warning: unaligning (T0315)S195 because of BadResidue code BAD_PEPTIDE in next template residue (2ftwA)L319 Warning: unaligning (T0315)M196 because of BadResidue code BAD_PEPTIDE at template residue (2ftwA)L319 T0315 1 :MLIDTHVHLNDEQY 2ftwA 61 :GGIDTHTHFQLPFM T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 2ftwA 79 :VDDFDIGTQAAVAGGTTFIIDFVI T0315 39 :NKST 2ftwA 104 :TRGQ T0315 43 :IERAMKLIDE 2ftwA 113 :YDQWKKWADE T0315 55 :FLYGIIGWHPV 2ftwA 123 :KVNCDYSLHVA T0315 67 :AIDFTEEHLEWIESLAQHPKVIG 2ftwA 134 :ITWWSEQVSREMEILVKERGVNS T0315 93 :M 2ftwA 160 :F T0315 97 :YHWDKS 2ftwA 161 :MAYKNS T0315 104 :ADVQKEVFRKQIALAKRLKLPIIIHNRE 2ftwA 167 :FMVTDQEMYHIFKRCKELGAIAQVHAEN T0315 132 :ATQDCIDILLEE 2ftwA 228 :ATNRAIVIADSV T0315 146 :EEVGGIMHS 2ftwA 240 :CTPVYIVHV T0315 157 :GSPEIADIVTN 2ftwA 249 :QSIGAADVICK T0315 168 :KLNFYIS 2ftwA 262 :KEGVRVY T0315 175 :LGGPVTF 2ftwA 296 :MGPPIRP T0315 182 :KNAKQPKEVAKHV 2ftwA 305 :RTKGVLMDYLARG T0315 197 :E 2ftwA 320 :D T0315 200 :LVETD 2ftwA 321 :CVGTD T0315 205 :AP 2ftwA 327 :CT T0315 217 :RNEPARVTLVAEQIAELKG 2ftwA 348 :VNGVEDRMSIVWENGVNTG T0315 236 :LSYEEVCEQTTKNAEKLFNL 2ftwA 368 :LTWCQFVRATSSERARIFNI Number of specific fragments extracted= 20 number of extra gaps= 1 total=1435 Number of alignments=91 # 2ftwA read from 2ftwA/merged-good-all-a2m # found chain 2ftwA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2ftwA)C159 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2ftwA)C159 T0315 2 :LIDTHVHLND 2ftwA 62 :GIDTHTHFQL T0315 13 :QYDD 2ftwA 72 :PFMG T0315 17 :DLSEVITRAREAGVDRMFVVGFN 2ftwA 81 :DFDIGTQAAVAGGTTFIIDFVIP T0315 40 :KSTIERAMKLIDEYDFLYGIIGWH 2ftwA 110 :LEAYDQWKKWADEKVNCDYSLHVA T0315 67 :AIDFTEEHLEWIESLAQHPKVIG 2ftwA 134 :ITWWSEQVSREMEILVKERGVNS T0315 93 :MGL 2ftwA 160 :FMA T0315 97 :YHWDKSPA 2ftwA 163 :YKNSFMVT T0315 108 :KEVFRKQIALAKRLKLPIIIHN 2ftwA 171 :DQEMYHIFKRCKELGAIAQVHA T0315 130 :REATQDCIDILLEE 2ftwA 226 :AEATNRAIVIADSV T0315 147 :EVGGIM 2ftwA 240 :CTPVYI T0315 153 :HSF 2ftwA 247 :HVQ T0315 158 :SPEIADIVTN 2ftwA 250 :SIGAADVICK T0315 168 :KLNFYISLGGP 2ftwA 262 :KEGVRVYGEPI T0315 179 :VTFKNAKQPKEVAKHVS 2ftwA 280 :GSHMWNHDWRHAAAFVM T0315 205 :APY 2ftwA 297 :GPP T0315 216 :KRNEPARVTLVAEQIAE 2ftwA 300 :IRPDPRTKGVLMDYLAR Number of specific fragments extracted= 16 number of extra gaps= 0 total=1451 Number of alignments=92 # 2ftwA read from 2ftwA/merged-good-all-a2m # found chain 2ftwA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2ftwA)C159 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (2ftwA)C159 T0315 2 :LIDTHVHLND 2ftwA 62 :GIDTHTHFQL T0315 13 :QYDD 2ftwA 72 :PFMG T0315 17 :DLSEVITRAREAGVDRMFVVGFN 2ftwA 81 :DFDIGTQAAVAGGTTFIIDFVIP T0315 40 :KSTIERAMKLIDEYDFLYGIIGWH 2ftwA 110 :LEAYDQWKKWADEKVNCDYSLHVA T0315 67 :AIDFTEEHLEWIESLAQHPKVIG 2ftwA 134 :ITWWSEQVSREMEILVKERGVNS T0315 93 :MGLDYHWDKSPADVQKEVF 2ftwA 160 :FMAYKNSFMVTDQEMYHIF T0315 116 :ALAKRLKLPIIIHNRE 2ftwA 179 :KRCKELGAIAQVHAEN T0315 133 :TQDCIDILLEEHAEE 2ftwA 195 :GDMVFEGQKKMLEMG T0315 148 :VGGIMHSFSGSPEIADI 2ftwA 240 :CTPVYIVHVQSIGAADV T0315 166 :TNKL 2ftwA 257 :ICKH T0315 170 :NFYISLGGPV 2ftwA 264 :GVRVYGEPIA T0315 180 :TFKNAKQPKEVAKHV 2ftwA 281 :SHMWNHDWRHAAAFV T0315 205 :APYLSPHP 2ftwA 297 :GPPIRPDP T0315 213 :YRGKRNEPARVTLVAEQIAELKG 2ftwA 364 :NTGKLTWCQFVRATSSERARIFN Number of specific fragments extracted= 14 number of extra gaps= 0 total=1465 Number of alignments=93 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1pscA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1pscA expands to /projects/compbio/data/pdb/1psc.pdb.gz 1pscA:# T0315 read from 1pscA/merged-good-all-a2m # 1pscA read from 1pscA/merged-good-all-a2m # adding 1pscA to template set # found chain 1pscA in template set T0315 1 :MLIDTHVHL 1pscA 50 :GFTLTHEHI T0315 10 :NDEQY 1pscA 69 :WPEFF T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1pscA 80 :AEKAVRGLRRARAAGVRTIVDVST T0315 41 :STIERAMKLIDEYD 1pscA 108 :RDVSLLAEVSRAAD T0315 55 :FLYGIIGWHPV 1pscA 123 :HIVAATGLWFD T0315 69 :DFT 1pscA 140 :LRS T0315 72 :EEHLEWIESLAQ 1pscA 144 :EELTQFFLREIQ T0315 84 :HPKVIG 1pscA 160 :DTGIRA T0315 91 :GEMG 1pscA 166 :GIIK T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1pscA 170 :VATTGKATPFQELVLKAAARASLATGVPVTTHT T0315 132 :ATQDCIDILLEEHAEEVGGIM 1pscA 208 :DGEQQAAIFESEGLSPSRVCI T0315 153 :HSF 1pscA 230 :HSD T0315 156 :SGSPEIADIVTN 1pscA 234 :TDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1pscA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQ 1pscA 275 :RSWQT T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGK 1pscA 284 :IKALIDQGYMKQILVSNDWLFGFSSYVTNI T0315 217 :RNEPARVTL 1pscA 322 :PDGMAFIPL T0315 226 :VAEQIAEL 1pscA 332 :VIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNLN 1pscA 340 :GVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 19 number of extra gaps= 0 total=1484 Number of alignments=94 # 1pscA read from 1pscA/merged-good-all-a2m # found chain 1pscA in template set T0315 1 :MLIDTHVHL 1pscA 50 :GFTLTHEHI T0315 10 :NDEQYDD 1pscA 69 :WPEFFGS T0315 17 :DLSEVITRAREAGVDRMFVVGF 1pscA 82 :KAVRGLRRARAAGVRTIVDVST T0315 42 :TIERAMKLIDEYD 1pscA 109 :DVSLLAEVSRAAD T0315 55 :FLYGIIGWH 1pscA 123 :HIVAATGLW T0315 64 :PVDAIDFT 1pscA 135 :PLSMRLRS T0315 72 :EEHLEWIESLAQHP 1pscA 144 :EELTQFFLREIQYG T0315 86 :KVIGIGEM 1pscA 164 :RAGIIKVA T0315 99 :WDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1pscA 172 :TTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1pscA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 1pscA 230 :HS T0315 155 :FSGSPEIADIVTN 1pscA 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1pscA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLSPHP 1pscA 279 :TRALLIKALIDQGYMKQILVSNDWLFGFSSY T0315 217 :RNEPARVTLVAEQIAE 1pscA 323 :DGMAFIPLRVIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1pscA 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 16 number of extra gaps= 0 total=1500 Number of alignments=95 # 1pscA read from 1pscA/merged-good-all-a2m # found chain 1pscA in template set T0315 2 :LIDTHVHL 1pscA 51 :FTLTHEHI T0315 10 :NDEQYDD 1pscA 69 :WPEFFGS T0315 17 :DLSEVITRAREAGVDRMFVVGF 1pscA 82 :KAVRGLRRARAAGVRTIVDVST T0315 43 :IERAMKLIDEYDF 1pscA 110 :VSLLAEVSRAADV T0315 56 :LYGIIGW 1pscA 124 :IVAATGL T0315 63 :HPVDAIDFT 1pscA 134 :PPLSMRLRS T0315 72 :EEHLEWIESLA 1pscA 144 :EELTQFFLREI T0315 84 :HPKVIGIGE 1pscA 164 :RAGIIKVAT T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHN 1pscA 173 :TGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1pscA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 154 :SF 1pscA 229 :GH T0315 156 :SGSPEIADI 1pscA 234 :TDDLSYLTA T0315 166 :TNKLNFYISLGGPVT 1pscA 243 :LAARGYLIGLDHIPH T0315 181 :FKNAKQPKEVAKHVS 1pscA 262 :LEDNASASALLGIRS T0315 196 :MERLLVETDAPYLSPHP 1pscA 293 :MKQILVSNDWLFGFSSY T0315 221 :ARVTL 1pscA 326 :AFIPL T0315 226 :VAEQIAE 1pscA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLNS 1pscA 339 :KGVPQETLAGITVTNPARFLSPTL Number of specific fragments extracted= 18 number of extra gaps= 0 total=1518 Number of alignments=96 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1n7kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1n7kA expands to /projects/compbio/data/pdb/1n7k.pdb.gz 1n7kA:# T0315 read from 1n7kA/merged-good-all-a2m # 1n7kA read from 1n7kA/merged-good-all-a2m # adding 1n7kA to template set # found chain 1n7kA in template set T0315 3 :IDT 1n7kA 25 :IDS T0315 8 :HLNDEQY 1n7kA 28 :TLLSPRA T0315 15 :DDDLSEVITRAREAGVDRMFV 1n7kA 36 :EEDVRNLVREASDYGFRCAVL T0315 39 :NKSTIERAMKLIDEYD 1n7kA 57 :TPVYTVKISGLAEKLG T0315 55 :FLYGIIGW 1n7kA 74 :KLCSVIGF T0315 65 :VDAIDFTEEHLEWIESLAQH 1n7kA 82 :PLGQAPLEVKLVEAQTVLEA T0315 86 :KVIGIGEM 1n7kA 102 :GATELDVV T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHNRE 1n7kA 110 :PHLSLGPEAVYREVSGIVKLAKSYGAVVKVILEA T0315 132 :ATQDCIDILLEEHAE 1n7kA 150 :TLSLLVDSSRRAGAD T0315 149 :GGIMHSFSG 1n7kA 165 :IVKTSTGVY T0315 158 :SPEIADIVTN 1n7kA 178 :DPVTVFRLAS T0315 168 :KLNFYISLGGPV 1n7kA 191 :PLGMGVKASGGI T0315 182 :KNAKQPKEVAKHVS 1n7kA 203 :RSGIDAVLAVGAGA T0315 197 :E 1n7kA 217 :D T0315 200 :LVETD 1n7kA 218 :IIGTS T0315 222 :RVTLVAEQIA 1n7kA 223 :SAVKVLESFK Number of specific fragments extracted= 16 number of extra gaps= 0 total=1534 Number of alignments=97 # 1n7kA read from 1n7kA/merged-good-all-a2m # found chain 1n7kA in template set T0315 3 :IDT 1n7kA 25 :IDS T0315 8 :HLNDEQYDD 1n7kA 28 :TLLSPRATE T0315 17 :DLSEVITRAREAGVDRMFV 1n7kA 38 :DVRNLVREASDYGFRCAVL T0315 39 :NKSTIERAMKLIDEYD 1n7kA 57 :TPVYTVKISGLAEKLG T0315 55 :FLYGIIGW 1n7kA 74 :KLCSVIGF T0315 65 :VDAIDFTEEHLEWIESLAQHP 1n7kA 82 :PLGQAPLEVKLVEAQTVLEAG T0315 86 :KVIGIG 1n7kA 104 :TELDVV T0315 97 :YHW 1n7kA 110 :PHL T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIIIHN 1n7kA 113 :SLGPEAVYREVSGIVKLAKSYGAVVKVIL T0315 130 :REATQDCIDILLEEHAE 1n7kA 148 :DKTLSLLVDSSRRAGAD T0315 150 :GIM 1n7kA 165 :IVK T0315 153 :HSFSG 1n7kA 169 :STGVY T0315 158 :SPEIADIVTN 1n7kA 178 :DPVTVFRLAS T0315 168 :KLNFYISLGGPVT 1n7kA 191 :PLGMGVKASGGIR T0315 183 :NAKQPKEVAKHVSM 1n7kA 204 :SGIDAVLAVGAGAD T0315 200 :LVETD 1n7kA 218 :IIGTS T0315 222 :RVTLVAEQIA 1n7kA 223 :SAVKVLESFK Number of specific fragments extracted= 17 number of extra gaps= 0 total=1551 Number of alignments=98 # 1n7kA read from 1n7kA/merged-good-all-a2m # found chain 1n7kA in template set T0315 3 :IDT 1n7kA 25 :IDS T0315 7 :VHLNDEQYDDDLSEVITRAREAGVDRMFV 1n7kA 28 :TLLSPRATEEDVRNLVREASDYGFRCAVL T0315 39 :NKSTIERAMKLIDEYD 1n7kA 57 :TPVYTVKISGLAEKLG T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESLAQ 1n7kA 73 :VKLCSVIGFPLGQAPLEVKLVEAQTVLE T0315 84 :HPKVIGI 1n7kA 102 :GATELDV T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1n7kA 109 :VPHLSLGPEAVYREVSGIVKLAKSYGAVVKVIL T0315 130 :REATQDCIDILLEEHAE 1n7kA 148 :DKTLSLLVDSSRRAGAD T0315 151 :IMHSFSG 1n7kA 165 :IVKTSTG T0315 158 :SPEIADI 1n7kA 178 :DPVTVFR T0315 166 :TNKL 1n7kA 185 :LASL T0315 170 :NFYISLGGPVT 1n7kA 193 :GMGVKASGGIR T0315 183 :NAKQPKEVAKH 1n7kA 204 :SGIDAVLAVGA T0315 196 :MERLL 1n7kA 216 :ADIIG T0315 203 :T 1n7kA 221 :T T0315 221 :ARVTLVAEQI 1n7kA 222 :SSAVKVLESF Number of specific fragments extracted= 15 number of extra gaps= 0 total=1566 Number of alignments=99 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hl2A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1hl2A/merged-good-all-a2m # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set T0315 1 :MLIDTHVHLNDEQY 1hl2A 7 :GVMAALLTPFDQQQ T0315 15 :DDDLSEVITRAREAGVDRMFVVG 1hl2A 24 :KASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLI 1hl2A 54 :QSLSEREQVLEIV T0315 51 :DEY 1hl2A 68 :EEA T0315 54 :DFLYGIIGWHPVDAIDF 1hl2A 72 :GKIKLIAHVGCVSTAES T0315 72 :EEHLEWIESL 1hl2A 89 :QQLAASAKRY T0315 86 :KVIGIGEM 1hl2A 99 :GFDAVSAV T0315 98 :HWDKSP 1hl2A 107 :TPFYYP T0315 104 :ADVQKEVFRKQIALA 1hl2A 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHNRE 1hl2A 131 :GLPMVVYNIP T0315 132 :ATQDCIDILL 1hl2A 147 :LTLDQINTLV T0315 144 :HAEEVGGIMHS 1hl2A 157 :TLPGVGALKQT T0315 156 :SGSPEIADIVTN 1hl2A 168 :SGDLYQMEQIRR T0315 168 :KLNFYISLGG 1hl2A 181 :HPDLVLYNGY T0315 184 :AKQPKEVAKHVS 1hl2A 191 :DEIFASGLLAGA T0315 197 :ERLLVET 1hl2A 203 :DGGIGST T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTT 1hl2A 212 :IMGWRYQGIVKALKEGDIQTAQKLQT T0315 248 :NAEKLFN 1hl2A 238 :ECNKVID Number of specific fragments extracted= 18 number of extra gaps= 0 total=1584 Number of alignments=100 # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set T0315 1 :MLIDTHVHLNDEQ 1hl2A 7 :GVMAALLTPFDQQ T0315 17 :DLSEVITRAREAGVDRMFVVG 1hl2A 26 :SLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLIDEY 1hl2A 54 :QSLSEREQVLEIVAEE T0315 54 :DFLYGIIGWHPVDAID 1hl2A 72 :GKIKLIAHVGCVSTAE T0315 71 :TEEHLEWIESL 1hl2A 88 :SQQLAASAKRY T0315 86 :KVIGIGEM 1hl2A 99 :GFDAVSAV T0315 95 :L 1hl2A 107 :T T0315 98 :HWDKSP 1hl2A 108 :PFYYPF T0315 104 :ADVQKEVFRKQIALA 1hl2A 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1hl2A 131 :GLPMVVYN T0315 130 :REATQDCIDIL 1hl2A 145 :VKLTLDQINTL T0315 144 :HAEEVGGIMH 1hl2A 157 :TLPGVGALKQ T0315 155 :FSGSPEIADIVTN 1hl2A 167 :TSGDLYQMEQIRR T0315 168 :KLNFYISLG 1hl2A 181 :HPDLVLYNG T0315 183 :NAKQPKEVAKHVS 1hl2A 190 :YDEIFASGLLAGA T0315 197 :ERLLVET 1hl2A 203 :DGGIGST T0315 219 :EPARVTLVAEQIAELKGLSYEEVCEQT 1hl2A 210 :YNIMGWRYQGIVKALKEGDIQTAQKLQ T0315 247 :KNAEKLFN 1hl2A 237 :TECNKVID Number of specific fragments extracted= 18 number of extra gaps= 0 total=1602 Number of alignments=101 # 1hl2A read from 1hl2A/merged-good-all-a2m # found chain 1hl2A in training set T0315 1 :MLIDTHVHLNDEQ 1hl2A 8 :VMAALLTPFDQQQ T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 1hl2A 23 :DKASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLI 1hl2A 54 :QSLSEREQVLEIV T0315 51 :DEYDF 1hl2A 68 :EEAKG T0315 56 :LYGIIGWHPVDAIDF 1hl2A 74 :IKLIAHVGCVSTAES T0315 72 :EEHLEWIESL 1hl2A 89 :QQLAASAKRY T0315 83 :QHPKVIGIG 1hl2A 99 :GFDAVSAVT T0315 97 :YHWDKSPADVQKEVFRKQIALA 1hl2A 108 :PFYYPFSFEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1hl2A 131 :GLPMVVYN T0315 133 :TQDCIDIL 1hl2A 149 :LDQINTLV T0315 144 :HAEEVGGIMH 1hl2A 157 :TLPGVGALKQ T0315 155 :FSGSPEIADI 1hl2A 167 :TSGDLYQMEQ T0315 166 :TNKL 1hl2A 177 :IRRE T0315 170 :NFYISLGGPVT 1hl2A 183 :DLVLYNGYDEI T0315 187 :PKEVAKH 1hl2A 194 :FASGLLA T0315 195 :SMERLLVET 1hl2A 201 :GADGGIGST T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQ 1hl2A 212 :IMGWRYQGIVKALKEGDIQTAQKL T0315 245 :TTKNAEKL 1hl2A 239 :CNKVIDLL Number of specific fragments extracted= 18 number of extra gaps= 0 total=1620 Number of alignments=102 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2amxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2amxA expands to /projects/compbio/data/pdb/2amx.pdb.gz 2amxA:# T0315 read from 2amxA/merged-good-all-a2m # 2amxA read from 2amxA/merged-good-all-a2m # adding 2amxA to template set # found chain 2amxA in template set Warning: unaligning (T0315)M1 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2amxA)K51 Warning: unaligning (T0315)L2 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2amxA)K51 T0315 3 :IDTHVHLNDEQ 2amxA 52 :VELHCHLDLTF T0315 15 :DDDLSEVITRA 2amxA 115 :YDFIEDLAKWA T0315 26 :REAGVDRMFVV 2amxA 130 :YKEGVVLMEFR T0315 37 :GFNKST 2amxA 151 :GLDVEL T0315 43 :IERAMKLIDEY 2amxA 158 :HKAFIKGIKNA T0315 54 :DFLYGIIGWHPVDA 2amxA 174 :NKIHVALICISDTG T0315 70 :FTEEHLE 2amxA 188 :HAAASIK T0315 77 :WIESLAQH 2amxA 199 :FAIKHKHD T0315 87 :VIGI 2amxA 207 :FVGF T0315 96 :DYHWDKSP 2amxA 211 :DHGGREID T0315 104 :AD 2amxA 220 :KD T0315 107 :QKE 2amxA 222 :HKD T0315 114 :QIALAKRLKLPIIIHNRE 2amxA 225 :VYHSVRDHGLHLTVHAGE T0315 132 :ATQDCIDILLEE 2amxA 247 :PNLNTLYTAINI T0315 145 :AE 2amxA 259 :LN T0315 148 :VGGIMHSF 2amxA 261 :VERIGHGI T0315 156 :SGSPEIADIVTN 2amxA 271 :SESDELIELVKK T0315 169 :LNFYISLG 2amxA 283 :KDILLEVC T0315 182 :KNAKQ 2amxA 301 :KSMDT T0315 187 :PKEVAKHVS 2amxA 308 :IRKLYDAGV T0315 198 :RLLVETDAP 2amxA 317 :KVSVNSDDP T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQT 2amxA 330 :SNINDNYEKLYIHLNFTLEEFMIMN Number of specific fragments extracted= 22 number of extra gaps= 1 total=1642 Number of alignments=103 # 2amxA read from 2amxA/merged-good-all-a2m # found chain 2amxA in template set Warning: unaligning (T0315)M1 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2amxA)K51 Warning: unaligning (T0315)L2 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2amxA)K51 T0315 3 :IDTHVHLND 2amxA 52 :VELHCHLDL T0315 17 :DLSEVITRAREAGVD 2amxA 63 :SAEFFLKWARKYNLQ T0315 37 :GFNKST 2amxA 79 :NMSDDE T0315 43 :IERAMKLIDEY 2amxA 98 :LAEFIRKAISV T0315 65 :VDAIDFTEEHLEWIESLAQ 2amxA 109 :SDLYRDYDFIEDLAKWAVI T0315 84 :HPKVIGIGEMGLDY 2amxA 131 :KEGVVLMEFRYSPT T0315 100 :DKSPADVQKEVFRKQIALAKR 2amxA 150 :YGLDVELIHKAFIKGIKNATE T0315 121 :LK 2amxA 172 :LN T0315 123 :LPIIIHN 2amxA 176 :IHVALIC T0315 130 :REATQDCI 2amxA 187 :GHAAASIK T0315 138 :DILLEEH 2amxA 198 :DFAIKHK T0315 146 :EEVGGIMHSFSG 2amxA 205 :HDFVGFDHGGRE T0315 158 :S 2amxA 218 :D T0315 159 :PEIADIVTN 2amxA 223 :KDVYHSVRD T0315 169 :LNFYISLGGPV 2amxA 232 :HGLHLTVHAGE T0315 180 :TFKNAKQPKEVAKHVSMERL 2amxA 245 :TLPNLNTLYTAINILNVERI T0315 202 :ETDAPY 2amxA 265 :GHGIRV T0315 214 :RGK 2amxA 271 :SES T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTT 2amxA 330 :SNINDNYEKLYIHLNFTLEEFMIMNN Number of specific fragments extracted= 19 number of extra gaps= 1 total=1661 Number of alignments=104 # 2amxA read from 2amxA/merged-good-all-a2m # found chain 2amxA in template set Warning: unaligning (T0315)L2 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2amxA)K51 T0315 3 :IDTHVHLNDEQ 2amxA 52 :VELHCHLDLTF T0315 17 :DLSEVITRAREAGVD 2amxA 63 :SAEFFLKWARKYNLQ T0315 37 :GFNKST 2amxA 79 :NMSDDE T0315 43 :IERAMKLIDEYD 2amxA 98 :LAEFIRKAISVS T0315 66 :DAIDFTEEHLEWIESLA 2amxA 110 :DLYRDYDFIEDLAKWAV T0315 84 :HPKVIGIGEM 2amxA 131 :KEGVVLMEFR T0315 95 :LDY 2amxA 141 :YSP T0315 100 :DKSPADVQKEVFRKQIALAKRL 2amxA 150 :YGLDVELIHKAFIKGIKNATEL T0315 123 :LPIIIHN 2amxA 178 :VALICIS T0315 130 :REATQDCI 2amxA 187 :GHAAASIK T0315 138 :DILLEEHA 2amxA 198 :DFAIKHKH T0315 149 :GGIMHSFSGS 2amxA 206 :DFVGFDHGGR T0315 159 :PEIADI 2amxA 223 :KDVYHS T0315 166 :TNKLNFYISLGGPV 2amxA 229 :VRDHGLHLTVHAGE T0315 180 :TFKNAKQPKEVAKHVSMERLLV 2amxA 245 :TLPNLNTLYTAINILNVERIGH T0315 205 :APYLSPHP 2amxA 267 :GIRVSESD T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTT 2amxA 330 :SNINDNYEKLYIHLNFTLEEFMIMNN Number of specific fragments extracted= 17 number of extra gaps= 1 total=1678 Number of alignments=105 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1o12A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1o12A expands to /projects/compbio/data/pdb/1o12.pdb.gz 1o12A: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 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 # T0315 read from 1o12A/merged-good-all-a2m # 1o12A read from 1o12A/merged-good-all-a2m # adding 1o12A to template set # found chain 1o12A in template set T0315 1 :MLIDTHVHLNDEQY 1o12A 44 :GFVDPHIHGVVGAD T0315 15 :DDDLSEVITRAREAGVDRMFVV 1o12A 60 :NCDFSEMEEFLYSQGVTTFLAT T0315 37 :GFNKST 1o12A 84 :STSLEK T0315 43 :IERAMKLIDEYD 1o12A 94 :LRKARDYILENP T0315 55 :FLYGIIGWHPV 1o12A 108 :SLLGVHLEGPY T0315 66 :DAIDFTEEHL 1o12A 131 :HIRPPSEREL T0315 83 :Q 1o12A 141 :S T0315 84 :HPKVIGIGEM 1o12A 144 :DSPAKMLTFA T0315 99 :W 1o12A 154 :P T0315 131 :E 1o12A 155 :E T0315 144 :HAEEVGGIMHS 1o12A 167 :KRDIVLSAGHS T0315 156 :SGSPEIADIVTN 1o12A 178 :IATFEEFMKFYK T0315 169 :LNFYIS 1o12A 190 :EGVKRI T0315 175 :LGGPVTFKNAKQPKEVAKHVSMERLLVETD 1o12A 226 :LICDGVHLSREMVKLVYKVKKANGIVLVTD T0315 205 :APYLSP 1o12A 257 :ISAAGL T0315 214 :RGK 1o12A 263 :KDG T0315 217 :RNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1o12A 289 :AGSTLFFSQAVKNFRKFTGCSITELAKVSSYNSCVELGLD Number of specific fragments extracted= 17 number of extra gaps= 0 total=1695 Number of alignments=106 # 1o12A read from 1o12A/merged-good-all-a2m # found chain 1o12A in template set T0315 1 :MLIDTHVHLN 1o12A 44 :GFVDPHIHGV T0315 15 :DD 1o12A 54 :VG T0315 17 :DLSEVITRAREAGVDRMFVVG 1o12A 62 :DFSEMEEFLYSQGVTTFLATT T0315 38 :FNKST 1o12A 85 :TSLEK T0315 43 :IERAMKLIDEYD 1o12A 94 :LRKARDYILENP T0315 55 :FLYGIIGWHPVDAIDFT 1o12A 108 :SLLGVHLEGPYISKEKK T0315 72 :EEHL 1o12A 137 :EREL T0315 80 :SLAQH 1o12A 141 :SEIDS T0315 86 :KVIGIGEM 1o12A 146 :PAKMLTFA T0315 95 :LDYHW 1o12A 159 :SELLL T0315 122 :KLPIII 1o12A 169 :DIVLSA T0315 128 :HNREATQDCIDILL 1o12A 176 :HSIATFEEFMKFYK T0315 146 :EEVGGIMHSF 1o12A 190 :EGVKRITHFP T0315 156 :SGSPEIADIVTNKLNFYISLGGPVTFKNAKQPKEVAKHVSMERLLVETDAPYLSPHP 1o12A 207 :HREIGITGAGLLLDDVKLELICDGVHLSREMVKLVYKVKKANGIVLVTDSISAAGLK T0315 215 :GK 1o12A 264 :DG T0315 217 :RNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1o12A 289 :AGSTLFFSQAVKNFRKFTGCSITELAKVSSYNSCVELGLD Number of specific fragments extracted= 16 number of extra gaps= 0 total=1711 Number of alignments=107 # 1o12A read from 1o12A/merged-good-all-a2m # found chain 1o12A in template set T0315 2 :LIDTHVHLNDEQ 1o12A 45 :FVDPHIHGVVGA T0315 14 :YDDDLSEVITRAREAGVDRMFVV 1o12A 59 :MNCDFSEMEEFLYSQGVTTFLAT T0315 37 :GFNKST 1o12A 84 :STSLEK T0315 43 :IERAMKLIDEYDF 1o12A 94 :LRKARDYILENPS T0315 56 :LYGIIGWHPVDAIDFT 1o12A 109 :LLGVHLEGPYISKEKK T0315 79 :ESLAQHPKVIGIGEM 1o12A 163 :LRLVKRDIVLSAGHS T0315 101 :KSPADVQKEVF 1o12A 178 :IATFEEFMKFY T0315 120 :RLKLPIIIHN 1o12A 189 :KEGVKRITHF T0315 130 :RE 1o12A 208 :RE T0315 135 :DCIDIL 1o12A 211 :GITGAG T0315 143 :EHAEEVGGIMHSFSG 1o12A 217 :LLLDDVKLELICDGV T0315 158 :SPEIAD 1o12A 234 :SREMVK T0315 189 :EVAKHVSMERLLVETDAPYLSPHP 1o12A 240 :LVYKVKKANGIVLVTDSISAAGLK T0315 213 :YRGKR 1o12A 284 :EDGTL T0315 218 :NEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNLN 1o12A 290 :GSTLFFSQAVKNFRKFTGCSITELAKVSSYNSCVELGLD Number of specific fragments extracted= 15 number of extra gaps= 0 total=1726 Number of alignments=108 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1un7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1un7A expands to Error: no filename for 1un7A 1un7A expands to Error: no filename for 1un7A 1un7A expands to Error: no filename for 1un7A # T0315 read from 1un7A/merged-good-all-a2m # 1un7A read from 1un7A/merged-good-all-a2m # adding 1un7A to template set Error: can't find template for 1un7A or 1un7A, so skipping it. # 1un7A read from 1un7A/merged-good-all-a2m # adding 1un7A to template set Error: can't find template for 1un7A or 1un7A, so skipping it. # 1un7A read from 1un7A/merged-good-all-a2m # adding 1un7A to template set Error: can't find template for 1un7A or 1un7A, so skipping it. # Reading fragments from alignment file # Attempting to read fragment alignments from file 1onxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1onxA expands to /projects/compbio/data/pdb/1onx.pdb.gz 1onxA:Bad short name: CX for alphabet: pdb_atoms Bad short name: OX1 for alphabet: pdb_atoms Bad short name: OX2 for alphabet: pdb_atoms Skipped atom 2519, because occupancy 0.500 <= existing 0.500 in 1onxA Skipped atom 2521, because occupancy 0.500 <= existing 0.500 in 1onxA Skipped atom 2523, because occupancy 0.500 <= existing 0.500 in 1onxA Skipped atom 2525, because occupancy 0.500 <= existing 0.500 in 1onxA # T0315 read from 1onxA/merged-good-all-a2m # 1onxA read from 1onxA/merged-good-all-a2m # adding 1onxA to template set # found chain 1onxA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onxA)C163 Warning: unaligning (T0315)M93 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onxA)C163 Warning: unaligning (T0315)L233 because of BadResidue code BAD_PEPTIDE in next template residue (1onxA)Y321 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE at template residue (1onxA)Y321 T0315 1 :MLIDTHVHLNDEQY 1onxA 63 :GFIDQHVHLIGGGG T0315 15 :DDDLS 1onxA 84 :TPEVA T0315 22 :ITRAREAGVDRMFVV 1onxA 89 :LSRLTEAGVTSVVGL T0315 37 :GFNKST 1onxA 105 :GTDSIS T0315 43 :IERAMKLIDEY 1onxA 113 :PESLLAKTRAL T0315 54 :D 1onxA 127 :G T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIES 1onxA 129 :SAWMLTGAYHVPSRTITGSVEKDVAI T0315 84 :HPKVIG 1onxA 155 :IDRVIG T0315 94 :GLDYHWDKSP 1onxA 164 :AISDHRSAAP T0315 104 :ADVQKEVFRKQIALAKRLKLP 1onxA 175 :VYHLANMAAESRVGGLLGGKP T0315 125 :IIIHNRE 1onxA 198 :TVFHMGD T0315 132 :ATQDCID 1onxA 208 :ALQPIYD T0315 140 :LLEEHA 1onxA 215 :LLENCD T0315 146 :EEV 1onxA 222 :PIS T0315 149 :GGIMHSFS 1onxA 226 :LLPTHVNR T0315 158 :SPEIADIVTN 1onxA 234 :NVPLFEQALE T0315 168 :KLNFYISLGGPVTFKNA 1onxA 246 :RKGGTIDITSSIDEPVA T0315 187 :PKEVAKH 1onxA 267 :IARAVQA T0315 194 :VSMERLLVETDAPYLSPHPYRGK 1onxA 275 :IPLARVTLSSDGNGSQPFFDDEG T0315 217 :RNEPARVTLVAEQIAE 1onxA 304 :VAGFETLLETVQVLVK T0315 235 :GLSYEEVCEQTTKNAEKLFNLN 1onxA 322 :DFSISDALRPLTSSVAGFLNLT Number of specific fragments extracted= 21 number of extra gaps= 1 total=1747 Number of alignments=109 # 1onxA read from 1onxA/merged-good-all-a2m # found chain 1onxA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onxA)C163 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onxA)C163 Warning: unaligning (T0315)L233 because of BadResidue code BAD_PEPTIDE in next template residue (1onxA)Y321 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE at template residue (1onxA)Y321 T0315 2 :LIDTHVHL 1onxA 64 :FIDQHVHL T0315 11 :DEQYDDDLS 1onxA 80 :PTTRTPEVA T0315 22 :ITRAREAGVDRMFVV 1onxA 89 :LSRLTEAGVTSVVGL T0315 37 :GFN 1onxA 105 :GTD T0315 42 :TIERAMKLIDEY 1onxA 112 :HPESLLAKTRAL T0315 54 :D 1onxA 127 :G T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIES 1onxA 129 :SAWMLTGAYHVPSRTITGSVEKDVAI T0315 84 :HPKVIG 1onxA 155 :IDRVIG T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLP 1onxA 164 :AISDHRSAAPDVYHLANMAAESRVGGLLGGKP T0315 125 :IIIHN 1onxA 198 :TVFHM T0315 130 :REATQDCIDILLEEHAEEVGGIM 1onxA 206 :KKALQPIYDLLENCDVPISKLLP T0315 153 :HS 1onxA 230 :HV T0315 156 :SGSPEIADIVTN 1onxA 232 :NRNVPLFEQALE T0315 168 :KLNFYISLGGPVTF 1onxA 246 :RKGGTIDITSSIDE T0315 182 :KNAKQPKEVAKH 1onxA 262 :APAEGIARAVQA T0315 194 :VSMERLLVETDAP 1onxA 275 :IPLARVTLSSDGN T0315 207 :YLSPHP 1onxA 292 :FFDDEG T0315 217 :RNEPARVTLVAEQIAE 1onxA 304 :VAGFETLLETVQVLVK T0315 235 :GLSYEEVCEQTTKNAEKLFNLN 1onxA 322 :DFSISDALRPLTSSVAGFLNLT Number of specific fragments extracted= 19 number of extra gaps= 1 total=1766 Number of alignments=110 # 1onxA read from 1onxA/merged-good-all-a2m # found chain 1onxA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1onxA)C163 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1onxA)C163 Warning: unaligning (T0315)L233 because of BadResidue code BAD_PEPTIDE in next template residue (1onxA)Y321 Warning: unaligning (T0315)K234 because of BadResidue code BAD_PEPTIDE at template residue (1onxA)Y321 T0315 2 :LIDTHVHL 1onxA 64 :FIDQHVHL T0315 10 :NDEQYDD 1onxA 79 :GPTTRTP T0315 22 :ITRAREAGVDRMFVV 1onxA 89 :LSRLTEAGVTSVVGL T0315 37 :GFNKST 1onxA 105 :GTDSIS T0315 43 :IERAMKLIDEYDF 1onxA 113 :PESLLAKTRALNE T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESL 1onxA 130 :AWMLTGAYHVPSRTITGSVEKDVAII T0315 85 :PKVIG 1onxA 156 :DRVIG T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLP 1onxA 164 :AISDHRSAAPDVYHLANMAAESRVGGLLGGKP T0315 125 :IIIHN 1onxA 198 :TVFHM T0315 130 :REATQDCIDILLEEHAEEVGGIMHSFSGSPEIADI 1onxA 206 :KKALQPIYDLLENCDVPISKLLPTHVNRNVPLFEQ T0315 166 :TNKL 1onxA 241 :ALEF T0315 170 :NFYISLGGPVTFK 1onxA 248 :GGTIDITSSIDEP T0315 185 :KQPKEVAKH 1onxA 261 :VAPAEGIAR T0315 194 :VSMERLLVETDA 1onxA 275 :IPLARVTLSSDG T0315 206 :PYLSPHPYRG 1onxA 291 :PFFDDEGNLT T0315 216 :KRNEPARVTLVAEQIAE 1onxA 303 :GVAGFETLLETVQVLVK T0315 235 :GLSYEEV 1onxA 322 :DFSISDA Number of specific fragments extracted= 17 number of extra gaps= 1 total=1783 Number of alignments=111 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2gokA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2gokA expands to /projects/compbio/data/pdb/2gok.pdb.gz 2gokA:# T0315 read from 2gokA/merged-good-all-a2m # 2gokA read from 2gokA/merged-good-all-a2m # adding 2gokA to template set # found chain 2gokA in template set T0315 2 :LIDTHVHLNDEQY 2gokA 82 :LIDCHTHLVFGGN T0315 15 :DDDLSEVITRAREAGVDRMFVV 2gokA 134 :VAQALPRLDTLLSEGVSTIEIK T0315 37 :GFNKSTIERAMKLIDEY 2gokA 159 :GLDIETELKMLRVARRL T0315 55 :FLYGIIGWHPV 2gokA 180 :PVRIVTSYLAA T0315 66 :DAIDFTEE 2gokA 196 :DYKGRNAD T0315 74 :HLEWIESLAQHPKVIGI 2gokA 209 :VLPGLEKAHAEGLADAV T0315 91 :GEM 2gokA 227 :GFC T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHNRE 2gokA 230 :EGIAFSVKEIDRVFAAAQQRGLPVKLHAEQ T0315 132 :ATQDCIDILLEEH 2gokA 261 :SNLGGAELAASYN T0315 148 :VGGIMHSFSGSPEIADIVTN 2gokA 274 :ALSADHLEYLDETGAKALAK T0315 169 :LNFYIS 2gokA 294 :AGTVAV T0315 176 :GGP 2gokA 311 :KQL T0315 182 :KNAKQPKEV 2gokA 314 :PPVQALRDA T0315 198 :RLLVETD 2gokA 325 :EIALATD T0315 205 :APYLSPHP 2gokA 333 :NPGTSPLT T0315 222 :RVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 2gokA 341 :SLLLTMNMGATLFRMTVEECLTATTRNAAKALGL Number of specific fragments extracted= 16 number of extra gaps= 0 total=1799 Number of alignments=112 # 2gokA read from 2gokA/merged-good-all-a2m # found chain 2gokA in template set T0315 2 :LIDTHVHLNDEQYDD 2gokA 82 :LIDCHTHLVFGGNRA T0315 17 :DLSEVITRAREAGVDRMFVVG 2gokA 136 :QALPRLDTLLSEGVSTIEIKS T0315 38 :FNKSTIERAMKLIDEY 2gokA 160 :LDIETELKMLRVARRL T0315 54 :DFLYGIIGWH 2gokA 180 :PVRIVTSYLA T0315 64 :PVDAIDFTEEH 2gokA 194 :PADYKGRNADY T0315 75 :LEWIESLAQHPKVIGIGEMG 2gokA 210 :LPGLEKAHAEGLADAVDGFC T0315 99 :WDKSP 2gokA 230 :EGIAF T0315 108 :KEVFRKQIALAKRLKLPIIIHN 2gokA 236 :VKEIDRVFAAAQQRGLPVKLHA T0315 130 :RE 2gokA 263 :LG T0315 136 :CIDILLEEHA 2gokA 265 :GAELAASYNA T0315 149 :GGIMHSFSGSPEIADIVTN 2gokA 275 :LSADHLEYLDETGAKALAK T0315 169 :LNFYISLG 2gokA 294 :AGTVAVLL T0315 182 :KNAKQPKEV 2gokA 314 :PPVQALRDA T0315 198 :RLLVETDAPY 2gokA 325 :EIALATDCNP T0315 216 :KRNEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 2gokA 335 :GTSPLTSLLLTMNMGATLFRMTVEECLTATTRNAAKALGL Number of specific fragments extracted= 15 number of extra gaps= 0 total=1814 Number of alignments=113 # 2gokA read from 2gokA/merged-good-all-a2m # found chain 2gokA in template set T0315 2 :LIDTHVHLNDEQYDD 2gokA 82 :LIDCHTHLVFGGNRA T0315 17 :DLSEVITRAREAGVDRMFVV 2gokA 136 :QALPRLDTLLSEGVSTIEIK T0315 37 :GFNKSTIERAMKLIDEYDF 2gokA 159 :GLDIETELKMLRVARRLET T0315 57 :YGIIGW 2gokA 183 :IVTSYL T0315 63 :HPVDAIDFTEEH 2gokA 193 :TPADYKGRNADY T0315 75 :LEWIESLAQHPKVIGIGEMGLDYHW 2gokA 210 :LPGLEKAHAEGLADAVDGFCEGIAF T0315 103 :P 2gokA 235 :S T0315 108 :KEVFRKQIALAKRLKLPIIIHN 2gokA 236 :VKEIDRVFAAAQQRGLPVKLHA T0315 136 :CIDILLEEH 2gokA 265 :GAELAASYN T0315 148 :VGGIMHSFSGSPEIADI 2gokA 274 :ALSADHLEYLDETGAKA T0315 166 :TNKLNFYISLG 2gokA 291 :LAKAGTVAVLL T0315 181 :FK 2gokA 310 :EK T0315 183 :NAKQPKEV 2gokA 315 :PVQALRDA T0315 195 :SM 2gokA 323 :GA T0315 198 :RLLVETDAPYLSPH 2gokA 325 :EIALATDCNPGTSP T0315 220 :PARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLFNL 2gokA 339 :LTSLLLTMNMGATLFRMTVEECLTATTRNAAKALGL Number of specific fragments extracted= 16 number of extra gaps= 0 total=1830 Number of alignments=114 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1gkpA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1gkpA/merged-good-all-a2m # 1gkpA read from 1gkpA/merged-good-all-a2m # found chain 1gkpA in training set Warning: unaligning (T0315)D15 because of BadResidue code BAD_PEPTIDE at template residue (1gkpA)K72 Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gkpA)I151 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gkpA)I151 T0315 1 :MLIDTHVHLND 1gkpA 54 :GFIDPHVHIYL T0315 14 :Y 1gkpA 67 :M T0315 16 :DDLSEVITRAREAGVDRMFVVGFNK 1gkpA 73 :DTHETGSKAALMGGTTTYIEMCCPS T0315 41 :ST 1gkpA 99 :ND T0315 43 :IERAMKLID 1gkpA 106 :YQLWKSKAE T0315 54 :DFLYGIIGWHPV 1gkpA 115 :GNSYCDYTFHMA T0315 67 :AIDFTEEHLEWIESLAQH 1gkpA 127 :VSKFDEKTEGQLREIVAD T0315 86 :KVIG 1gkpA 145 :GISS T0315 93 :M 1gkpA 152 :F T0315 95 :LDYHWDKSP 1gkpA 153 :LSYKNFFGV T0315 107 :QKEVFRKQIALAKRLKLPIIIHNRE 1gkpA 162 :DDGEMYQTLRLAKELGVIVTAHCEN T0315 132 :ATQDCIDILLEE 1gkpA 220 :GTARFATFLETT T0315 146 :EEVGGIMHSFSGS 1gkpA 232 :GATGYVVHLSCKP T0315 160 :EIADIVTN 1gkpA 247 :DAAMAAKA T0315 169 :LNFYIS 1gkpA 255 :RGVPIY T0315 175 :LGGPVT 1gkpA 287 :MSPPLR T0315 181 :FKNAKQPKEVAKHVSME 1gkpA 294 :KRNQKVLWDALAQGFID T0315 200 :LVETD 1gkpA 311 :TVGTD T0315 205 :AP 1gkpA 317 :CP T0315 207 :YLSPHPYRGKRNEPAR 1gkpA 325 :LLGKEAFTAIPNGIPA T0315 223 :VTLVAEQI 1gkpA 345 :VNLLYTYG T0315 234 :KGLSYEEVCEQTTKNAEKLFNL 1gkpA 356 :GRLDIHRFVDAASTKAAKLFGL Number of specific fragments extracted= 22 number of extra gaps= 1 total=1852 Number of alignments=115 # 1gkpA read from 1gkpA/merged-good-all-a2m # found chain 1gkpA in training set Warning: unaligning (T0315)I88 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gkpA)I151 Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gkpA)I151 T0315 1 :MLIDTHVHLND 1gkpA 54 :GFIDPHVHIYL T0315 14 :YDD 1gkpA 66 :FMA T0315 17 :DLSEVITRAREAGVDRMFVVGFN 1gkpA 74 :THETGSKAALMGGTTTYIEMCCP T0315 40 :KSTIERAMKLID 1gkpA 103 :LEGYQLWKSKAE T0315 54 :DFLYGIIGWH 1gkpA 115 :GNSYCDYTFH T0315 65 :VDAIDFTEEHLEWIESLAQHP 1gkpA 125 :MAVSKFDEKTEGQLREIVADG T0315 86 :KV 1gkpA 147 :SS T0315 91 :GEM 1gkpA 152 :FLS T0315 97 :YHWDKSPA 1gkpA 155 :YKNFFGVD T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1gkpA 163 :DGEMYQTLRLAKELGVIVTAHC T0315 130 :REATQDCIDILLEEH 1gkpA 218 :AEGTARFATFLETTG T0315 148 :VGGIM 1gkpA 233 :ATGYV T0315 153 :HSF 1gkpA 239 :HLS T0315 157 :GSP 1gkpA 242 :CKP T0315 160 :EIADIVTN 1gkpA 247 :DAAMAAKA T0315 169 :LNFYISLGGPVTF 1gkpA 255 :RGVPIYIESVIPH T0315 182 :KNAKQPKEVAKHVSME 1gkpA 295 :RNQKVLWDALAQGFID T0315 200 :LVETDA 1gkpA 311 :TVGTDH T0315 207 :YLSPHPYRGK 1gkpA 325 :LLGKEAFTAI T0315 217 :RNEPARVTLVAEQI 1gkpA 339 :PAIEDRVNLLYTYG T0315 235 :GLSYEEVCEQTTKNAEKLFNL 1gkpA 357 :RLDIHRFVDAASTKAAKLFGL Number of specific fragments extracted= 21 number of extra gaps= 0 total=1873 Number of alignments=116 # 1gkpA read from 1gkpA/merged-good-all-a2m # found chain 1gkpA in training set Warning: unaligning (T0315)M33 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1gkpA)I151 Warning: unaligning (T0315)V35 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1gkpA)I151 T0315 2 :LIDTHVHLNDEQYDDDLSEVITRAREAGVDR 1gkpA 118 :YCDYTFHMAVSKFDEKTEGQLREIVADGISS T0315 36 :V 1gkpA 152 :F T0315 37 :GFNKSTIERAMKLIDEYD 1gkpA 160 :GVDDGEMYQTLRLAKELG T0315 56 :LYGIIGWH 1gkpA 178 :VIVTAHCE T0315 70 :FTEEHLEWIESLAQHPK 1gkpA 186 :NAELVGRLQQKLLSEGK T0315 93 :MGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1gkpA 203 :TGPEWHEPSRPEAVEAEGTARFATFLETTGATGYVVH T0315 132 :ATQDCIDILLEEHAEEVGGIMHSF 1gkpA 241 :SCKPALDAAMAAKARGVPIYIESV T0315 156 :SGSPEIADI 1gkpA 277 :RGGVEAMKY T0315 175 :LGGPVTFK 1gkpA 287 :MSPPLRDK T0315 183 :NAKQPKEVAKH 1gkpA 296 :NQKVLWDALAQ T0315 194 :V 1gkpA 309 :I T0315 197 :E 1gkpA 310 :D T0315 200 :LVETDA 1gkpA 311 :TVGTDH T0315 209 :SPHP 1gkpA 317 :CPFD T0315 213 :YRG 1gkpA 354 :SRG T0315 235 :GLSYEEVCEQTTKNAEKLFN 1gkpA 357 :RLDIHRFVDAASTKAAKLFG Number of specific fragments extracted= 16 number of extra gaps= 0 total=1889 Number of alignments=117 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1o0yA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1o0yA expands to /projects/compbio/data/pdb/1o0y.pdb.gz 1o0yA:# T0315 read from 1o0yA/merged-good-all-a2m # 1o0yA read from 1o0yA/merged-good-all-a2m # adding 1o0yA to template set # found chain 1o0yA in template set Warning: unaligning (T0315)G149 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0315)G150 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0315)M152 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)S181 Warning: unaligning (T0315)H153 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0315)F155 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 Warning: unaligning (T0315)S156 because of BadResidue code BAD_PEPTIDE at template residue (1o0yA)F184 T0315 5 :THVHLNDEQYDDDLSEVITRAREAGVDRMFV 1o0yA 36 :EHTNLKPFATPDDIKKLCLEARENRFHGVCV T0315 39 :NKSTIERAMKLIDEYD 1o0yA 67 :NPCYVKLAREELEGTD T0315 55 :FLYGIIGW 1o0yA 84 :KVVTVVGF T0315 65 :VDAIDFTEEHLEWIESLAQ 1o0yA 92 :PLGANETRTKAHEAIFAVE T0315 84 :HPKVIGI 1o0yA 112 :GADEIDM T0315 92 :EMGLDYHWDK 1o0yA 119 :VINVGMLKAK T0315 107 :QKEVFRKQIALAKRL 1o0yA 129 :EWEYVYEDIRSVVES T0315 122 :KLPIIIHNRE 1o0yA 146 :GKVVKVIIET T0315 132 :ATQDCIDILL 1o0yA 159 :DTEEKIAACV T0315 143 :EHAEEV 1o0yA 171 :KLAGAH T0315 151 :I 1o0yA 179 :K T0315 154 :S 1o0yA 182 :T T0315 157 :G 1o0yA 185 :G T0315 158 :SPEIADIVTNKLN 1o0yA 190 :TAEDVHLMKWIVG T0315 171 :FYISLGGPV 1o0yA 205 :MGVKASGGI T0315 182 :KNAKQPKEVAKHVS 1o0yA 214 :RTFEDAVKMIMYGA T0315 197 :ERLLVET 1o0yA 228 :DRIGTSS T0315 223 :VTLVAEQIAE 1o0yA 235 :GVKIVQGGEE Number of specific fragments extracted= 18 number of extra gaps= 3 total=1907 Number of alignments=118 # 1o0yA read from 1o0yA/merged-good-all-a2m # found chain 1o0yA in template set Warning: unaligning (T0315)G150 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0315)I151 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0315)H153 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0315)F155 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 Warning: unaligning (T0315)S156 because of BadResidue code BAD_PEPTIDE at template residue (1o0yA)F184 T0315 5 :THVHLNDEQYDDDLSEVITRAREAGVDRMFV 1o0yA 36 :EHTNLKPFATPDDIKKLCLEARENRFHGVCV T0315 39 :NKSTIERAMKLIDEYD 1o0yA 67 :NPCYVKLAREELEGTD T0315 55 :FLYGIIGW 1o0yA 84 :KVVTVVGF T0315 65 :VDAIDFTEEHLEWIESLAQHP 1o0yA 92 :PLGANETRTKAHEAIFAVESG T0315 86 :KVIGIG 1o0yA 114 :DEIDMV T0315 93 :MG 1o0yA 120 :IN T0315 97 :Y 1o0yA 122 :V T0315 100 :DKSPADVQKEVFRKQIAL 1o0yA 126 :KAKEWEYVYEDIRSVVES T0315 122 :KLPIIIHN 1o0yA 146 :GKVVKVII T0315 130 :RE 1o0yA 158 :LD T0315 133 :TQD 1o0yA 160 :TEE T0315 136 :CIDILLEEHA 1o0yA 166 :ACVISKLAGA T0315 149 :G 1o0yA 176 :H T0315 152 :M 1o0yA 179 :K T0315 154 :S 1o0yA 182 :T T0315 157 :G 1o0yA 185 :G T0315 158 :SPEIADIVTN 1o0yA 190 :TAEDVHLMKW T0315 168 :KLNFYISLGGPVT 1o0yA 202 :GDEMGVKASGGIR T0315 183 :NAKQPKEVAKHVS 1o0yA 215 :TFEDAVKMIMYGA T0315 197 :ERLL 1o0yA 228 :DRIG T0315 203 :TD 1o0yA 232 :TS T0315 222 :RVTLVAEQIAE 1o0yA 234 :SGVKIVQGGEE Number of specific fragments extracted= 22 number of extra gaps= 3 total=1929 Number of alignments=119 # 1o0yA read from 1o0yA/merged-good-all-a2m # found chain 1o0yA in template set Warning: unaligning (T0315)G150 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)V178 Warning: unaligning (T0315)I151 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)V178 Warning: unaligning (T0315)H153 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1o0yA)S181 Warning: unaligning (T0315)S154 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1o0yA)S181 Warning: unaligning (T0315)S156 because of BadResidue code BAD_PEPTIDE in next template residue (1o0yA)F184 Warning: unaligning (T0315)G157 because of BadResidue code BAD_PEPTIDE at template residue (1o0yA)F184 T0315 5 :THVHLNDEQYDDDLSEVITRAREAGVDRMFV 1o0yA 36 :EHTNLKPFATPDDIKKLCLEARENRFHGVCV T0315 39 :NKSTIERAMKLIDEYDFLYGII 1o0yA 67 :NPCYVKLAREELEGTDVKVVTV T0315 62 :WHPVDAIDFTEEHLEWIESLA 1o0yA 89 :VGFPLGANETRTKAHEAIFAV T0315 83 :QHPKVIGI 1o0yA 112 :GADEIDMV T0315 100 :DKSPADVQKEVFRKQIAL 1o0yA 126 :KAKEWEYVYEDIRSVVES T0315 122 :KLPIIIHN 1o0yA 146 :GKVVKVII T0315 130 :REATQD 1o0yA 156 :CYLDTE T0315 136 :CIDILLEEHA 1o0yA 166 :ACVISKLAGA T0315 149 :G 1o0yA 176 :H T0315 152 :M 1o0yA 179 :K T0315 155 :F 1o0yA 182 :T T0315 158 :SPEIADI 1o0yA 190 :TAEDVHL T0315 166 :TNKL 1o0yA 197 :MKWI T0315 170 :NFYISLGGPVT 1o0yA 204 :EMGVKASGGIR T0315 183 :NAKQPKEVAKH 1o0yA 215 :TFEDAVKMIMY T0315 195 :SMERLLV 1o0yA 226 :GADRIGT T0315 221 :ARVTLVAEQIAE 1o0yA 233 :SSGVKIVQGGEE Number of specific fragments extracted= 17 number of extra gaps= 3 total=1946 Number of alignments=120 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2f6kA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2f6kA expands to /projects/compbio/data/pdb/2f6k.pdb.gz 2f6kA: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 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 # T0315 read from 2f6kA/merged-good-all-a2m # 2f6kA read from 2f6kA/merged-good-all-a2m # adding 2f6kA to template set # found chain 2f6kA in template set T0315 2 :LIDTHVHLNDEQY 2f6kA 3 :KIDFHTHYLPTSY T0315 15 :DDDLSEVITRAREAGVDRMFVV 2f6kA 34 :EWTPQLTLNFMRDNDISYSILS T0315 37 :GFNKST 2f6kA 60 :HVNFGD T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 2f6kA 77 :NDDGKSLAQQYPDQLGYLASLPI T0315 69 :DFTEEHLEWIESLAQHPKVIGIGEM 2f6kA 100 :PYELDAVKTVQQALDQDGALGVTVP T0315 94 :GLDYHWDKSP 2f6kA 126 :NSRGLYFGSP T0315 111 :FRKQIALAKRLKLPIIIHNRE 2f6kA 137 :LERVYQELDARQAIVALHPNE T0315 132 :ATQDCIDILL 2f6kA 180 :TTMTFINMLK T0315 142 :EEHAEEVGGIMHSFSG 2f6kA 194 :EKYPNIKVIIPHAGAF T0315 158 :SP 2f6kA 211 :GI T0315 160 :EIADI 2f6kA 219 :QYAQK T0315 165 :VTN 2f6kA 232 :VMH T0315 171 :FYISLGGPV 2f6kA 236 :VYFDVAGAV T0315 183 :NAKQPKEVAKHVSMERLLVETDAPYLSP 2f6kA 245 :LPRQLPTLMSLAQPEHLLYGSDIPYTPL T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLF 2f6kA 273 :DGSRQLGHALATTDLLTNEQKQAIFYDNAHRLL Number of specific fragments extracted= 15 number of extra gaps= 0 total=1961 Number of alignments=121 # 2f6kA read from 2f6kA/merged-good-all-a2m # found chain 2f6kA in template set T0315 1 :MLIDTHVHLNDEQYDD 2f6kA 2 :SKIDFHTHYLPTSYVE T0315 17 :DLSEVITRAREAGVDRMFVV 2f6kA 36 :TPQLTLNFMRDNDISYSILS T0315 37 :GFNKST 2f6kA 60 :HVNFGD T0315 43 :IERAMKLIDEYD 2f6kA 77 :NDDGKSLAQQYP T0315 55 :FLYGIIG 2f6kA 90 :QLGYLAS T0315 63 :HP 2f6kA 97 :LP T0315 68 :IDFTEEHLEWIESLAQHPK 2f6kA 99 :IPYELDAVKTVQQALDQDG T0315 87 :VIGIGEMGLDYHWDKSP 2f6kA 119 :LGVTVPTNSRGLYFGSP T0315 111 :FRKQIALAKRLKLPIIIHN 2f6kA 137 :LERVYQELDARQAIVALHP T0315 136 :CIDILLEE 2f6kA 184 :FINMLKYH T0315 144 :HAEEVGGIM 2f6kA 195 :KYPNIKVII T0315 153 :HSFSG 2f6kA 205 :HAGAF T0315 160 :EIADI 2f6kA 219 :QYAQK T0315 165 :VTN 2f6kA 232 :VMH T0315 171 :FYISLGGPVT 2f6kA 236 :VYFDVAGAVL T0315 184 :AKQPKEVAKHVSMERLLVETDAPY 2f6kA 246 :PRQLPTLMSLAQPEHLLYGSDIPY T0315 218 :NEPARVTLVAEQIAELKGLSYEEVCEQTTKNAEKLF 2f6kA 270 :TPLDGSRQLGHALATTDLLTNEQKQAIFYDNAHRLL Number of specific fragments extracted= 17 number of extra gaps= 0 total=1978 Number of alignments=122 # 2f6kA read from 2f6kA/merged-good-all-a2m # found chain 2f6kA in template set T0315 2 :LIDTHVHLNDEQYDD 2f6kA 3 :KIDFHTHYLPTSYVE T0315 17 :DLSEVITRAREAGVDRMFVVGF 2f6kA 36 :TPQLTLNFMRDNDISYSILSLS T0315 39 :NKST 2f6kA 65 :DKAE T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 2f6kA 77 :NDDGKSLAQQYPDQLGYLASLPI T0315 69 :DFTEEHLEWIESLA 2f6kA 100 :PYELDAVKTVQQAL T0315 83 :QHPKVIGIGEMGLDYHWDKSP 2f6kA 115 :QDGALGVTVPTNSRGLYFGSP T0315 111 :FRKQIALAKRLKLPIIIHN 2f6kA 137 :LERVYQELDARQAIVALHP T0315 136 :CIDILL 2f6kA 184 :FINMLK T0315 143 :EH 2f6kA 190 :YH T0315 145 :AEEVGGIM 2f6kA 196 :YPNIKVII T0315 159 :PEIADIV 2f6kA 218 :AQYAQKV T0315 166 :TNKL 2f6kA 229 :VYDV T0315 170 :NFYISLGGPVTF 2f6kA 235 :HVYFDVAGAVLP T0315 185 :KQPKEVAKHVSMERLLVETDAPYLSP 2f6kA 247 :RQLPTLMSLAQPEHLLYGSDIPYTPL T0315 221 :ARVTLVAEQIAELKGLSYEE 2f6kA 273 :DGSRQLGHALATTDLLTNEQ T0315 242 :CEQT 2f6kA 293 :KQAI T0315 246 :TKNAEKLF 2f6kA 298 :YDNAHRLL Number of specific fragments extracted= 17 number of extra gaps= 0 total=1995 Number of alignments=123 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1a4mA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1a4mA expands to /projects/compbio/data/pdb/1a4m.pdb.gz 1a4mA:# T0315 read from 1a4mA/merged-good-all-a2m # 1a4mA read from 1a4mA/merged-good-all-a2m # adding 1a4mA to template set # found chain 1a4mA in template set T0315 1 :MLIDTHVHLNDEQY 1a4mA 10 :PKVELHVHLDGAIK T0315 18 :LSEVITRAREAGVDRMFVV 1a4mA 83 :AYEFVEMKAKEGVVYVEVR T0315 37 :GFNKST 1a4mA 111 :KVDPMP T0315 43 :IERAMKLIDEYD 1a4mA 134 :NQGLQEGEQAFG T0315 55 :FLYGIIGWHPV 1a4mA 147 :KVRSILCCMRH T0315 67 :AIDFTEEHLEWIESLAQHP 1a4mA 158 :QPSWSLEVLELCKKYNQKT T0315 87 :VIGIGEMG 1a4mA 177 :VVAMDLAG T0315 96 :DYHWDKS 1a4mA 185 :DETIEGS T0315 104 :A 1a4mA 194 :F T0315 109 :EVFRKQIALAKRLKLPIIIHNRE 1a4mA 195 :PGHVEAYEGAVKNGIHRTVHAGE T0315 132 :ATQDCIDILLEEH 1a4mA 219 :GSPEVVREAVDIL T0315 147 :EVGGIMHSFSG 1a4mA 232 :KTERVGHGYHT T0315 158 :SPEIADIVTN 1a4mA 245 :DEALYNRLLK T0315 169 :LNFYIS 1a4mA 255 :ENMHFE T0315 175 :L 1a4mA 269 :T T0315 177 :GPV 1a4mA 270 :GAW T0315 183 :NAKQ 1a4mA 273 :DPKT T0315 187 :PKEVAKH 1a4mA 280 :VVRFKND T0315 198 :RLLVETDAPYLSP 1a4mA 289 :NYSLNTDDPLIFK T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTT 1a4mA 302 :STLDTDYQMTKKDMGFTEEEFKRLNI T0315 248 :NAEK 1a4mA 328 :NAAK Number of specific fragments extracted= 21 number of extra gaps= 0 total=2016 Number of alignments=124 # 1a4mA read from 1a4mA/merged-good-all-a2m # found chain 1a4mA in template set T0315 1 :MLIDTHVHLND 1a4mA 10 :PKVELHVHLDG T0315 14 :YDD 1a4mA 21 :AIK T0315 18 :LSEVITRAREAGVDRMFVVGFN 1a4mA 83 :AYEFVEMKAKEGVVYVEVRYSP T0315 40 :KST 1a4mA 126 :PDD T0315 43 :IERAMKLIDEYD 1a4mA 134 :NQGLQEGEQAFG T0315 55 :FLYGIIGWHP 1a4mA 147 :KVRSILCCMR T0315 66 :DAIDFTEEHLEWIESLAQHP 1a4mA 157 :HQPSWSLEVLELCKKYNQKT T0315 87 :VIGIGEMG 1a4mA 177 :VVAMDLAG T0315 96 :DYHWDKSP 1a4mA 185 :DETIEGSS T0315 104 :ADV 1a4mA 194 :FPG T0315 111 :FRKQIALAKRLKLPIIIHN 1a4mA 197 :HVEAYEGAVKNGIHRTVHA T0315 130 :REATQDCIDILL 1a4mA 218 :VGSPEVVREAVD T0315 144 :H 1a4mA 230 :I T0315 147 :EVGGIMHSF 1a4mA 232 :KTERVGHGY T0315 157 :GSPEIADIVTN 1a4mA 244 :EDEALYNRLLK T0315 169 :LNFYISLG 1a4mA 255 :ENMHFEVC T0315 177 :GPVTFKNAKQPKEVAKH 1a4mA 270 :GAWDPKTTHAVVRFKND T0315 198 :RLLVETDAPYLSP 1a4mA 289 :NYSLNTDDPLIFK T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTT 1a4mA 302 :STLDTDYQMTKKDMGFTEEEFKRLNI T0315 248 :NAEK 1a4mA 328 :NAAK Number of specific fragments extracted= 20 number of extra gaps= 0 total=2036 Number of alignments=125 # 1a4mA read from 1a4mA/merged-good-all-a2m # found chain 1a4mA in template set T0315 20 :EVITRAREAGVDRMFVVGFNK 1a4mA 85 :EFVEMKAKEGVVYVEVRYSPH T0315 43 :IERAMKLIDEYDFLYGIIGWHPVDAIDFTEEHLEWIESLAQH 1a4mA 134 :NQGLQEGEQAFGIKVRSILCCMRHQPSWSLEVLELCKKYNQK T0315 86 :KVIGIGEMGLDYHWDKSPADVQKEVFRK 1a4mA 176 :TVVAMDLAGDETIEGSSLFPGHVEAYEG T0315 118 :AKRLKLPIIIHN 1a4mA 204 :AVKNGIHRTVHA T0315 133 :TQ 1a4mA 221 :PE T0315 136 :CIDILLEEH 1a4mA 223 :VVREAVDIL T0315 147 :EVGGIMHSFS 1a4mA 232 :KTERVGHGYH T0315 157 :GSPEIADI 1a4mA 244 :EDEALYNR T0315 166 :TNKLNFYISL 1a4mA 252 :LLKENMHFEV T0315 176 :GGPVTFKNAKQPKEVAKH 1a4mA 269 :TGAWDPKTTHAVVRFKND T0315 198 :RLLVETDAPYLSPH 1a4mA 289 :NYSLNTDDPLIFKS T0315 222 :RVTLVAEQIAELKGLSYEEVCE 1a4mA 303 :TLDTDYQMTKKDMGFTEEEFKR T0315 245 :TTKNAEK 1a4mA 325 :LNINAAK Number of specific fragments extracted= 13 number of extra gaps= 0 total=2049 Number of alignments=126 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1m7jA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1m7jA expands to /projects/compbio/data/pdb/1m7j.pdb.gz 1m7jA:# T0315 read from 1m7jA/merged-good-all-a2m # 1m7jA read from 1m7jA/merged-good-all-a2m # adding 1m7jA to template set # found chain 1m7jA in template set T0315 1 :MLIDTHVHLN 1m7jA 62 :GFIDSHTHDD T0315 11 :DEQY 1m7jA 77 :HRDM T0315 28 :AGVDRMFVV 1m7jA 86 :QGVTTVVTG T0315 37 :GFNK 1m7jA 99 :SLAP T0315 41 :ST 1m7jA 106 :AN T0315 43 :IERAMKLIDEYDFLYGIIGWHPV 1m7jA 126 :FSDYLEALRAAPPAVNAACMVGH T0315 66 :DA 1m7jA 158 :DL T0315 68 :IDFTEEHLEWIESLAQ 1m7jA 161 :REATADEIQAMQALAD T0315 84 :HPKVIGIGEMGLDYHWDKSP 1m7jA 180 :ASGAIGISTGAFYPPAAHAS T0315 108 :KEVFRKQIALAKRLKLPIIIHNRE 1m7jA 200 :TEEIIEVCRPLITHGGVYATHMRD T0315 132 :ATQDCIDILLEE 1m7jA 231 :ALEETFRIGREL T0315 146 :EEVGGIMHSFSGSP 1m7jA 243 :DVPVVISHHKVMGK T0315 160 :EIADIVTNKLNFYIS 1m7jA 267 :ALIEAAMASQDVSLD T0315 182 :KNAKQPKEVAKH 1m7jA 347 :MDEPDVQRILAF T0315 197 :ERLLVETDAPYLSPHPYR 1m7jA 359 :GPTMIGSDGLPHDERPHP T0315 218 :NEPARVTLVAEQIAELKG 1m7jA 377 :RLWGTFPRVLGHYSRDLG T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1m7jA 396 :FPLETAVWKMTGLTAAKFGLA Number of specific fragments extracted= 17 number of extra gaps= 0 total=2066 Number of alignments=127 # 1m7jA read from 1m7jA/merged-good-all-a2m # found chain 1m7jA in template set T0315 1 :MLIDTHVHLN 1m7jA 62 :GFIDSHTHDD T0315 17 :DLSEVITRARE 1m7jA 125 :RFSDYLEALRA T0315 31 :DRMFVV 1m7jA 140 :VNAACM T0315 37 :GFNKSTIERAMKLIDEY 1m7jA 162 :EATADEIQAMQALADDA T0315 54 :DFLYGIIG 1m7jA 182 :GAIGISTG T0315 62 :WHP 1m7jA 191 :FYP T0315 66 :DAIDFTEEHLEWIESLAQHPKVIGIGEM 1m7jA 194 :PAAHASTEEIIEVCRPLITHGGVYATHM T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIII 1m7jA 222 :RDEGEHIVQALEETFRIGRELDVPVVI T0315 128 :HN 1m7jA 250 :HH T0315 130 :REATQDCIDILLEE 1m7jA 259 :FGRSKETLALIEAA T0315 166 :TNKLNFYISLGGPVTF 1m7jA 273 :MASQDVSLDAYPYVAG T0315 185 :KQPKEVAKH 1m7jA 350 :PDVQRILAF T0315 197 :ERLLVETDAPYLS 1m7jA 359 :GPTMIGSDGLPHD T0315 216 :KRNEPAR 1m7jA 372 :ERPHPRL T0315 223 :VTLVAEQIAELKG 1m7jA 382 :FPRVLGHYSRDLG T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1m7jA 396 :FPLETAVWKMTGLTAAKFGLA Number of specific fragments extracted= 16 number of extra gaps= 0 total=2082 Number of alignments=128 # 1m7jA read from 1m7jA/merged-good-all-a2m # found chain 1m7jA in template set T0315 11 :DEQYDD 1m7jA 114 :LLDEGG T0315 17 :DLSEVITRARE 1m7jA 125 :RFSDYLEALRA T0315 31 :DRMFVVG 1m7jA 140 :VNAACMV T0315 38 :FNKSTIERAMKLIDEYDF 1m7jA 163 :ATADEIQAMQALADDALA T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESLA 1m7jA 184 :IGISTGAFYPPAAHASTEEIIEVCRPL T0315 83 :QHPKVIGIGE 1m7jA 212 :THGGVYATHM T0315 97 :YHW 1m7jA 222 :RDE T0315 100 :DK 1m7jA 226 :EH T0315 107 :QKEVFRKQIALAKRLKLPIIIHN 1m7jA 228 :IVQALEETFRIGRELDVPVVISH T0315 130 :REATQDCIDILLEEHAE 1m7jA 259 :FGRSKETLALIEAAMAS T0315 148 :VGGIMHSFSG 1m7jA 276 :QDVSLDAYPY T0315 172 :Y 1m7jA 286 :V T0315 176 :GGPVTFKNAK 1m7jA 287 :AGSTMLKQDR T0315 192 :KHV 1m7jA 297 :VLL T0315 196 :MERLLVETD 1m7jA 300 :AGRTLITWC T0315 205 :APYLSPHP 1m7jA 311 :YPELSGRD T0315 227 :AEQIAELKGLSYEEVC 1m7jA 319 :LEEIAAERGKSKYDVV Number of specific fragments extracted= 17 number of extra gaps= 0 total=2099 Number of alignments=129 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ra0A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1ra0A/merged-good-all-a2m # 1ra0A read from 1ra0A/merged-good-all-a2m # found chain 1ra0A in training set T0315 2 :LIDTHVHLNDEQY 1ra0A 57 :FVEPHIHLDTTQT T0315 15 :DDDLSEVITRAREAGVDRMFV 1ra0A 101 :KQRAWQTLKWQIANGIQHVRT T0315 36 :VGFNKST 1ra0A 123 :VDVSDAT T0315 43 :IERAMKLIDEYD 1ra0A 133 :LKAMLEVKQEVA T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESLAQH 1ra0A 146 :WIDLQIVAFPQEGILSYPNGEALLEEALRL T0315 86 :KVIGIGEM 1ra0A 176 :GADVVGAI T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1ra0A 184 :PHFEFTREYGVESLHKTFALAQKYDRLIDVHC T0315 132 :ATQDCIDILLEEHAEEVGGIMHSF 1ra0A 225 :FVETVAALAHHEGMGARVTASHTT T0315 156 :SGSPEIADIVTN 1ra0A 252 :SYNGAYTSRLFR T0315 168 :KLNFYIS 1ra0A 267 :MSGINFV T0315 177 :GPVTFKNAKQ 1ra0A 285 :RFDTYPKRRG T0315 187 :PKEVAKHVS 1ra0A 298 :VKEMLESGI T0315 198 :RLLVETD 1ra0A 307 :NVCFGHD T0315 205 :APYLSP 1ra0A 317 :DPWYPL T0315 219 :EPARVTLVAEQIAELKG 1ra0A 323 :GTANMLQVLHMGLHVCQ T0315 236 :LSYEEVCEQT 1ra0A 341 :MGYGQINDGL T0315 246 :TKNAEKLFNLN 1ra0A 354 :THHSARTLNLQ Number of specific fragments extracted= 17 number of extra gaps= 0 total=2116 Number of alignments=130 # 1ra0A read from 1ra0A/merged-good-all-a2m # found chain 1ra0A in training set T0315 2 :LIDTHVHLNDEQYDD 1ra0A 57 :FVEPHIHLDTTQTAG T0315 17 :DLSEVITRAREAGVDRM 1ra0A 103 :RAWQTLKWQIANGIQHV T0315 34 :FVVGFN 1ra0A 121 :THVDVS T0315 40 :K 1ra0A 128 :A T0315 41 :STIERAMKLIDEYD 1ra0A 131 :TALKAMLEVKQEVA T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESLAQHP 1ra0A 146 :WIDLQIVAFPQEGILSYPNGEALLEEALRLG T0315 86 :KV 1ra0A 178 :DV T0315 90 :IGEM 1ra0A 180 :VGAI T0315 96 :DYH 1ra0A 184 :PHF T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIIIHN 1ra0A 187 :EFTREYGVESLHKTFALAQKYDRLIDVHC T0315 130 :REATQDCIDILLEEHAEEVGGIMHS 1ra0A 223 :SRFVETVAALAHHEGMGARVTASHT T0315 155 :FSGSPEIADIVTN 1ra0A 251 :HSYNGAYTSRLFR T0315 168 :KLNFYISLG 1ra0A 267 :MSGINFVAN T0315 177 :GPVTFKNA 1ra0A 285 :RFDTYPKR T0315 185 :KQPKEVAKHVS 1ra0A 296 :TRVKEMLESGI T0315 198 :RLLVETDA 1ra0A 307 :NVCFGHDG T0315 206 :PYLSP 1ra0A 318 :PWYPL T0315 219 :EPARVTLVAEQIAELKG 1ra0A 323 :GTANMLQVLHMGLHVCQ T0315 236 :LSYEEVCE 1ra0A 341 :MGYGQIND T0315 245 :TTKNAEKLFNLN 1ra0A 353 :ITHHSARTLNLQ Number of specific fragments extracted= 20 number of extra gaps= 0 total=2136 Number of alignments=131 # 1ra0A read from 1ra0A/merged-good-all-a2m # found chain 1ra0A in training set T0315 9 :LNDEQYDDDLSEVITRAREAGVDRMFVVG 1ra0A 95 :LTHDDVKQRAWQTLKWQIANGIQHVRTHV T0315 38 :FNKST 1ra0A 125 :VSDAT T0315 43 :IERAMKLIDEYDF 1ra0A 133 :LKAMLEVKQEVAP T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESLAQH 1ra0A 147 :IDLQIVAFPQEGILSYPNGEALLEEALRL T0315 86 :KVIGIGEMGLDY 1ra0A 176 :GADVVGAIPHFE T0315 102 :SPADVQKEVFRKQIALAKRLKLPIIIHN 1ra0A 188 :FTREYGVESLHKTFALAQKYDRLIDVHC T0315 130 :REATQDCIDILLEEHAEEVGGIMHS 1ra0A 223 :SRFVETVAALAHHEGMGARVTASHT T0315 155 :FSGSPEIADI 1ra0A 251 :HSYNGAYTSR T0315 166 :TNKL 1ra0A 261 :LFRL T0315 170 :NFYISLG 1ra0A 269 :GINFVAN T0315 178 :PVTFKNAK 1ra0A 286 :FDTYPKRR T0315 186 :QPKEVAKH 1ra0A 297 :RVKEMLES T0315 198 :RLLVETDAPYLSPHPYR 1ra0A 307 :NVCFGHDGVFDPWYPLG T0315 220 :PARVTLVAEQIAELKG 1ra0A 324 :TANMLQVLHMGLHVCQ T0315 236 :LSYEEVCE 1ra0A 341 :MGYGQIND Number of specific fragments extracted= 15 number of extra gaps= 0 total=2151 Number of alignments=132 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1fdyA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1fdyA expands to /projects/compbio/data/pdb/1fdy.pdb.gz 1fdyA:# T0315 read from 1fdyA/merged-good-all-a2m # 1fdyA read from 1fdyA/merged-good-all-a2m # adding 1fdyA to template set # found chain 1fdyA in template set T0315 1 :MLIDTHVHLNDEQY 1fdyA 7 :GVMAALLTPFDQQQ T0315 15 :DDDLSEVITRAREAGVDRMFVVG 1fdyA 24 :KASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLI 1fdyA 54 :QSLSEREQVLEIV T0315 51 :DEYD 1fdyA 68 :EEGK T0315 55 :FLYGIIGWHPVDA 1fdyA 73 :KIKLIAHVGCVTT T0315 72 :EEHLEWIESLAQ 1fdyA 86 :AESQQLAASAKR T0315 85 :PKVIGIGEM 1fdyA 98 :YGFDAVSAV T0315 98 :HWDKSP 1fdyA 107 :TPFYYP T0315 104 :ADVQKEVFRKQIALA 1fdyA 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1fdyA 131 :GLPMVVYN T0315 130 :REATQDCIDILLEE 1fdyA 145 :VKLTLDQINTLVTL T0315 146 :EEVGGIMHS 1fdyA 159 :PGVGALKQT T0315 156 :SGSPEIADIVTN 1fdyA 168 :SGDLYQMEQIRR T0315 168 :KLNFYISLGG 1fdyA 181 :HPDLVLYNGY T0315 184 :AKQPKEVAKHVS 1fdyA 191 :DEIFASGLLAGA T0315 197 :ERLLVET 1fdyA 203 :DGGIGST T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQTTK 1fdyA 212 :IMGWRYQGIVKALKEGDIQTAQKLQTE T0315 249 :AEKLFN 1fdyA 239 :CNKVID Number of specific fragments extracted= 18 number of extra gaps= 0 total=2169 Number of alignments=133 # 1fdyA read from 1fdyA/merged-good-all-a2m # found chain 1fdyA in template set T0315 1 :MLIDTHVHLNDEQ 1fdyA 7 :GVMAALLTPFDQQ T0315 17 :DLSEVITRAREAGVDRMFVVG 1fdyA 26 :SLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLIDEY 1fdyA 54 :QSLSEREQVLEIVAEE T0315 54 :D 1fdyA 71 :K T0315 55 :FLYGIIGWHP 1fdyA 73 :KIKLIAHVGC T0315 68 :IDFT 1fdyA 83 :VTTA T0315 72 :EEHLEWIESL 1fdyA 89 :QQLAASAKRY T0315 86 :KVIGIGEMG 1fdyA 99 :GFDAVSAVT T0315 99 :WDKSP 1fdyA 108 :PFYYP T0315 104 :ADVQKEVFRKQIALA 1fdyA 115 :FEEHCDHYRAIIDSA T0315 122 :KLPIIIHN 1fdyA 131 :GLPMVVYN T0315 130 :REATQDCIDILLEE 1fdyA 145 :VKLTLDQINTLVTL T0315 146 :EEVGGIMH 1fdyA 159 :PGVGALKQ T0315 155 :FSGSPEIADIVTN 1fdyA 167 :TSGDLYQMEQIRR T0315 168 :KLNFYISLG 1fdyA 181 :HPDLVLYNG T0315 183 :NAKQPKEVAKHVS 1fdyA 190 :YDEIFASGLLAGA T0315 197 :ERLLVET 1fdyA 203 :DGGIGST T0315 219 :EPARVTLVAEQIAELKGLSYEEVCEQTTK 1fdyA 210 :YNIMGWRYQGIVKALKEGDIQTAQKLQTE T0315 249 :AEKLFN 1fdyA 239 :CNKVID Number of specific fragments extracted= 19 number of extra gaps= 0 total=2188 Number of alignments=134 # 1fdyA read from 1fdyA/merged-good-all-a2m # found chain 1fdyA in template set T0315 1 :MLIDTHVHLNDEQ 1fdyA 8 :VMAALLTPFDQQQ T0315 14 :YDDDLSEVITRAREAGVDRMFVVG 1fdyA 23 :DKASLRRLVQFNIQQGIDGLYVGG T0315 38 :FNKSTIERAMKLI 1fdyA 54 :QSLSEREQVLEIV T0315 51 :DEYDF 1fdyA 68 :EEGKG T0315 56 :LYGIIGWHPV 1fdyA 74 :IKLIAHVGCV T0315 70 :FTEEHLEWIESLA 1fdyA 84 :TTAESQQLAASAK T0315 83 :QHPKVIGI 1fdyA 99 :GFDAVSAV T0315 96 :DYHWDKSPADVQKEVFRKQIALA 1fdyA 107 :TPFYYPFSFEEHCDHYRAIIDSA T0315 122 :KLPIIIHNREA 1fdyA 131 :GLPMVVYNIPA T0315 133 :TQDCIDILL 1fdyA 149 :LDQINTLVT T0315 145 :AEEVGGIM 1fdyA 158 :LPGVGALK T0315 154 :SFSGSPEIADI 1fdyA 166 :QTSGDLYQMEQ T0315 166 :TNKL 1fdyA 177 :IRRE T0315 170 :NFYISLG 1fdyA 183 :DLVLYNG T0315 183 :NAKQPKEVAKHV 1fdyA 190 :YDEIFASGLLAG T0315 196 :MERLLVET 1fdyA 202 :ADGGIGST T0315 221 :ARVTLVAEQIAELKGLSYEEVCEQ 1fdyA 212 :IMGWRYQGIVKALKEGDIQTAQKL T0315 245 :TTKNAEK 1fdyA 239 :CNKVIDL Number of specific fragments extracted= 18 number of extra gaps= 0 total=2206 Number of alignments=135 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1eywA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1eywA expands to /projects/compbio/data/pdb/1eyw.pdb.gz 1eywA:Skipped atom 588, because occupancy 0.500 <= existing 0.500 in 1eywA Bad short name: CX for alphabet: pdb_atoms Bad short name: OQ1 for alphabet: pdb_atoms Bad short name: OQ2 for alphabet: pdb_atoms Skipped atom 2004, because occupancy 0.500 <= existing 0.500 in 1eywA Skipped atom 2006, because occupancy 0.500 <= existing 0.500 in 1eywA # T0315 read from 1eywA/merged-good-all-a2m # 1eywA read from 1eywA/merged-good-all-a2m # adding 1eywA to template set # found chain 1eywA in template set Warning: unaligning (T0315)M93 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eywA)V170 Warning: unaligning (T0315)Y97 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eywA)V170 T0315 1 :MLIDTHVHL 1eywA 50 :GFTLTHEHI T0315 10 :NDEQY 1eywA 69 :WPEFF T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1eywA 80 :AEKAVRGLRRARAAGVRTIVDVST T0315 41 :STIERAMKLIDEYD 1eywA 108 :RDVSLLAEVSRAAD T0315 55 :FLYGIIGWHPV 1eywA 123 :HIVAATGLWFD T0315 69 :DFT 1eywA 140 :LRS T0315 72 :EEHLEWIESLAQ 1eywA 144 :EELTQFFLREIQ T0315 84 :HPKVIG 1eywA 160 :DTGIRA T0315 91 :GE 1eywA 166 :GI T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1eywA 171 :ATTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1eywA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HSF 1eywA 230 :HSD T0315 156 :SGSPEIADIVTN 1eywA 234 :TDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1eywA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQ 1eywA 275 :RSWQT T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGK 1eywA 284 :IKALIDQGYMKQILVSNDWLFGFSSYVTNI T0315 217 :RNEPARVTL 1eywA 322 :PDGMAFIPL T0315 226 :VAEQIAEL 1eywA 332 :VIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNL 1eywA 340 :GVPQETLAGITVTNPARFLSP Number of specific fragments extracted= 19 number of extra gaps= 0 total=2225 Number of alignments=136 # 1eywA read from 1eywA/merged-good-all-a2m # found chain 1eywA in template set Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eywA)V170 Warning: unaligning (T0315)E92 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eywA)V170 T0315 1 :MLIDTHVHL 1eywA 50 :GFTLTHEHI T0315 10 :NDEQYDD 1eywA 69 :WPEFFGS T0315 17 :DLSEVITRAREAGVDRMFVVGF 1eywA 82 :KAVRGLRRARAAGVRTIVDVST T0315 42 :TIERAMKLIDEYD 1eywA 109 :DVSLLAEVSRAAD T0315 55 :FLYGIIGWH 1eywA 123 :HIVAATGLW T0315 64 :PVDAIDFT 1eywA 135 :PLSMRLRS T0315 72 :EEHLEWIESLAQHP 1eywA 144 :EELTQFFLREIQYG T0315 86 :KVIG 1eywA 164 :RAGI T0315 93 :M 1eywA 171 :A T0315 99 :WDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1eywA 172 :TTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1eywA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 1eywA 230 :HS T0315 155 :FSGSPEIADIVTN 1eywA 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1eywA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLS 1eywA 279 :TRALLIKALIDQGYMKQILVSNDWLFGF T0315 219 :EPARVTLVAEQIAE 1eywA 325 :MAFIPLRVIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1eywA 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 17 number of extra gaps= 0 total=2242 Number of alignments=137 # 1eywA read from 1eywA/merged-good-all-a2m # found chain 1eywA in template set Warning: unaligning (T0315)I88 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1eywA)V170 Warning: unaligning (T0315)I90 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1eywA)V170 T0315 2 :LIDTHVHL 1eywA 51 :FTLTHEHI T0315 10 :NDEQYDD 1eywA 69 :WPEFFGS T0315 17 :DLSEVITRAREAGVDRMFVVGF 1eywA 82 :KAVRGLRRARAAGVRTIVDVST T0315 43 :IERAMKLIDEYDF 1eywA 110 :VSLLAEVSRAADV T0315 56 :LYGIIGW 1eywA 124 :IVAATGL T0315 63 :HPVDAIDFT 1eywA 134 :PPLSMRLRS T0315 72 :EEHLEWIESLA 1eywA 144 :EELTQFFLREI T0315 84 :HPKV 1eywA 164 :RAGI T0315 91 :GE 1eywA 171 :AT T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHN 1eywA 173 :TGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIMH 1eywA 206 :QRDGEQQAAIFESEGLSPSRVCIG T0315 155 :F 1eywA 230 :H T0315 156 :SGSPEIADI 1eywA 234 :TDDLSYLTA T0315 166 :TNKLNFYISLGGPVT 1eywA 243 :LAARGYLIGLDHIPH T0315 181 :FKNAKQPKEVAKHVS 1eywA 262 :LEDNASASALLGIRS T0315 196 :MERLLVETDAPYLSPHP 1eywA 293 :MKQILVSNDWLFGFSSY T0315 221 :ARVTL 1eywA 326 :AFIPL T0315 226 :VAEQIAE 1eywA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1eywA 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 19 number of extra gaps= 0 total=2261 Number of alignments=138 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xrtA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1xrtA expands to /projects/compbio/data/pdb/1xrt.pdb.gz 1xrtA:# T0315 read from 1xrtA/merged-good-all-a2m # 1xrtA read from 1xrtA/merged-good-all-a2m # adding 1xrtA to template set # found chain 1xrtA in template set Warning: unaligning (T0315)D100 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xrtA)G154 Warning: unaligning (T0315)K101 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xrtA)G154 Warning: unaligning (T0315)K182 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xrtA)E285 Warning: unaligning (T0315)S209 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1xrtA)G323 T0315 1 :MLIDTHVHLNDEQYDD 1xrtA 56 :GFIDIHVHLRDPGQTY T0315 17 :DLSEVITRAREAGVDRMFVV 1xrtA 74 :DIESGSRCAVAGGFTTIVCM T0315 37 :GF 1xrtA 99 :PI T0315 41 :STIERAMKLIDEYDFLYGIIGWHPV 1xrtA 104 :TVVNYILQKSKSVGLCRVLPTGTIT T0315 66 :DAIDF 1xrtA 130 :GRKGK T0315 72 :EEHLEW 1xrtA 140 :YSLKEA T0315 86 :KVIG 1xrtA 146 :GCVA T0315 97 :YHW 1xrtA 150 :FTD T0315 102 :SP 1xrtA 155 :SP T0315 104 :A 1xrtA 158 :M T0315 107 :QKEVFRKQIALAKRLKLPIIIHNRE 1xrtA 159 :DSSVMRKALELASQLGVPIMDHCED T0315 132 :ATQDCIDILLEE 1xrtA 213 :QIARDGILAQRT T0315 146 :EEVGGIMHSFSG 1xrtA 225 :GGHVHIQHVSTK T0315 158 :SPEIADIVTN 1xrtA 238 :SLEIIEFFKE T0315 169 :LNFYISLGGPVTF 1xrtA 248 :KGVKITCEVNPNH T0315 183 :NAKQPKEVAKHVSME 1xrtA 286 :DRLALIEGVKRGIID T0315 200 :LVETD 1xrtA 301 :CFATD T0315 205 :APYL 1xrtA 307 :APHQ T0315 217 :RNEPARVTLVAEQIAE 1xrtA 324 :IIGLQTALPSALELYR T0315 234 :KG 1xrtA 340 :KG T0315 236 :LSYEEVCEQTTKNAEKLFNLN 1xrtA 343 :ISLKKLIEMFTINPARIIGVD Number of specific fragments extracted= 21 number of extra gaps= 1 total=2282 Number of alignments=139 # 1xrtA read from 1xrtA/merged-good-all-a2m # found chain 1xrtA in template set Warning: unaligning (T0315)M93 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xrtA)G154 Warning: unaligning (T0315)G94 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xrtA)G154 Warning: unaligning (T0315)E131 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xrtA)A209 Warning: unaligning (T0315)K182 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xrtA)E285 Warning: unaligning (T0315)P212 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1xrtA)G323 T0315 1 :MLIDTHVHLNDEQYDD 1xrtA 56 :GFIDIHVHLRDPGQTY T0315 17 :DLSEVITRAREAGVDRMFVVG 1xrtA 74 :DIESGSRCAVAGGFTTIVCMP T0315 38 :FN 1xrtA 96 :TN T0315 40 :KSTIERAMKLIDEYD 1xrtA 103 :TTVVNYILQKSKSVG T0315 55 :FLYGIIGWHPVDAIDFT 1xrtA 119 :CRVLPTGTITKGRKGKE T0315 72 :EEHLEW 1xrtA 140 :YSLKEA T0315 86 :KVIGIGE 1xrtA 146 :GCVAFTD T0315 95 :LDYH 1xrtA 155 :SPVM T0315 103 :P 1xrtA 159 :D T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1xrtA 160 :SSVMRKALELASQLGVPIMDHC T0315 132 :ATQ 1xrtA 210 :EEI T0315 135 :DCIDILLEE 1xrtA 216 :RDGILAQRT T0315 147 :EVGGIM 1xrtA 225 :GGHVHI T0315 153 :HSF 1xrtA 232 :HVS T0315 157 :GSP 1xrtA 235 :TKL T0315 160 :EIADIVTN 1xrtA 240 :EIIEFFKE T0315 169 :LNFYISLGGPVTF 1xrtA 248 :KGVKITCEVNPNH T0315 183 :NAKQPKEVAKHVSME 1xrtA 286 :DRLALIEGVKRGIID T0315 200 :LVETD 1xrtA 301 :CFATD T0315 207 :YLSPH 1xrtA 306 :HAPHQ T0315 217 :RNEPARVTLVAEQIAE 1xrtA 324 :IIGLQTALPSALELYR T0315 234 :KGL 1xrtA 340 :KGI T0315 237 :SYEEVCEQTTKNAEKLFNLN 1xrtA 344 :SLKKLIEMFTINPARIIGVD Number of specific fragments extracted= 23 number of extra gaps= 1 total=2305 Number of alignments=140 # 1xrtA read from 1xrtA/merged-good-all-a2m # found chain 1xrtA in template set Warning: unaligning (T0315)M93 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xrtA)G154 Warning: unaligning (T0315)G94 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xrtA)G154 Warning: unaligning (T0315)R130 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (1xrtA)L186 Warning: unaligning (T0315)E131 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xrtA)L186 Warning: unaligning (T0315)A132 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1xrtA)A187 Warning: unaligning (T0315)T133 because of BadResidue code BAD_PEPTIDE at template residue (1xrtA)Y188 Warning: unaligning (T0315)G157 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xrtA)A209 Warning: unaligning (T0315)L208 because of BadResidue code BAD_PEPTIDE in next template residue (1xrtA)L262 Warning: unaligning (T0315)S209 because of BadResidue code BAD_PEPTIDE at template residue (1xrtA)L262 Warning: unaligning (T0315)K216 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1xrtA)G323 T0315 2 :LIDTHVHLNDEQYDD 1xrtA 57 :FIDIHVHLRDPGQTY T0315 17 :DLSEVITRAREAGVDRMFVV 1xrtA 74 :DIESGSRCAVAGGFTTIVCM T0315 37 :GFNKSTIERAMKLIDEYDF 1xrtA 100 :IDNTTVVNYILQKSKSVGL T0315 56 :LYGIIGWHPVDAIDFT 1xrtA 120 :RVLPTGTITKGRKGKE T0315 72 :EEHLEW 1xrtA 140 :YSLKEA T0315 86 :KVIGIGE 1xrtA 146 :GCVAFTD T0315 95 :LDY 1xrtA 155 :SPV T0315 102 :SPAD 1xrtA 158 :MDSS T0315 110 :VFRKQIALAKRLKLPIIIHN 1xrtA 162 :VMRKALELASQLGVPIMDHC T0315 158 :SPEIADI 1xrtA 210 :EEIQIAR T0315 165 :VTNKLNFYISLGGPVTFKNAKQPKEVAKH 1xrtA 220 :LAQRTGGHVHIQHVSTKLSLEIIEFFKEK T0315 198 :RLLVETDAPY 1xrtA 251 :KITCEVNPNH T0315 217 :RNEPARVTLVAEQIAE 1xrtA 324 :IIGLQTALPSALELYR T0315 234 :KGL 1xrtA 340 :KGI T0315 237 :SYEEVCEQTTKNAEKLFNLN 1xrtA 344 :SLKKLIEMFTINPARIIGVD Number of specific fragments extracted= 15 number of extra gaps= 3 total=2320 Number of alignments=141 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1bqcA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1bqcA/merged-good-all-a2m # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set Warning: unaligning (T0315)T203 because of BadResidue code BAD_PEPTIDE in next template residue (1bqcA)S255 Warning: unaligning (T0315)D204 because of BadResidue code BAD_PEPTIDE at template residue (1bqcA)S255 T0315 2 :LIDTHVHLNDEQYDD 1bqcA 22 :RGVSHPHNWYPQHTQ T0315 21 :VITRAREAGVDRMFVV 1bqcA 37 :AFADIKSHGANTVRVV T0315 37 :GFNKSTIERAMKLIDEY 1bqcA 61 :KNGPSDVANVISLCKQN T0315 55 :FLYGIIGWHPV 1bqcA 78 :RLICMLEVHDT T0315 72 :EEHLEWIESL 1bqcA 101 :DQAVDYWIEL T0315 82 :A 1bqcA 114 :L T0315 83 :QHPKVIGI 1bqcA 116 :GEEDYVLI T0315 94 :GLDYHWDKSPADVQ 1bqcA 124 :NIGNEPYGNDSATV T0315 108 :KEVFRKQIALAKRLK 1bqcA 141 :ATDTSAAIQRLRAAG T0315 123 :LPIIIHNRE 1bqcA 158 :HTLVVDAPN T0315 132 :ATQDCIDILLEEHA 1bqcA 174 :TMRNNADQVYASDP T0315 146 :EEVGGIMHSF 1bqcA 189 :GNTVFSIHMY T0315 156 :SGSPEIADIVTNK 1bqcA 201 :YSQASTITSYLEH T0315 169 :LNFYISLGGPVTF 1bqcA 217 :AGLPLIIGEFGHD T0315 182 :KNAKQPKEVAKHV 1bqcA 235 :PDEDTIMAEAERL T0315 197 :ERLLVE 1bqcA 248 :KLGYIG T0315 205 :AP 1bqcA 256 :WS T0315 207 :YLSPHPYRGKRNEPARVTLVAE 1bqcA 265 :YLDMVYNFDGDNLSPWGERIFY Number of specific fragments extracted= 18 number of extra gaps= 1 total=2338 Number of alignments=142 # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set Warning: unaligning (T0315)T203 because of BadResidue code BAD_PEPTIDE in next template residue (1bqcA)S255 Warning: unaligning (T0315)D204 because of BadResidue code BAD_PEPTIDE at template residue (1bqcA)S255 Warning: unaligning (T0315)P206 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1bqcA)E264 T0315 2 :LIDTHVHLNDEQYDD 1bqcA 22 :RGVSHPHNWYPQHTQ T0315 21 :VITRAREAGVDRMFVV 1bqcA 37 :AFADIKSHGANTVRVV T0315 37 :GFNKSTIERAMKLIDEYDFLYGII 1bqcA 61 :KNGPSDVANVISLCKQNRLICMLE T0315 62 :W 1bqcA 85 :V T0315 65 :VDAIDFT 1bqcA 86 :HDTTGYG T0315 72 :EEHLEWIESL 1bqcA 101 :DQAVDYWIEL T0315 82 :AQHP 1bqcA 114 :LQGE T0315 86 :KVIGIG 1bqcA 119 :DYVLIN T0315 93 :MGLDYH 1bqcA 125 :IGNEPY T0315 101 :KSPADVQ 1bqcA 131 :GNDSATV T0315 108 :KEVFRKQIALAKRLK 1bqcA 141 :ATDTSAAIQRLRAAG T0315 123 :LPIIIHN 1bqcA 158 :HTLVVDA T0315 130 :REATQDCID 1bqcA 176 :RNNADQVYA T0315 144 :HAEEVGGIMHSF 1bqcA 187 :PTGNTVFSIHMY T0315 156 :SGSPEIADIVTN 1bqcA 201 :YSQASTITSYLE T0315 168 :KLNFYISLGGPVTF 1bqcA 216 :NAGLPLIIGEFGHD T0315 182 :KNAKQPKEVAKHV 1bqcA 235 :PDEDTIMAEAERL T0315 197 :ERLLVE 1bqcA 248 :KLGYIG T0315 205 :A 1bqcA 256 :W T0315 207 :YLSPHPYRGKRNEPARVTLVA 1bqcA 265 :YLDMVYNFDGDNLSPWGERIF Number of specific fragments extracted= 20 number of extra gaps= 2 total=2358 Number of alignments=143 # 1bqcA read from 1bqcA/merged-good-all-a2m # found chain 1bqcA in training set Warning: unaligning (T0315)T203 because of BadResidue code BAD_PEPTIDE in next template residue (1bqcA)S255 Warning: unaligning (T0315)D204 because of BadResidue code BAD_PEPTIDE at template residue (1bqcA)S255 Warning: unaligning (T0315)P206 because of BadResidue code CHAIN_BREAK_BEFORE at template residue (1bqcA)E264 T0315 1 :MLIDTHVHLNDEQYDD 1bqcA 21 :IRGVSHPHNWYPQHTQ T0315 21 :VITRAREAGVDRMFVVGF 1bqcA 37 :AFADIKSHGANTVRVVLS T0315 39 :NKSTIERAMKLIDEYD 1bqcA 63 :GPSDVANVISLCKQNR T0315 56 :LYGIIGW 1bqcA 79 :LICMLEV T0315 65 :VDAIDFT 1bqcA 86 :HDTTGYG T0315 72 :EEHLEWIESLA 1bqcA 101 :DQAVDYWIELK T0315 83 :QHPKVIGIG 1bqcA 116 :GEEDYVLIN T0315 93 :MGLDYHW 1bqcA 125 :IGNEPYG T0315 102 :SPADV 1bqcA 132 :NDSAT T0315 107 :QKEVFRKQIALAKRLK 1bqcA 140 :WATDTSAAIQRLRAAG T0315 123 :LPIIIHN 1bqcA 158 :HTLVVDA T0315 130 :REATQDCID 1bqcA 176 :RNNADQVYA T0315 144 :HAEEVGGIMHSFS 1bqcA 187 :PTGNTVFSIHMYG T0315 157 :GSPEIADIV 1bqcA 202 :SQASTITSY T0315 167 :NKL 1bqcA 211 :LEH T0315 170 :NFYISLGGPVTFK 1bqcA 218 :GLPLIIGEFGHDH T0315 183 :NAKQPKEVAKH 1bqcA 236 :DEDTIMAEAER T0315 196 :MERLLVE 1bqcA 247 :LKLGYIG T0315 205 :A 1bqcA 256 :W T0315 207 :YLSPHPYRGKRNEPARVTLVA 1bqcA 265 :YLDMVYNFDGDNLSPWGERIF Number of specific fragments extracted= 20 number of extra gaps= 2 total=2378 Number of alignments=144 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hzyA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1hzyA expands to /projects/compbio/data/pdb/1hzy.pdb.gz 1hzyA:Skipped atom 583, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 585, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 587, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 594, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 979, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 981, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 983, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 985, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1243, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1245, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1247, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1439, because occupancy 0.300 <= existing 0.700 in 1hzyA Skipped atom 1558, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1584, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1586, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1588, because occupancy 0.500 <= existing 0.500 in 1hzyA Skipped atom 1994, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 1995, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 1997, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 1998, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 2000, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 2001, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 2003, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 2004, because occupancy 0.330 <= existing 0.330 in 1hzyA Skipped atom 2509, because occupancy 0.500 <= existing 0.500 in 1hzyA # T0315 read from 1hzyA/merged-good-all-a2m # 1hzyA read from 1hzyA/merged-good-all-a2m # adding 1hzyA to template set # found chain 1hzyA in template set T0315 1 :MLIDTHVHL 1hzyA 50 :GFTLTHEHI T0315 10 :NDEQY 1hzyA 69 :WPEFF T0315 15 :DDDLSEVITRAREAGVDRMFVVGF 1hzyA 80 :AEKAVRGLRRARAAGVRTIVDVST T0315 41 :STIERAMKLIDEYD 1hzyA 108 :RDVSLLAEVSRAAD T0315 55 :FLYGIIGWHPV 1hzyA 123 :HIVAATGLWFD T0315 69 :DFT 1hzyA 140 :LRS T0315 72 :EEHLEWIESLAQ 1hzyA 144 :EELTQFFLREIQ T0315 84 :HPKVIG 1hzyA 160 :DTGIRA T0315 91 :GEMG 1hzyA 166 :GIIK T0315 97 :YHWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1hzyA 170 :VATTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1hzyA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HSF 1hzyA 230 :HSD T0315 156 :SGSPEIADIVTN 1hzyA 234 :TDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1hzyA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQ 1hzyA 275 :RSWQT T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPYRGK 1hzyA 284 :IKALIDQGYMKQILVSNDWLFGFSSYVTNI T0315 217 :RNEPARVTL 1hzyA 322 :PDGMAFIPL T0315 226 :VAEQIAEL 1hzyA 332 :VIPFLREK T0315 235 :GLSYEEVCEQTTKNAEKLFNLN 1hzyA 340 :GVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 19 number of extra gaps= 0 total=2397 Number of alignments=145 # 1hzyA read from 1hzyA/merged-good-all-a2m # found chain 1hzyA in template set T0315 1 :MLIDTHVHLN 1hzyA 50 :GFTLTHEHIC T0315 11 :DEQYDDDLSEV 1hzyA 69 :WPEFFGSRKAL T0315 22 :ITRAREAGVDRMFVVGF 1hzyA 87 :LRRARAAGVRTIVDVST T0315 42 :TIERAMKLIDEYD 1hzyA 109 :DVSLLAEVSRAAD T0315 55 :FLYGIIGWH 1hzyA 123 :HIVAATGLW T0315 64 :PVDAIDFT 1hzyA 135 :PLSMRLRS T0315 72 :EEHLEWIESLAQHP 1hzyA 144 :EELTQFFLREIQYG T0315 86 :KVIGIGEM 1hzyA 164 :RAGIIKVA T0315 99 :WDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1hzyA 172 :TTGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAEEVGGIM 1hzyA 206 :QRDGEQQAAIFESEGLSPSRVCI T0315 153 :HS 1hzyA 230 :HS T0315 155 :FSGSPEIADIVTN 1hzyA 233 :DTDDLSYLTALAA T0315 169 :LNFYISLGGPVTF 1hzyA 246 :RGYLIGLDHIPHS T0315 182 :KNAKQPKEVAKHVSMERLLVETDAPYLSPHPYRG 1hzyA 279 :TRALLIKALIDQGYMKQILVSNDWLFGFSSYVTN T0315 217 :RNEPARVTL 1hzyA 322 :PDGMAFIPL T0315 226 :VAEQIAE 1hzyA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1hzyA 339 :KGVPQETLAGITVTNPARFLSPT Number of specific fragments extracted= 17 number of extra gaps= 0 total=2414 Number of alignments=146 # 1hzyA read from 1hzyA/merged-good-all-a2m # found chain 1hzyA in template set T0315 2 :LIDTHVHL 1hzyA 51 :FTLTHEHI T0315 11 :DEQYDDDLSEVITRA 1hzyA 69 :WPEFFGSRKALAEKA T0315 26 :REAGVDRMFVVGF 1hzyA 91 :RAAGVRTIVDVST T0315 43 :IERAMKLIDEYDF 1hzyA 110 :VSLLAEVSRAADV T0315 56 :LYGIIGW 1hzyA 124 :IVAATGL T0315 63 :HPVDAIDFT 1hzyA 134 :PPLSMRLRS T0315 72 :EEHLEWIESLA 1hzyA 144 :EELTQFFLREI T0315 84 :HPKVIGIGE 1hzyA 164 :RAGIIKVAT T0315 100 :DKSPADVQKEVFRKQIALAKRLKLPIIIHN 1hzyA 173 :TGKATPFQELVLKAAARASLATGVPVTTHT T0315 130 :REATQDCIDILLEEHAE 1hzyA 206 :QRDGEQQAAIFESEGLS T0315 148 :VGGIMHSF 1hzyA 223 :PSRVCIGH T0315 156 :SGSPEIADI 1hzyA 234 :TDDLSYLTA T0315 166 :TNKLNFYISLGGPV 1hzyA 243 :LAARGYLIGLDHIP T0315 180 :TFKNAKQPKEVAKHVS 1hzyA 261 :GLEDNASASALLGIRS T0315 196 :MERLLVETDAPYLSPHP 1hzyA 293 :MKQILVSNDWLFGFSSY T0315 220 :PARVTL 1hzyA 325 :MAFIPL T0315 226 :VAEQIAE 1hzyA 332 :VIPFLRE T0315 234 :KGLSYEEVCEQTTKNAEKLFNLNS 1hzyA 339 :KGVPQETLAGITVTNPARFLSPTL Number of specific fragments extracted= 18 number of extra gaps= 0 total=2432 Number of alignments=147 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1p6bA/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/T0315/1p6bA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1p6bA/merged-good-all-a2m.gz for input Trying 1p6bA/merged-good-all-a2m Error: Couldn't open file 1p6bA/merged-good-all-a2m or 1p6bA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ituA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ituA expands to /projects/compbio/data/pdb/1itu.pdb.gz 1ituA:# T0315 read from 1ituA/merged-good-all-a2m # 1ituA read from 1ituA/merged-good-all-a2m # adding 1ituA to template set # found chain 1ituA in template set T0315 1 :MLIDTHVH 1ituA 15 :PVIDGHND T0315 9 :LNDEQY 1ituA 35 :LQDERA T0315 22 :ITRAREAGVDRMFVV 1ituA 52 :IPKLRAGFVGGQFWS T0315 37 :GFNKST 1ituA 68 :YTPCDT T0315 43 :IERAMKLIDEY 1ituA 86 :MDVVHRMCRMY T0315 54 :DFLYGIIGWHPVDAIDFT 1ituA 116 :GKVASLIGVEGGHSIDSS T0315 75 :LEWIESLAQH 1ituA 134 :LGVLRALYQL T0315 86 :KVIGIGEM 1ituA 144 :GMRYLTLT T0315 95 :L 1ituA 152 :H T0315 100 :DKSP 1ituA 172 :QSQG T0315 109 :EVFRKQIALAKRLKLPII 1ituA 178 :PFGQRVVKELNRLGVLID T0315 129 :NREATQDCIDILLEE 1ituA 196 :LAHVSVATMKATLQL T0315 145 :AEEVGGIMHSF 1ituA 211 :SRAPVIFSHSS T0315 158 :SPEIADIVTN 1ituA 233 :PDDVLRLVKQ T0315 169 :LNFYISLGGP 1ituA 243 :TDSLVMVNFY T0315 182 :KNAKQ 1ituA 260 :NKANL T0315 187 :PKEVAKHVSMERLLVETDAPYLSPHPY 1ituA 271 :LDHIKEVAGARAVGFGGDFDGVPRVPE T0315 216 :KRNEPARVTLVAEQIAE 1ituA 298 :GLEDVSKYPDLIAELLR T0315 234 :KGLSYEEVCEQTTKNAEKLF 1ituA 315 :RNWTEAEVKGALADNLLRVF Number of specific fragments extracted= 19 number of extra gaps= 0 total=2451 Number of alignments=148 # 1ituA read from 1ituA/merged-good-all-a2m # found chain 1ituA in template set T0315 1 :MLIDTHVHL 1ituA 15 :PVIDGHNDL T0315 11 :DEQY 1ituA 37 :DERA T0315 17 :DL 1ituA 51 :NI T0315 23 :TRAREAGVDRMFVVGFN 1ituA 53 :PKLRAGFVGGQFWSVYT T0315 40 :KSTIERAMKLIDEY 1ituA 83 :LEQMDVVHRMCRMY T0315 54 :DFLYGIIGWHPVDAIDFT 1ituA 116 :GKVASLIGVEGGHSIDSS T0315 75 :LEWIESLAQH 1ituA 134 :LGVLRALYQL T0315 86 :KVIGIGEMGLDYH 1ituA 144 :GMRYLTLTHSCNT T0315 100 :DKS 1ituA 173 :SQG T0315 104 :A 1ituA 177 :S T0315 109 :EVFRKQIALAKRLKLPIII 1ituA 178 :PFGQRVVKELNRLGVLIDL T0315 130 :REATQDCIDILLEE 1ituA 197 :AHVSVATMKATLQL T0315 146 :EEVGGIM 1ituA 211 :SRAPVIF T0315 153 :HSF 1ituA 219 :HSS T0315 158 :SPEIADIVTN 1ituA 233 :PDDVLRLVKQ T0315 169 :LNFYISLGGP 1ituA 243 :TDSLVMVNFY T0315 182 :KNAKQ 1ituA 260 :NKANL T0315 187 :PKEVAKHVSMERLLVETDAPYLSPH 1ituA 271 :LDHIKEVAGARAVGFGGDFDGVPRV T0315 214 :RGKRNEPARVTLVAEQIAE 1ituA 296 :PEGLEDVSKYPDLIAELLR T0315 234 :KGLSYEEVCEQTTKNAEKLF 1ituA 315 :RNWTEAEVKGALADNLLRVF Number of specific fragments extracted= 20 number of extra gaps= 0 total=2471 Number of alignments=149 # 1ituA read from 1ituA/merged-good-all-a2m # found chain 1ituA in template set T0315 2 :LIDTHVHLNDEQYDD 1ituA 62 :GQFWSVYTPCDTQNK T0315 17 :DLSEVITRARE 1ituA 81 :RTLEQMDVVHR T0315 34 :FVVGFNKSTIERAMKL 1ituA 100 :FLYVTSSAGIRQAFRE T0315 54 :DFLYGIIGWHPVDAIDFT 1ituA 116 :GKVASLIGVEGGHSIDSS T0315 75 :LEWIESLAQH 1ituA 134 :LGVLRALYQL T0315 86 :KVIGIGEMG 1ituA 144 :GMRYLTLTH T0315 100 :DKSP 1ituA 168 :DSEP T0315 109 :EVFRKQIALAKRLKLPIII 1ituA 178 :PFGQRVVKELNRLGVLIDL T0315 130 :REATQDCIDILLEEHA 1ituA 197 :AHVSVATMKATLQLSR T0315 148 :VGGIM 1ituA 213 :APVIF T0315 154 :SFSG 1ituA 218 :SHSS T0315 158 :SPEIADI 1ituA 233 :PDDVLRL T0315 166 :TNKLNFYISLGGPV 1ituA 240 :VKQTDSLVMVNFYN T0315 180 :TFKNAK 1ituA 258 :CTNKAN T0315 187 :PKEVAKHVSMERLLVETDAPYLSPH 1ituA 271 :LDHIKEVAGARAVGFGGDFDGVPRV T0315 214 :RGKRNEPARVTLVAEQIAE 1ituA 296 :PEGLEDVSKYPDLIAELLR T0315 234 :KGLSYEEVCEQTTKNAEKLF 1ituA 315 :RNWTEAEVKGALADNLLRVF Number of specific fragments extracted= 17 number of extra gaps= 0 total=2488 Number of alignments=150 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1k6wA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1k6wA expands to /projects/compbio/data/pdb/1k6w.pdb.gz 1k6wA:# T0315 read from 1k6wA/merged-good-all-a2m # 1k6wA read from 1k6wA/merged-good-all-a2m # adding 1k6wA to template set # found chain 1k6wA in template set T0315 2 :LIDTHVHLNDEQY 1k6wA 57 :FVEPHIHLDTTQT T0315 15 :DDDLSEVITRAREAGVDRMFV 1k6wA 101 :KQRAWQTLKWQIANGIQHVRT T0315 36 :VGFNKST 1k6wA 123 :VDVSDAT T0315 43 :IERAMKLIDEYD 1k6wA 133 :LKAMLEVKQEVA T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESLAQH 1k6wA 146 :WIDLQIVAFPQEGILSYPNGEALLEEALRL T0315 86 :KVIGIGEM 1k6wA 176 :GADVVGAI T0315 98 :HWDKSPADVQKEVFRKQIALAKRLKLPIIIHN 1k6wA 184 :PHFEFTREYGVESLHKTFALAQKYDRLIDVHC T0315 132 :ATQDCIDILLEEHAEEVGGIMHSF 1k6wA 225 :FVETVAALAHHEGMGARVTASHTT T0315 156 :SGSPEIADIVTN 1k6wA 252 :SYNGAYTSRLFR T0315 168 :KLNFYIS 1k6wA 267 :MSGINFV T0315 175 :LGGPVTFKNAKQ 1k6wA 283 :QGRFDTYPKRRG T0315 187 :PKEVAKHVS 1k6wA 298 :VKEMLESGI T0315 198 :RLLVETDA 1k6wA 307 :NVCFGHDD T0315 211 :HPYRGKRNEPARVTLVAEQIAELKG 1k6wA 315 :VFDPWYPLGTANMLQVLHMGLHVCQ T0315 236 :LSYEEVCEQT 1k6wA 341 :MGYGQINDGL T0315 246 :TKNAEKLFNLN 1k6wA 354 :THHSARTLNLQ Number of specific fragments extracted= 16 number of extra gaps= 0 total=2504 Number of alignments=151 # 1k6wA read from 1k6wA/merged-good-all-a2m # found chain 1k6wA in template set T0315 2 :LIDTHVHLNDEQYDD 1k6wA 57 :FVEPHIHLDTTQTAG T0315 17 :DLSEVITRAREAGVDRMFVVG 1k6wA 103 :RAWQTLKWQIANGIQHVRTHV T0315 38 :FN 1k6wA 125 :VS T0315 40 :K 1k6wA 128 :A T0315 41 :STIERAMKLIDEYD 1k6wA 131 :TALKAMLEVKQEVA T0315 55 :FLYGIIGWHPVDAIDFTEEHLEWIESLAQHP 1k6wA 146 :WIDLQIVAFPQEGILSYPNGEALLEEALRLG T0315 86 :KVI 1k6wA 178 :DVV T0315 91 :GE 1k6wA 181 :GA T0315 95 :LDYH 1k6wA 183 :IPHF T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIIIHN 1k6wA 187 :EFTREYGVESLHKTFALAQKYDRLIDVHC T0315 130 :REATQDCIDILLEEHAEEVGGIMHS 1k6wA 223 :SRFVETVAALAHHEGMGARVTASHT T0315 155 :FSGSPEIADIVTN 1k6wA 251 :HSYNGAYTSRLFR T0315 168 :KLNFYISLG 1k6wA 267 :MSGINFVAN T0315 182 :KNA 1k6wA 290 :PKR T0315 185 :KQPKEVAKHVS 1k6wA 296 :TRVKEMLESGI T0315 198 :RLLVETDAPYL 1k6wA 307 :NVCFGHDDVFD T0315 214 :RGKRNEPARVTLVAEQIAELKG 1k6wA 318 :PWYPLGTANMLQVLHMGLHVCQ T0315 236 :LSYEEVCEQT 1k6wA 341 :MGYGQINDGL T0315 246 :TKNAEKLFNLN 1k6wA 354 :THHSARTLNLQ Number of specific fragments extracted= 19 number of extra gaps= 0 total=2523 Number of alignments=152 # 1k6wA read from 1k6wA/merged-good-all-a2m # found chain 1k6wA in template set T0315 9 :LNDEQYDDDLSEVITRAREAGVDRMFVVG 1k6wA 95 :LTHDDVKQRAWQTLKWQIANGIQHVRTHV T0315 38 :FNKST 1k6wA 125 :VSDAT T0315 43 :IERAMKLIDEYDF 1k6wA 133 :LKAMLEVKQEVAP T0315 56 :LYGIIGWHPVDAIDFTEEHLEWIESLAQH 1k6wA 147 :IDLQIVAFPQEGILSYPNGEALLEEALRL T0315 86 :KVIGIGEMGLD 1k6wA 176 :GADVVGAIPHF T0315 101 :KSPADVQKEVFRKQIALAKRLKLPIIIHN 1k6wA 187 :EFTREYGVESLHKTFALAQKYDRLIDVHC T0315 130 :REATQDCIDILLEEHAEEVGGIMHS 1k6wA 223 :SRFVETVAALAHHEGMGARVTASHT T0315 155 :FSGSPEIADI 1k6wA 251 :HSYNGAYTSR T0315 166 :TNKL 1k6wA 261 :LFRL T0315 170 :NFYISLG 1k6wA 269 :GINFVAN T0315 180 :TFKNAK 1k6wA 288 :TYPKRR T0315 186 :QPKEVAKH 1k6wA 297 :RVKEMLES T0315 198 :RLLVETDAPYLSPHPY 1k6wA 307 :NVCFGHDDVFDPWYPL T0315 219 :EPARVTLVAEQIAELKG 1k6wA 323 :GTANMLQVLHMGLHVCQ T0315 236 :LSYEEVCE 1k6wA 341 :MGYGQIND Number of specific fragments extracted= 15 number of extra gaps= 0 total=2538 Number of alignments=153 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1qw7A/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/T0315/1qw7A/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0315/1qw7A/merged-good-all-a2m.gz for input Trying 1qw7A/merged-good-all-a2m Error: Couldn't open file 1qw7A/merged-good-all-a2m or 1qw7A/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1p1mA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0315 read from 1p1mA/merged-good-all-a2m # 1p1mA read from 1p1mA/merged-good-all-a2m # found chain 1p1mA in training set T0315 2 :LIDTHVHLNDEQY 1p1mA 51 :LFNTHTHAPMTLL T0315 15 :DDDLSEV 1p1mA 88 :TEKMAYY T0315 22 :ITRAREAGVDRMFVVGF 1p1mA 100 :QMEMARHGIAGFVDMYF T0315 42 :TIERAMKLIDEYD 1p1mA 117 :HEEWIAKAVRDFG T0315 55 :FLYGIIGWHPV 1p1mA 131 :RALLTRGLVDS T0315 66 :DAIDFTEEHLEWIESLAQHPKVIGIGEM 1p1mA 144 :DDGGRLEENLKLYNEWNGFEGRIFVGFG T0315 96 :DYHWDKSP 1p1mA 172 :PHSPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHNRE 1p1mA 180 :EEYLKRVFDTAKSLNAPVTIHLYE T0315 132 :ATQDCI 1p1mA 210 :DLEDIL T0315 142 :EEHA 1p1mA 216 :NIGL T0315 146 :EEVGGIMHSFSGSP 1p1mA 221 :EVKTIAAHCVHLPE T0315 168 :KLN 1p1mA 236 :YFG T0315 171 :FYISLG 1p1mA 245 :FFVSHN T0315 177 :GPV 1p1mA 260 :GIA T0315 186 :QPKEVAKHVS 1p1mA 263 :PVQRMIEHGM T0315 198 :RLLVETDAPYL 1p1mA 273 :KVTLGTDGAAS T0315 218 :NEPARVTLVAEQIAEL 1p1mA 284 :NNSLNLFFEMRLASLL T0315 234 :KG 1p1mA 305 :PR T0315 236 :LSYEEVCEQTTKNAEKLFNLNS 1p1mA 308 :LDVNTCLKMVTYDGAQAMGFKS Number of specific fragments extracted= 19 number of extra gaps= 0 total=2557 Number of alignments=154 # 1p1mA read from 1p1mA/merged-good-all-a2m # found chain 1p1mA in training set T0315 2 :LIDTHVHLNDEQYDD 1p1mA 51 :LFNTHTHAPMTLLRG T0315 24 :RAREAGVDRMFVVGFN 1p1mA 102 :EMARHGIAGFVDMYFH T0315 43 :IERAMKLIDEYD 1p1mA 118 :EEWIAKAVRDFG T0315 55 :FLYGIIGWHP 1p1mA 131 :RALLTRGLVD T0315 67 :AIDFTEEHLEWIESLAQ 1p1mA 141 :SNGDDGGRLEENLKLYN T0315 84 :HPKVIGIGEM 1p1mA 164 :GRIFVGFGPH T0315 98 :HWDKSP 1p1mA 174 :SPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1p1mA 180 :EEYLKRVFDTAKSLNAPVTIHL T0315 130 :REA 1p1mA 209 :YDL T0315 134 :QDCI 1p1mA 212 :EDIL T0315 142 :EEHAEEVGGIM 1p1mA 216 :NIGLKEVKTIA T0315 153 :HSFSGSPE 1p1mA 228 :HCVHLPER T0315 168 :KLN 1p1mA 236 :YFG T0315 171 :FYISLG 1p1mA 245 :FFVSHN T0315 177 :GPV 1p1mA 260 :GIA T0315 186 :QPKEVAKHVS 1p1mA 263 :PVQRMIEHGM T0315 198 :RLLVETDAPY 1p1mA 273 :KVTLGTDGAA T0315 217 :RNEPARVTLVAEQIAEL 1p1mA 283 :SNNSLNLFFEMRLASLL T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1p1mA 306 :RNLDVNTCLKMVTYDGAQAMGFK Number of specific fragments extracted= 19 number of extra gaps= 0 total=2576 Number of alignments=155 # 1p1mA read from 1p1mA/merged-good-all-a2m # found chain 1p1mA in training set T0315 2 :LIDTHVHLNDEQYDD 1p1mA 51 :LFNTHTHAPMTLLRG T0315 17 :DLSEVIT 1p1mA 71 :SFEEWLF T0315 24 :RAREAGVDRMFVVGFN 1p1mA 102 :EMARHGIAGFVDMYFH T0315 43 :IERAMKLIDEYDF 1p1mA 118 :EEWIAKAVRDFGM T0315 56 :LYGIIGWHPV 1p1mA 132 :ALLTRGLVDS T0315 66 :DAIDFTEEHLEWIESLA 1p1mA 144 :DDGGRLEENLKLYNEWN T0315 83 :QHPKVIGIGE 1p1mA 163 :EGRIFVGFGP T0315 97 :YHWDKSP 1p1mA 173 :HSPYLCS T0315 108 :KEVFRKQIALAKRLKLPIIIHN 1p1mA 180 :EEYLKRVFDTAKSLNAPVTIHL T0315 130 :RE 1p1mA 209 :YD T0315 133 :TQDC 1p1mA 211 :LEDI T0315 141 :LEEHAEEVGGIMHSFSG 1p1mA 215 :LNIGLKEVKTIAAHCVH T0315 166 :TNKLNFYISLG 1p1mA 240 :LKDIPFFVSHN T0315 183 :NAK 1p1mA 258 :GNG T0315 186 :QPKEVAKH 1p1mA 263 :PVQRMIEH T0315 198 :RLLVETDAPYL 1p1mA 273 :KVTLGTDGAAS T0315 218 :NEPARVTLVAEQIAEL 1p1mA 284 :NNSLNLFFEMRLASLL T0315 234 :KGLSYEEVCEQTTKNAEKLFNLN 1p1mA 306 :RNLDVNTCLKMVTYDGAQAMGFK Number of specific fragments extracted= 18 number of extra gaps= 0 total=2594 Number of alignments=156 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0315//projects/compbio/experiments/protein-predict/casp7/T0315/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0315//projects/compbio/experiments/protein-predict/casp7/T0315/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0315/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0315/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((T0315)I126.CB, (T0315)G150.CA) [> 3.5691 = 5.9486 < 7.7331] w=1.0000 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)I151.CB) [> 3.7527 = 6.2545 < 8.1308] w=0.9998 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)G149.CA) [> 3.6360 = 6.0599 < 7.8779] w=0.9922 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)S174.CB) [> 3.5257 = 5.8762 < 7.6390] w=0.9847 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)G150.CA) [> 4.0623 = 6.7705 < 8.8017] w=0.9635 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)I173.CB) [> 3.7810 = 6.3017 < 8.1922] w=0.9626 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G58.CA) [> 3.8618 = 6.4364 < 8.3673] w=0.9623 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)I151.CB) [> 3.5195 = 5.8659 < 7.6256] w=0.9552 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)M152.CB) [> 3.7120 = 6.1867 < 8.0427] w=0.9551 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)G58.CA) [> 3.4269 = 5.7115 < 7.4250] w=0.9548 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)I125.CB) [> 4.0539 = 6.7566 < 8.7836] w=0.9473 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)I126.CB) [> 3.8298 = 6.3830 < 8.2979] w=0.9473 to align # Constraint # added constraint: constraint((T0315)I115.CB, (T0315)I125.CB) [> 3.7731 = 6.2885 < 8.1751] w=0.9407 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)I59.CB) [> 3.9704 = 6.6173 < 8.6025] w=0.9404 to align # Constraint # added constraint: constraint((T0315)M33.CB, (T0315)L56.CB) [> 3.5493 = 5.9155 < 7.6901] w=0.9402 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)I59.CB) [> 3.6041 = 6.0068 < 7.8088] w=0.9400 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)S174.CB) [> 3.6190 = 6.0316 < 7.8411] w=0.9344 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)Y172.CB) [> 3.2456 = 5.4094 < 7.0322] w=0.9331 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)L200.CB) [> 2.9913 = 4.9855 < 6.4812] w=0.9260 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)F34.CB) [> 3.0236 = 5.0393 < 6.5511] w=0.9256 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)G150.CA) [> 3.5973 = 5.9956 < 7.7942] w=0.9186 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)G149.CA) [> 3.4680 = 5.7800 < 7.5141] w=0.9179 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)F171.CB) [> 3.4560 = 5.7599 < 7.4879] w=0.9108 to align # Constraint # added constraint: constraint((T0315)M33.CB, (T0315)Y57.CB) [> 4.2307 = 7.0512 < 9.1665] w=0.9030 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)Y57.CB) [> 3.5642 = 5.9403 < 7.7224] w=0.9030 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)R198.CB) [> 3.8415 = 6.4025 < 8.3233] w=0.8969 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)F34.CB) [> 4.0074 = 6.6790 < 8.6827] w=0.8965 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)L56.CB) [> 4.0028 = 6.6713 < 8.6727] w=0.8955 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)V30.CB) [> 4.1698 = 6.9497 < 9.0346] w=0.8890 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)A46.CB) [> 3.5538 = 5.9230 < 7.7000] w=0.8814 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)M33.CB) [> 2.9166 = 4.8611 < 6.3194] w=0.8749 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)V30.CB) [> 3.3016 = 5.5027 < 7.1535] w=0.8749 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)R32.CB) [> 2.6708 = 4.4513 < 5.7867] w=0.8742 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)D31.CB) [> 4.0542 = 6.7569 < 8.7840] w=0.8675 to align # Constraint # added constraint: constraint((T0315)Y172.CB, (T0315)R198.CB) [> 3.3251 = 5.5419 < 7.2045] w=0.8672 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)Y172.CB) [> 3.4681 = 5.7801 < 7.5142] w=0.8662 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)Y172.CB) [> 3.8858 = 6.4763 < 8.4192] w=0.8604 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)L123.CB) [> 3.0182 = 5.0304 < 6.5395] w=0.8592 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)M152.CB) [> 3.8461 = 6.4102 < 8.3333] w=0.8583 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)F171.CB) [> 3.9952 = 6.6586 < 8.6562] w=0.8514 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)F34.CB) [> 3.8920 = 6.4867 < 8.4328] w=0.8446 to align # Constraint # added constraint: constraint((T0315)V87.CB, (T0315)L123.CB) [> 4.0156 = 6.6927 < 8.7006] w=0.8360 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)R32.CB) [> 4.2382 = 7.0637 < 9.1828] w=0.8303 to align # Constraint # added constraint: constraint((T0315)A82.CB, (T0315)L123.CB) [> 3.7200 = 6.2000 < 8.0600] w=0.8295 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)L200.CB) [> 4.1600 = 6.9333 < 9.0133] w=0.8213 to align # Constraint # added constraint: constraint((T0315)L75.CB, (T0315)L117.CB) [> 3.2585 = 5.4309 < 7.0601] w=0.8152 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)D31.CB) [> 3.7048 = 6.1747 < 8.0271] w=0.8147 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)I125.CB) [> 3.4685 = 5.7809 < 7.5152] w=0.8144 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)I126.CB) [> 4.0982 = 6.8303 < 8.8793] w=0.8140 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)L199.CB) [> 3.3338 = 5.5564 < 7.2233] w=0.8077 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)P124.CB) [> 3.0793 = 5.1322 < 6.6719] w=0.8071 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)V35.CB) [> 3.3828 = 5.6379 < 7.3293] w=0.8016 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)M33.CB) [> 4.2129 = 7.0214 < 9.1278] w=0.8001 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)F34.CB) [> 3.8335 = 6.3892 < 8.3060] w=0.7941 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)S174.CB) [> 3.7346 = 6.2244 < 8.0917] w=0.7927 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I88.CB) [> 3.8492 = 6.4153 < 8.3399] w=0.7918 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)V35.CB) [> 4.0823 = 6.8039 < 8.8450] w=0.7868 to align # Constraint # added constraint: constraint((T0315)Q114.CB, (T0315)I125.CB) [> 3.6688 = 6.1146 < 7.9489] w=0.7849 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)I173.CB) [> 3.8352 = 6.3919 < 8.3095] w=0.7829 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)V201.CB) [> 3.9111 = 6.5185 < 8.4740] w=0.7790 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)E202.CB) [> 3.1976 = 5.3293 < 6.9280] w=0.7724 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)M33.CB) [> 3.0933 = 5.1556 < 6.7022] w=0.7721 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)V36.CB) [> 3.6981 = 6.1635 < 8.0125] w=0.7714 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)L199.CB) [> 3.6461 = 6.0768 < 7.8999] w=0.7649 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)V201.CB) [> 3.5215 = 5.8692 < 7.6300] w=0.7644 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)F171.CB) [> 3.7437 = 6.2396 < 8.1114] w=0.7625 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)G89.CA) [> 3.7599 = 6.2664 < 8.1464] w=0.7620 to align # Constraint # added constraint: constraint((T0315)A28.CB, (T0315)T224.CB) [> 3.3926 = 5.6544 < 7.3507] w=0.7617 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)Y53.CB) [> 3.3967 = 5.6611 < 7.3595] w=0.7569 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)H153.CB) [> 3.7938 = 6.3230 < 8.2199] w=0.7563 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)G89.CA) [> 3.3706 = 5.6177 < 7.3030] w=0.7548 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)V87.CB) [> 3.7153 = 6.1922 < 8.0498] w=0.7541 to align # Constraint # added constraint: constraint((T0315)Y172.CB, (T0315)L199.CB) [> 4.2487 = 7.0812 < 9.2055] w=0.7484 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)E202.CB) [> 3.1140 = 5.1900 < 6.7470] w=0.7422 to align # Constraint # added constraint: constraint((T0315)Y172.CB, (T0315)L200.CB) [> 3.6825 = 6.1375 < 7.9788] w=0.7416 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)E202.CB) [> 3.5232 = 5.8720 < 7.6336] w=0.7359 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)G150.CA) [> 3.6588 = 6.0981 < 7.9275] w=0.7348 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)P124.CB) [> 3.9464 = 6.5773 < 8.5505] w=0.7320 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)A25.CB) [> 3.9810 = 6.6350 < 8.6256] w=0.7266 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)E202.CB) [> 2.3229 = 3.8715 < 5.0329] w=0.7211 to align # Constraint # added constraint: constraint((T0315)E79.CB, (T0315)L117.CB) [> 3.5713 = 5.9521 < 7.7378] w=0.7202 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)D204.CB) [> 3.2501 = 5.4169 < 7.0420] w=0.7201 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)V36.CB) [> 4.0832 = 6.8053 < 8.8469] w=0.7200 to align # Constraint # added constraint: constraint((T0315)L18.CB, (T0315)L49.CB) [> 3.5965 = 5.9942 < 7.7924] w=0.7172 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)V35.CB) [> 3.1855 = 5.3091 < 6.9019] w=0.7129 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)G29.CA) [> 3.3406 = 5.5677 < 7.2380] w=0.7120 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)L200.CB) [> 4.1958 = 6.9930 < 9.0908] w=0.7113 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)G176.CA) [> 3.8472 = 6.4120 < 8.3357] w=0.7034 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)E202.CB) [> 2.8799 = 4.7998 < 6.2397] w=0.6976 to align # Constraint # added constraint: constraint((T0315)L75.CB, (T0315)K113.CB) [> 3.2824 = 5.4707 < 7.1119] w=0.6960 to align # Constraint # added constraint: constraint((T0315)V30.CB, (T0315)V223.CB) [> 3.7426 = 6.2376 < 8.1089] w=0.6957 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)E202.CB) [> 4.0714 = 6.7857 < 8.8215] w=0.6902 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)V87.CB) [> 3.3727 = 5.6211 < 7.3075] w=0.6889 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)I127.CB) [> 3.8813 = 6.4688 < 8.4094] w=0.6875 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)M33.CB) [> 4.1910 = 6.9849 < 9.0804] w=0.6873 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)L200.CB) [> 3.1074 = 5.1791 < 6.7328] w=0.6832 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)V201.CB) [> 4.1737 = 6.9561 < 9.0430] w=0.6821 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)M152.CB) [> 3.6575 = 6.0958 < 7.9245] w=0.6801 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)T203.CB) [> 3.5588 = 5.9314 < 7.7108] w=0.6757 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)S174.CB) [> 4.3112 = 7.1853 < 9.3410] w=0.6740 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)I90.CB) [> 3.7197 = 6.1995 < 8.0593] w=0.6730 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)V36.CB) [> 3.8178 = 6.3630 < 8.2719] w=0.6690 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)L117.CB) [> 3.1636 = 5.2727 < 6.8545] w=0.6686 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)D204.CB) [> 4.2322 = 7.0536 < 9.1697] w=0.6681 to align # Constraint # added constraint: constraint((T0315)D31.CB, (T0315)F55.CB) [> 3.9781 = 6.6301 < 8.6192] w=0.6680 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)H153.CB) [> 3.5901 = 5.9836 < 7.7786] w=0.6662 to align # Constraint # added constraint: constraint((T0315)T203.CB, (T0315)R222.CB) [> 3.5641 = 5.9401 < 7.7222] w=0.6619 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)L123.CB) [> 3.3578 = 5.5964 < 7.2753] w=0.6518 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)F34.CB) [> 4.1277 = 6.8795 < 8.9433] w=0.6515 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)V226.CB) [> 3.5992 = 5.9987 < 7.7983] w=0.6461 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)H128.CB) [> 3.2357 = 5.3929 < 7.0108] w=0.6440 to align # Constraint # added constraint: constraint((T0315)A227.CB, (T0315)V241.CB) [> 3.4365 = 5.7275 < 7.4458] w=0.6391 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)T203.CB) [> 3.7039 = 6.1731 < 8.0251] w=0.6390 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)T203.CB) [> 4.2536 = 7.0894 < 9.2162] w=0.6387 to align # Constraint # added constraint: constraint((T0315)A82.CB, (T0315)L121.CB) [> 3.1593 = 5.2655 < 6.8451] w=0.6384 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)Q114.CB) [> 3.7702 = 6.2836 < 8.1687] w=0.6372 to align # Constraint # added constraint: constraint((T0315)E79.CB, (T0315)L121.CB) [> 3.7321 = 6.2202 < 8.0863] w=0.6366 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)V148.CB) [> 3.5142 = 5.8570 < 7.6140] w=0.6362 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)L199.CB) [> 4.1425 = 6.9042 < 8.9754] w=0.6361 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)D204.CB) [> 4.1662 = 6.9437 < 9.0268] w=0.6309 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)P187.CB) [> 3.6466 = 6.0776 < 7.9009] w=0.6309 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)T203.CB) [> 4.0337 = 6.7229 < 8.7398] w=0.6306 to align # Constraint # added constraint: constraint((T0315)K108.CB, (T0315)I139.CB) [> 3.6922 = 6.1536 < 7.9997] w=0.6302 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)V87.CB) [> 3.6438 = 6.0730 < 7.8949] w=0.6288 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)I88.CB) [> 3.4575 = 5.7626 < 7.4913] w=0.6286 to align # Constraint # added constraint: constraint((T0315)L200.CB, (T0315)A249.CB) [> 3.2269 = 5.3781 < 6.9916] w=0.6243 to align # Constraint # added constraint: constraint((T0315)L200.CB, (T0315)N248.CB) [> 3.2380 = 5.3966 < 7.0156] w=0.6243 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)E202.CB) [> 4.2094 = 7.0158 < 9.1205] w=0.6241 to align # Constraint # added constraint: constraint((T0315)T203.CB, (T0315)V223.CB) [> 3.4419 = 5.7364 < 7.4574] w=0.6238 to align # Constraint # added constraint: constraint((T0315)I230.CB, (T0315)V241.CB) [> 3.6534 = 6.0890 < 7.9157] w=0.6221 to align # Constraint # added constraint: constraint((T0315)A46.CB, (T0315)G58.CA) [> 4.0128 = 6.6880 < 8.6944] w=0.6220 to align # Constraint # added constraint: constraint((T0315)A28.CB, (T0315)V223.CB) [> 3.3103 = 5.5171 < 7.1723] w=0.6215 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)A249.CB) [> 2.4962 = 4.1603 < 5.4085] w=0.6168 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)I59.CB) [> 3.0947 = 5.1579 < 6.7053] w=0.6163 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)I173.CB) [> 3.7064 = 6.1773 < 8.0305] w=0.6153 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)L175.CB) [> 3.9291 = 6.5484 < 8.5130] w=0.6137 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)A249.CB) [> 3.1852 = 5.3086 < 6.9012] w=0.6094 to align # Constraint # added constraint: constraint((T0315)F171.CB, (T0315)R198.CB) [> 4.1230 = 6.8716 < 8.9331] w=0.6080 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)P124.CB) [> 4.3917 = 7.3194 < 9.5153] w=0.6071 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)M152.CB) [> 3.2197 = 5.3662 < 6.9760] w=0.6056 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)S174.CB) [> 3.4032 = 5.6720 < 7.3736] w=0.6020 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)S174.CB) [> 3.5323 = 5.8872 < 7.6534] w=0.6014 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)Y57.CB) [> 4.0467 = 6.7445 < 8.7679] w=0.6010 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)Q114.CB) [> 3.4783 = 5.7971 < 7.5362] w=0.6007 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)S174.CB) [> 3.8249 = 6.3749 < 8.2873] w=0.6006 to align # Constraint # added constraint: constraint((T0315)V190.CB, (T0315)L199.CB) [> 3.4059 = 5.6766 < 7.3795] w=0.5945 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)Y57.CB) [> 3.0158 = 5.0263 < 6.5342] w=0.5938 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I90.CB) [> 3.5813 = 5.9688 < 7.7594] w=0.5909 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)H128.CB) [> 3.7110 = 6.1850 < 8.0405] w=0.5909 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)T246.CB) [> 3.7339 = 6.2231 < 8.0900] w=0.5872 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)V223.CB) [> 3.7104 = 6.1839 < 8.0391] w=0.5856 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)S154.CB) [> 3.7624 = 6.2707 < 8.1519] w=0.5847 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)R32.CB) [> 4.3208 = 7.2013 < 9.3617] w=0.5847 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)G91.CA) [> 3.7409 = 6.2348 < 8.1052] w=0.5843 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)I126.CB) [> 2.9766 = 4.9611 < 6.4494] w=0.5841 to align # Constraint # added constraint: constraint((T0315)A231.CB, (T0315)V241.CB) [> 3.4121 = 5.6869 < 7.3930] w=0.5798 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)A205.CB) [> 3.6852 = 6.1420 < 7.9845] w=0.5797 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)F55.CB) [> 3.1242 = 5.2071 < 6.7692] w=0.5789 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I126.CB) [> 3.8778 = 6.4629 < 8.4018] w=0.5769 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)G61.CA) [> 3.4779 = 5.7965 < 7.5355] w=0.5768 to align # Constraint # added constraint: constraint((T0315)R198.CB, (T0315)N248.CB) [> 4.1020 = 6.8367 < 8.8877] w=0.5722 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)A118.CB) [> 3.2688 = 5.4480 < 7.0824] w=0.5713 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I78.CB) [> 3.2013 = 5.3354 < 6.9361] w=0.5708 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)L18.CB) [> 3.3881 = 5.6468 < 7.3409] w=0.5707 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)G89.CA) [> 3.8923 = 6.4872 < 8.4333] w=0.5696 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)I173.CB) [> 3.9379 = 6.5632 < 8.5321] w=0.5695 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)G149.CA) [> 3.9365 = 6.5609 < 8.5291] w=0.5684 to align # Constraint # added constraint: constraint((T0315)L200.CB, (T0315)L252.CB) [> 3.9031 = 6.5051 < 8.4566] w=0.5650 to align # Constraint # added constraint: constraint((T0315)F111.CB, (T0315)I139.CB) [> 3.3033 = 5.5055 < 7.1571] w=0.5649 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)T245.CB) [> 3.4069 = 5.6782 < 7.3816] w=0.5649 to align # Constraint # added constraint: constraint((T0315)L199.CB, (T0315)N248.CB) [> 3.8963 = 6.4938 < 8.4420] w=0.5648 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)C136.CB) [> 3.7440 = 6.2400 < 8.1120] w=0.5578 to align # Constraint # added constraint: constraint((T0315)R112.CB, (T0315)E143.CB) [> 3.4236 = 5.7059 < 7.4177] w=0.5577 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)T245.CB) [> 4.1422 = 6.9037 < 8.9748] w=0.5575 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)D204.CB) [> 3.4846 = 5.8077 < 7.5500] w=0.5574 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)L56.CB) [> 3.6068 = 6.0114 < 7.8148] w=0.5566 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)G176.CA) [> 3.9222 = 6.5371 < 8.4982] w=0.5557 to align # Constraint # added constraint: constraint((T0315)I137.CB, (T0315)V165.CB) [> 3.6956 = 6.1593 < 8.0071] w=0.5547 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)V190.CB) [> 3.5634 = 5.9389 < 7.7206] w=0.5545 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)G91.CA) [> 3.4297 = 5.7162 < 7.4310] w=0.5541 to align # Constraint # added constraint: constraint((T0315)Y172.CB, (T0315)L252.CB) [> 3.2838 = 5.4729 < 7.1148] w=0.5501 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)T246.CB) [> 3.6305 = 6.0509 < 7.8662] w=0.5500 to align # Constraint # added constraint: constraint((T0315)T133.CB, (T0315)I161.CB) [> 3.6228 = 6.0381 < 7.8495] w=0.5498 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)V223.CB) [> 3.8298 = 6.3831 < 8.2980] w=0.5496 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)A205.CB) [> 3.5872 = 5.9787 < 7.7723] w=0.5425 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)I127.CB) [> 3.5558 = 5.9264 < 7.7043] w=0.5399 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I90.CB) [> 3.6624 = 6.1040 < 7.9352] w=0.5390 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)E250.CB) [> 3.7882 = 6.3137 < 8.2079] w=0.5351 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)V223.CB) [> 3.4482 = 5.7469 < 7.4710] w=0.5335 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)I90.CB) [> 3.7776 = 6.2960 < 8.1848] w=0.5325 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)I125.CB) [> 3.9194 = 6.5323 < 8.4920] w=0.5321 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)I88.CB) [> 3.1927 = 5.3211 < 6.9175] w=0.5318 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)V201.CB) [> 4.1995 = 6.9991 < 9.0989] w=0.5281 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I126.CB) [> 4.3269 = 7.2115 < 9.3749] w=0.5278 to align # Constraint # added constraint: constraint((T0315)I115.CB, (T0315)L140.CB) [> 3.7707 = 6.2846 < 8.1699] w=0.5263 to align # Constraint # added constraint: constraint((T0315)L199.CB, (T0315)Q244.CB) [> 3.5180 = 5.8633 < 7.6223] w=0.5203 to align # Constraint # added constraint: constraint((T0315)M33.CB, (T0315)F55.CB) [> 4.0860 = 6.8100 < 8.8530] w=0.5194 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)V21.CB) [> 3.7123 = 6.1872 < 8.0434] w=0.5187 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)T245.CB) [> 3.0972 = 5.1619 < 6.7105] w=0.5129 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G176.CA) [> 3.8834 = 6.4724 < 8.4141] w=0.5125 to align # Constraint # added constraint: constraint((T0315)I43.CB, (T0315)L81.CB) [> 3.5563 = 5.9271 < 7.7052] w=0.5113 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)I151.CB) [> 3.5985 = 5.9975 < 7.7968] w=0.5098 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)M33.CB) [> 4.3450 = 7.2417 < 9.4142] w=0.5093 to align # Constraint # added constraint: constraint((T0315)A227.CB, (T0315)T245.CB) [> 4.0696 = 6.7827 < 8.8175] w=0.5055 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)F253.CB) [> 4.0809 = 6.8015 < 8.8420] w=0.5055 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)G37.CA) [> 3.7849 = 6.3082 < 8.2006] w=0.5055 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)L252.CB) [> 3.7044 = 6.1741 < 8.0263] w=0.5055 to align # Constraint # added constraint: constraint((T0315)F111.CB, (T0315)C136.CB) [> 3.8691 = 6.4485 < 8.3831] w=0.5047 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)S174.CB) [> 4.0403 = 6.7338 < 8.7540] w=0.5041 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)I60.CB) [> 3.7701 = 6.2834 < 8.1685] w=0.5027 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)L56.CB) [> 3.7915 = 6.3191 < 8.2149] w=0.5026 to align # Constraint # added constraint: constraint((T0315)F111.CB, (T0315)I127.CB) [> 4.1130 = 6.8550 < 8.9115] w=0.5024 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)H128.CB) [> 3.8009 = 6.3348 < 8.2352] w=0.5019 to align # Constraint # added constraint: constraint((T0315)Y172.CB, (T0315)N248.CB) [> 4.2273 = 7.0455 < 9.1591] w=0.4980 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)L56.CB) [> 4.4500 = 7.4167 < 9.6417] w=0.4976 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)V201.CB) [> 4.0937 = 6.8228 < 8.8697] w=0.4976 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)I151.CB) [> 4.2372 = 7.0621 < 9.1807] w=0.4974 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)A118.CB) [> 4.3241 = 7.2068 < 9.3688] w=0.4974 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)I127.CB) [> 3.9917 = 6.6528 < 8.6486] w=0.4969 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)L175.CB) [> 4.1405 = 6.9008 < 8.9710] w=0.4959 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)V190.CB) [> 3.6351 = 6.0584 < 7.8760] w=0.4955 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)V87.CB) [> 3.8234 = 6.3724 < 8.2841] w=0.4948 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)H63.CB) [> 3.8542 = 6.4237 < 8.3509] w=0.4913 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)G58.CA) [> 4.2054 = 7.0090 < 9.1116] w=0.4900 to align # Constraint # added constraint: constraint((T0315)I115.CB, (T0315)A145.CB) [> 3.3487 = 5.5812 < 7.2556] w=0.4890 to align # Constraint # added constraint: constraint((T0315)I137.CB, (T0315)L169.CB) [> 3.5831 = 5.9718 < 7.7634] w=0.4871 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I90.CB) [> 3.9483 = 6.5806 < 8.5548] w=0.4871 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)L140.CB) [> 3.5884 = 5.9807 < 7.7749] w=0.4867 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)A28.CB) [> 4.3529 = 7.2549 < 9.4314] w=0.4828 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)V190.CB) [> 4.0199 = 6.6998 < 8.7098] w=0.4823 to align # Constraint # added constraint: constraint((T0315)P187.CB, (T0315)I230.CB) [> 3.9383 = 6.5639 < 8.5330] w=0.4821 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)I173.CB) [> 3.3091 = 5.5152 < 7.1698] w=0.4816 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)G58.CA) [> 3.7374 = 6.2290 < 8.0977] w=0.4801 to align # Constraint # added constraint: constraint((T0315)P159.CB, (T0315)H193.CB) [> 3.4433 = 5.7388 < 7.4605] w=0.4794 to align # Constraint # added constraint: constraint((T0315)E197.CB, (T0315)N248.CB) [> 3.7359 = 6.2265 < 8.0944] w=0.4758 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)M93.CB) [> 3.6593 = 6.0988 < 7.9285] w=0.4739 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)L49.CB) [> 3.8385 = 6.3975 < 8.3167] w=0.4684 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)P206.CB) [> 3.2661 = 5.4436 < 7.0766] w=0.4683 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)H63.CB) [> 3.2651 = 5.4418 < 7.0743] w=0.4683 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)I88.CB) [> 4.1032 = 6.8387 < 8.8903] w=0.4680 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)L81.CB) [> 3.2127 = 5.3544 < 6.9608] w=0.4665 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)A145.CB) [> 4.1545 = 6.9241 < 9.0013] w=0.4657 to align # Constraint # added constraint: constraint((T0315)M33.CB, (T0315)G58.CA) [> 3.4604 = 5.7674 < 7.4976] w=0.4653 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)F253.CB) [> 3.7569 = 6.2615 < 8.1399] w=0.4609 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)I151.CB) [> 3.9556 = 6.5926 < 8.5704] w=0.4602 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)G61.CA) [> 3.5282 = 5.8804 < 7.6445] w=0.4595 to align # Constraint # added constraint: constraint((T0315)G29.CA, (T0315)T224.CB) [> 3.8853 = 6.4754 < 8.4181] w=0.4587 to align # Constraint # added constraint: constraint((T0315)L141.CB, (T0315)L169.CB) [> 3.4437 = 5.7395 < 7.4614] w=0.4569 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)F253.CB) [> 4.1313 = 6.8856 < 8.9512] w=0.4535 to align # Constraint # added constraint: constraint((T0315)P187.CB, (T0315)L199.CB) [> 3.7278 = 6.2130 < 8.0769] w=0.4533 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)I59.CB) [> 3.6976 = 6.1627 < 8.0115] w=0.4532 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)G91.CA) [> 3.7816 = 6.3026 < 8.1934] w=0.4508 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)I60.CB) [> 3.6825 = 6.1375 < 7.9788] w=0.4507 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)I126.CB) [> 3.9098 = 6.5164 < 8.4713] w=0.4459 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)T203.CB) [> 3.8309 = 6.3848 < 8.3002] w=0.4448 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)L175.CB) [> 3.6146 = 6.0243 < 7.8316] w=0.4435 to align # Constraint # added constraint: constraint((T0315)R26.CB, (T0315)F55.CB) [> 3.6297 = 6.0496 < 7.8644] w=0.4430 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)M33.CB) [> 4.2527 = 7.0879 < 9.2142] w=0.4386 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)A249.CB) [> 4.4699 = 7.4498 < 9.6847] w=0.4386 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)I50.CB) [> 3.5830 = 5.9716 < 7.7631] w=0.4381 to align # Constraint # added constraint: constraint((T0315)K119.CB, (T0315)E143.CB) [> 4.0973 = 6.8288 < 8.8775] w=0.4379 to align # Constraint # added constraint: constraint((T0315)A116.CB, (T0315)E143.CB) [> 3.9387 = 6.5645 < 8.5338] w=0.4378 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)K86.CB) [> 3.6635 = 6.1058 < 7.9375] w=0.4370 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)L252.CB) [> 4.1775 = 6.9625 < 9.0513] w=0.4311 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)H128.CB) [> 3.6291 = 6.0485 < 7.8631] w=0.4307 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)F171.CB) [> 3.5516 = 5.9194 < 7.6952] w=0.4304 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)G177.CA) [> 3.8656 = 6.4427 < 8.3756] w=0.4297 to align # Constraint # added constraint: constraint((T0315)M1.CB, (T0315)D31.CB) [> 2.0760 = 3.4601 < 4.4981] w=0.4295 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)L200.CB) [> 4.3116 = 7.1859 < 9.3417] w=0.4290 to align # Constraint # added constraint: constraint((T0315)I43.CB, (T0315)I60.CB) [> 3.4452 = 5.7421 < 7.4647] w=0.4289 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)L49.CB) [> 3.3584 = 5.5973 < 7.2765] w=0.4260 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)I125.CB) [> 4.1284 = 6.8806 < 8.9448] w=0.4216 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I78.CB) [> 3.7783 = 6.2972 < 8.1864] w=0.4206 to align # Constraint # added constraint: constraint((T0315)A82.CB, (T0315)L117.CB) [> 3.6699 = 6.1166 < 7.9515] w=0.4175 to align # Constraint # added constraint: constraint((T0315)R24.CB, (T0315)P220.CB) [> 3.7260 = 6.2099 < 8.0729] w=0.4162 to align # Constraint # added constraint: constraint((T0315)A191.CB, (T0315)L236.CB) [> 4.1057 = 6.8429 < 8.8958] w=0.4161 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)D204.CB) [> 3.8356 = 6.3927 < 8.3105] w=0.4154 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)E202.CB) [> 3.9106 = 6.5176 < 8.4729] w=0.4151 to align # Constraint # added constraint: constraint((T0315)I115.CB, (T0315)H144.CB) [> 3.5144 = 5.8573 < 7.6145] w=0.4149 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I88.CB) [> 3.5857 = 5.9761 < 7.7690] w=0.4144 to align # Constraint # added constraint: constraint((T0315)Q134.CB, (T0315)I161.CB) [> 4.0245 = 6.7075 < 8.7197] w=0.4131 to align # Constraint # added constraint: constraint((T0315)P124.CB, (T0315)V148.CB) [> 3.5193 = 5.8655 < 7.6252] w=0.4086 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)Y172.CB) [> 4.0767 = 6.7944 < 8.8328] w=0.4081 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)K86.CB) [> 3.5449 = 5.9082 < 7.6806] w=0.4078 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)F111.CB) [> 3.8401 = 6.4002 < 8.3203] w=0.4071 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)G176.CA) [> 3.7580 = 6.2634 < 8.1424] w=0.4070 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)G91.CA) [> 3.5914 = 5.9857 < 7.7814] w=0.4059 to align # Constraint # added constraint: constraint((T0315)S19.CB, (T0315)L49.CB) [> 3.5770 = 5.9617 < 7.7502] w=0.4059 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)F253.CB) [> 3.6302 = 6.0504 < 7.8656] w=0.4014 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)W62.CB) [> 3.7148 = 6.1913 < 8.0487] w=0.4014 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)I78.CB) [> 3.6895 = 6.1491 < 7.9939] w=0.4006 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)G89.CA) [> 3.2099 = 5.3498 < 6.9547] w=0.4003 to align # Constraint # added constraint: constraint((T0315)M47.CB, (T0315)K86.CB) [> 3.5976 = 5.9960 < 7.7948] w=0.3993 to align # Constraint # added constraint: constraint((T0315)F111.CB, (T0315)L140.CB) [> 3.8797 = 6.4661 < 8.4059] w=0.3986 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)I59.CB) [> 3.7068 = 6.1779 < 8.0313] w=0.3986 to align # Constraint # added constraint: constraint((T0315)A25.CB, (T0315)V223.CB) [> 4.2835 = 7.1392 < 9.2810] w=0.3985 to align # Constraint # added constraint: constraint((T0315)K40.CB, (T0315)W77.CB) [> 3.4816 = 5.8027 < 7.5436] w=0.3984 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)A227.CB) [> 3.7748 = 6.2914 < 8.1788] w=0.3938 to align # Constraint # added constraint: constraint((T0315)N170.CB, (T0315)R198.CB) [> 4.3143 = 7.1905 < 9.3476] w=0.3938 to align # Constraint # added constraint: constraint((T0315)L140.CB, (T0315)F171.CB) [> 3.8709 = 6.4515 < 8.3869] w=0.3935 to align # Constraint # added constraint: constraint((T0315)T166.CB, (T0315)R198.CB) [> 3.4861 = 5.8101 < 7.5531] w=0.3930 to align # Constraint # added constraint: constraint((T0315)A205.CB, (T0315)R222.CB) [> 4.0788 = 6.7980 < 8.8374] w=0.3924 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)I230.CB) [> 3.9356 = 6.5593 < 8.5271] w=0.3922 to align # Constraint # added constraint: constraint((T0315)K188.CB, (T0315)L233.CB) [> 3.6100 = 6.0166 < 7.8216] w=0.3909 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)L200.CB) [> 3.6834 = 6.1391 < 7.9808] w=0.3864 to align # Constraint # added constraint: constraint((T0315)L140.CB, (T0315)G150.CA) [> 4.1001 = 6.8335 < 8.8835] w=0.3862 to align # Constraint # added constraint: constraint((T0315)T203.CB, (T0315)V226.CB) [> 3.6912 = 6.1520 < 7.9976] w=0.3860 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G61.CA) [> 3.7535 = 6.2559 < 8.1327] w=0.3837 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)G61.CA) [> 3.9827 = 6.6379 < 8.6293] w=0.3837 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)D204.CB) [> 3.9304 = 6.5507 < 8.5159] w=0.3791 to align # Constraint # added constraint: constraint((T0315)M196.CB, (T0315)Q244.CB) [> 3.6287 = 6.0478 < 7.8622] w=0.3791 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)Y207.CB) [> 4.2371 = 7.0619 < 9.1804] w=0.3791 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)A46.CB) [> 3.7144 = 6.1907 < 8.0479] w=0.3791 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)I60.CB) [> 3.9427 = 6.5712 < 8.5426] w=0.3790 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)I60.CB) [> 3.9411 = 6.5684 < 8.5390] w=0.3783 to align # Constraint # added constraint: constraint((T0315)T166.CB, (T0315)S195.CB) [> 3.6794 = 6.1323 < 7.9720] w=0.3783 to align # Constraint # added constraint: constraint((T0315)H74.CB, (T0315)V110.CB) [> 3.9074 = 6.5123 < 8.4660] w=0.3765 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)G91.CA) [> 3.5231 = 5.8718 < 7.6333] w=0.3765 to align # Constraint # added constraint: constraint((T0315)D31.CB, (T0315)L56.CB) [> 3.8741 = 6.4568 < 8.3939] w=0.3762 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)F253.CB) [> 3.9386 = 6.5643 < 8.5336] w=0.3717 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)L252.CB) [> 3.9280 = 6.5467 < 8.5106] w=0.3717 to align # Constraint # added constraint: constraint((T0315)I137.CB, (T0315)F171.CB) [> 3.7696 = 6.2827 < 8.1675] w=0.3715 to align # Constraint # added constraint: constraint((T0315)I43.CB, (T0315)V87.CB) [> 4.0961 = 6.8269 < 8.8750] w=0.3702 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)A82.CB) [> 3.5494 = 5.9157 < 7.6904] w=0.3699 to align # Constraint # added constraint: constraint((T0315)A191.CB, (T0315)I230.CB) [> 3.8311 = 6.3852 < 8.3007] w=0.3685 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)G61.CA) [> 3.5476 = 5.9126 < 7.6864] w=0.3641 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)S154.CB) [> 4.0913 = 6.8189 < 8.8646] w=0.3628 to align # Constraint # added constraint: constraint((T0315)G157.CA, (T0315)Q186.CB) [> 3.9819 = 6.6365 < 8.6274] w=0.3621 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)I126.CB) [> 4.1602 = 6.9337 < 9.0138] w=0.3620 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)L121.CB) [> 3.9663 = 6.6106 < 8.5938] w=0.3619 to align # Constraint # added constraint: constraint((T0315)V148.CB, (T0315)Y172.CB) [> 4.2269 = 7.0448 < 9.1582] w=0.3565 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)V201.CB) [> 4.1100 = 6.8500 < 8.9050] w=0.3553 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)G176.CA) [> 3.8328 = 6.3880 < 8.3044] w=0.3552 to align # Constraint # added constraint: constraint((T0315)M1.CB, (T0315)V30.CB) [> 4.2324 = 7.0541 < 9.1703] w=0.3552 to align # Constraint # added constraint: constraint((T0315)T166.CB, (T0315)V194.CB) [> 3.3849 = 5.6415 < 7.3340] w=0.3549 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)E92.CB) [> 3.6455 = 6.0759 < 7.8987] w=0.3542 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)L252.CB) [> 3.9105 = 6.5176 < 8.4728] w=0.3494 to align # Constraint # added constraint: constraint((T0315)V148.CB, (T0315)N170.CB) [> 3.3670 = 5.6116 < 7.2951] w=0.3493 to align # Constraint # added constraint: constraint((T0315)E147.CB, (T0315)N170.CB) [> 3.2816 = 5.4693 < 7.1101] w=0.3493 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)W62.CB) [> 3.8152 = 6.3586 < 8.2662] w=0.3493 to align # Constraint # added constraint: constraint((T0315)A118.CB, (T0315)V148.CB) [> 3.6303 = 6.0505 < 7.8656] w=0.3480 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)H128.CB) [> 4.0986 = 6.8311 < 8.8804] w=0.3473 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)A191.CB) [> 3.9649 = 6.6082 < 8.5906] w=0.3472 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)Q114.CB) [> 4.0115 = 6.6858 < 8.6915] w=0.3470 to align # Constraint # added constraint: constraint((T0315)L18.CB, (T0315)R45.CB) [> 4.0528 = 6.7546 < 8.7810] w=0.3465 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)A46.CB) [> 3.5238 = 5.8730 < 7.6349] w=0.3419 to align # Constraint # added constraint: constraint((T0315)A25.CB, (T0315)P220.CB) [> 3.0819 = 5.1364 < 6.6773] w=0.3419 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)V110.CB) [> 3.3287 = 5.5478 < 7.2121] w=0.3418 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)I127.CB) [> 3.7301 = 6.2168 < 8.0818] w=0.3417 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)W62.CB) [> 3.8867 = 6.4778 < 8.4212] w=0.3417 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)P178.CB) [> 3.9189 = 6.5315 < 8.4910] w=0.3415 to align # Constraint # added constraint: constraint((T0315)R26.CB, (T0315)D54.CB) [> 4.0899 = 6.8165 < 8.8614] w=0.3415 to align # Constraint # added constraint: constraint((T0315)T133.CB, (T0315)V165.CB) [> 3.6534 = 6.0889 < 7.9156] w=0.3409 to align # Constraint # added constraint: constraint((T0315)M1.CB, (T0315)R32.CB) [> 3.6772 = 6.1287 < 7.9673] w=0.3404 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)E92.CB) [> 3.4757 = 5.7929 < 7.5308] w=0.3397 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)V194.CB) [> 3.3657 = 5.6094 < 7.2923] w=0.3395 to align # Constraint # added constraint: constraint((T0315)M47.CB, (T0315)P85.CB) [> 3.7464 = 6.2440 < 8.1172] w=0.3392 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)H193.CB) [> 3.3218 = 5.5363 < 7.1972] w=0.3383 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)I151.CB) [> 4.0528 = 6.7547 < 8.7811] w=0.3345 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)L252.CB) [> 4.2078 = 7.0131 < 9.1170] w=0.3345 to align # Constraint # added constraint: constraint((T0315)M196.CB, (T0315)E240.CB) [> 3.3669 = 5.6115 < 7.2950] w=0.3345 to align # Constraint # added constraint: constraint((T0315)A205.CB, (T0315)P220.CB) [> 3.4230 = 5.7049 < 7.4164] w=0.3345 to align # Constraint # added constraint: constraint((T0315)I43.CB, (T0315)W77.CB) [> 3.7336 = 6.2227 < 8.0895] w=0.3345 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)V194.CB) [> 3.7298 = 6.2163 < 8.0812] w=0.3341 to align # Constraint # added constraint: constraint((T0315)M47.CB, (T0315)L81.CB) [> 3.7301 = 6.2169 < 8.0819] w=0.3340 to align # Constraint # added constraint: constraint((T0315)V148.CB, (T0315)F171.CB) [> 4.1123 = 6.8538 < 8.9100] w=0.3337 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)I50.CB) [> 3.7125 = 6.1874 < 8.0436] w=0.3321 to align # Constraint # added constraint: constraint((T0315)A25.CB, (T0315)L56.CB) [> 3.8817 = 6.4694 < 8.4103] w=0.3316 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)I126.CB) [> 4.4843 = 7.4738 < 9.7159] w=0.3271 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)I126.CB) [> 4.3570 = 7.2618 < 9.4403] w=0.3271 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)V87.CB) [> 3.5257 = 5.8762 < 7.6390] w=0.3270 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)N129.CB) [> 3.8299 = 6.3831 < 8.2980] w=0.3265 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)G89.CA) [> 3.7680 = 6.2800 < 8.1640] w=0.3254 to align # Constraint # added constraint: constraint((T0315)D31.CB, (T0315)Y57.CB) [> 4.0003 = 6.6672 < 8.6673] w=0.3243 to align # Constraint # added constraint: constraint((T0315)A191.CB, (T0315)L233.CB) [> 3.5115 = 5.8525 < 7.6082] w=0.3241 to align # Constraint # added constraint: constraint((T0315)T203.CB, (T0315)A221.CB) [> 3.3818 = 5.6363 < 7.3271] w=0.3203 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)A249.CB) [> 4.3156 = 7.1927 < 9.3505] w=0.3196 to align # Constraint # added constraint: constraint((T0315)A46.CB, (T0315)L56.CB) [> 3.4676 = 5.7793 < 7.5132] w=0.3190 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)V87.CB) [> 3.5354 = 5.8923 < 7.6600] w=0.3187 to align # Constraint # added constraint: constraint((T0315)V21.CB, (T0315)M33.CB) [> 4.0781 = 6.7969 < 8.8359] w=0.3181 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)M93.CB) [> 4.2452 = 7.0754 < 9.1980] w=0.3181 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)I173.CB) [> 4.1020 = 6.8367 < 8.8877] w=0.3170 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)I151.CB) [> 4.0928 = 6.8213 < 8.8677] w=0.3167 to align # Constraint # added constraint: constraint((T0315)R24.CB, (T0315)A221.CB) [> 2.9000 = 4.8333 < 6.2833] w=0.3122 to align # Constraint # added constraint: constraint((T0315)N10.CB, (T0315)G37.CA) [> 4.2079 = 7.0131 < 9.1171] w=0.3122 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)M93.CB) [> 4.0571 = 6.7619 < 8.7905] w=0.3121 to align # Constraint # added constraint: constraint((T0315)Q83.CB, (T0315)L121.CB) [> 4.1447 = 6.9079 < 8.9802] w=0.3114 to align # Constraint # added constraint: constraint((T0315)E92.CB, (T0315)Q114.CB) [> 3.3543 = 5.5905 < 7.2676] w=0.3108 to align # Constraint # added constraint: constraint((T0315)L18.CB, (T0315)V35.CB) [> 4.2821 = 7.1368 < 9.2778] w=0.3106 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)E147.CB) [> 3.5692 = 5.9486 < 7.7332] w=0.3102 to align # Constraint # added constraint: constraint((T0315)P159.CB, (T0315)V190.CB) [> 3.5216 = 5.8693 < 7.6301] w=0.3094 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)G149.CA) [> 4.2996 = 7.1660 < 9.3158] w=0.3083 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)L255.CB) [> 4.1110 = 6.8517 < 8.9073] w=0.3048 to align # Constraint # added constraint: constraint((T0315)P206.CB, (T0315)E219.CB) [> 3.9255 = 6.5425 < 8.5053] w=0.3047 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)N129.CB) [> 3.8373 = 6.3954 < 8.3141] w=0.3045 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)G89.CA) [> 3.9388 = 6.5647 < 8.5342] w=0.3039 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)Q114.CB) [> 4.2795 = 7.1325 < 9.2723] w=0.3037 to align # Constraint # added constraint: constraint((T0315)L140.CB, (T0315)L169.CB) [> 3.8410 = 6.4016 < 8.3222] w=0.3035 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)H128.CB) [> 3.8361 = 6.3934 < 8.3115] w=0.3034 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)V201.CB) [> 3.9282 = 6.5470 < 8.5111] w=0.3033 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)N129.CB) [> 4.1898 = 6.9831 < 9.0780] w=0.3032 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)E92.CB) [> 3.8758 = 6.4596 < 8.3975] w=0.3023 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)H153.CB) [> 3.5237 = 5.8728 < 7.6346] w=0.2974 to align # Constraint # added constraint: constraint((T0315)E146.CB, (T0315)N170.CB) [> 3.7490 = 6.2483 < 8.1228] w=0.2973 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)V36.CB) [> 4.3012 = 7.1687 < 9.3193] w=0.2973 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)T203.CB) [> 3.7359 = 6.2265 < 8.0945] w=0.2972 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)M93.CB) [> 3.5730 = 5.9549 < 7.7414] w=0.2968 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)L200.CB) [> 3.8263 = 6.3771 < 8.2903] w=0.2959 to align # Constraint # added constraint: constraint((T0315)A25.CB, (T0315)A221.CB) [> 3.2044 = 5.3407 < 6.9429] w=0.2899 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)L56.CB) [> 4.3766 = 7.2944 < 9.4827] w=0.2899 to align # Constraint # added constraint: constraint((T0315)I90.CB, (T0315)L117.CB) [> 3.7294 = 6.2156 < 8.0803] w=0.2825 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)A46.CB) [> 4.0507 = 6.7511 < 8.7765] w=0.2824 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)L200.CB) [> 4.4463 = 7.4105 < 9.6337] w=0.2823 to align # Constraint # added constraint: constraint((T0315)K188.CB, (T0315)K234.CB) [> 3.6458 = 6.0763 < 7.8991] w=0.2823 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)H128.CB) [> 4.1257 = 6.8761 < 8.9389] w=0.2822 to align # Constraint # added constraint: constraint((T0315)I22.CB, (T0315)E52.CB) [> 4.1313 = 6.8855 < 8.9511] w=0.2819 to align # Constraint # added constraint: constraint((T0315)H8.CB, (T0315)F38.CB) [> 4.1081 = 6.8468 < 8.9008] w=0.2810 to align # Constraint # added constraint: constraint((T0315)A184.CB, (T0315)V226.CB) [> 3.6361 = 6.0602 < 7.8783] w=0.2810 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)P206.CB) [> 4.1132 = 6.8553 < 8.9119] w=0.2809 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)W99.CB) [> 3.6284 = 6.0472 < 7.8614] w=0.2808 to align # Constraint # added constraint: constraint((T0315)V87.CB, (T0315)P124.CB) [> 3.3268 = 5.5446 < 7.2080] w=0.2807 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)V148.CB) [> 3.2973 = 5.4955 < 7.1441] w=0.2802 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)E202.CB) [> 3.7009 = 6.1681 < 8.0186] w=0.2751 to align # Constraint # added constraint: constraint((T0315)I3.CB, (T0315)L255.CB) [> 4.4034 = 7.3389 < 9.5406] w=0.2751 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)M152.CB) [> 3.5043 = 5.8404 < 7.5926] w=0.2750 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)Q114.CB) [> 3.8766 = 6.4611 < 8.3994] w=0.2749 to align # Constraint # added constraint: constraint((T0315)L56.CB, (T0315)K86.CB) [> 4.0198 = 6.6998 < 8.7097] w=0.2740 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)L175.CB) [> 3.9138 = 6.5230 < 8.4799] w=0.2712 to align # Constraint # added constraint: constraint((T0315)T133.CB, (T0315)I164.CB) [> 3.7731 = 6.2884 < 8.1749] w=0.2677 to align # Constraint # added constraint: constraint((T0315)Y207.CB, (T0315)N218.CB) [> 3.5874 = 5.9789 < 7.7726] w=0.2676 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)G177.CA) [> 3.8811 = 6.4685 < 8.4091] w=0.2675 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)I88.CB) [> 3.6714 = 6.1189 < 7.9546] w=0.2672 to align # Constraint # added constraint: constraint((T0315)I50.CB, (T0315)K86.CB) [> 3.3894 = 5.6490 < 7.3437] w=0.2670 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)V226.CB) [> 4.1930 = 6.9884 < 9.0849] w=0.2670 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)H153.CB) [> 3.8208 = 6.3679 < 8.2783] w=0.2669 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)F155.CB) [> 3.8128 = 6.3547 < 8.2611] w=0.2660 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)V226.CB) [> 3.4313 = 5.7188 < 7.4344] w=0.2602 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)A249.CB) [> 4.6744 = 7.7907 < 10.1279] w=0.2602 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)A25.CB) [> 4.5558 = 7.5929 < 9.8708] w=0.2602 to align # Constraint # added constraint: constraint((T0315)D11.CB, (T0315)P206.CB) [> 3.5489 = 5.9149 < 7.6893] w=0.2601 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)H63.CB) [> 3.1886 = 5.3143 < 6.9086] w=0.2601 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)P187.CB) [> 3.9670 = 6.6117 < 8.5951] w=0.2599 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G89.CA) [> 4.4992 = 7.4986 < 9.7482] w=0.2599 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)A205.CB) [> 4.1597 = 6.9329 < 9.0128] w=0.2587 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)H74.CB) [> 3.3632 = 5.6054 < 7.2870] w=0.2580 to align # Constraint # added constraint: constraint((T0315)F70.CB, (T0315)V110.CB) [> 3.5839 = 5.9731 < 7.7651] w=0.2533 to align # Constraint # added constraint: constraint((T0315)C136.CB, (T0315)M152.CB) [> 4.0502 = 6.7503 < 8.7754] w=0.2527 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)G94.CA) [> 4.1147 = 6.8579 < 8.9152] w=0.2527 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)I60.CB) [> 4.1224 = 6.8707 < 8.9319] w=0.2527 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)G91.CA) [> 3.9156 = 6.5260 < 8.4837] w=0.2526 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)E202.CB) [> 4.0584 = 6.7641 < 8.7933] w=0.2525 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)V190.CB) [> 4.0664 = 6.7773 < 8.8105] w=0.2519 to align # Constraint # added constraint: constraint((T0315)D163.CB, (T0315)V194.CB) [> 3.7952 = 6.3253 < 8.2228] w=0.2508 to align # Constraint # added constraint: constraint((T0315)T71.CB, (T0315)V110.CB) [> 3.3770 = 5.6284 < 7.3169] w=0.2498 to align # Constraint # added constraint: constraint((T0315)K192.CB, (T0315)L233.CB) [> 3.7032 = 6.1719 < 8.0235] w=0.2497 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)V165.CB) [> 3.4518 = 5.7531 < 7.4790] w=0.2452 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)Q114.CB) [> 4.3806 = 7.3011 < 9.4914] w=0.2445 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)V165.CB) [> 4.1050 = 6.8417 < 8.8942] w=0.2438 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)E92.CB) [> 4.0124 = 6.6873 < 8.6936] w=0.2437 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)I125.CB) [> 3.4810 = 5.8016 < 7.5421] w=0.2435 to align # Constraint # added constraint: constraint((T0315)G157.CA, (T0315)V190.CB) [> 4.1877 = 6.9794 < 9.0733] w=0.2423 to align # Constraint # added constraint: constraint((T0315)A227.CB, (T0315)C242.CB) [> 4.0660 = 6.7767 < 8.8097] w=0.2379 to align # Constraint # added constraint: constraint((T0315)I68.CB, (T0315)V106.CB) [> 3.4042 = 5.6737 < 7.3758] w=0.2378 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)H153.CB) [> 3.5952 = 5.9920 < 7.7896] w=0.2372 to align # Constraint # added constraint: constraint((T0315)A184.CB, (T0315)Q229.CB) [> 3.4742 = 5.7903 < 7.5274] w=0.2363 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)V165.CB) [> 3.7093 = 6.1822 < 8.0369] w=0.2362 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)G89.CA) [> 3.8568 = 6.4279 < 8.3563] w=0.2362 to align # Constraint # added constraint: constraint((T0315)E131.CB, (T0315)S156.CB) [> 4.1960 = 6.9933 < 9.0913] w=0.2362 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)R130.CB) [> 3.8412 = 6.4020 < 8.3226] w=0.2300 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)P178.CB) [> 4.1005 = 6.8342 < 8.8845] w=0.2295 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)S174.CB) [> 3.9652 = 6.6087 < 8.5913] w=0.2289 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)A227.CB) [> 3.7192 = 6.1987 < 8.0583] w=0.2289 to align # Constraint # added constraint: constraint((T0315)H63.CB, (T0315)H98.CB) [> 3.7750 = 6.2917 < 8.1792] w=0.2288 to align # Constraint # added constraint: constraint((T0315)A191.CB, (T0315)K234.CB) [> 4.0733 = 6.7889 < 8.8256] w=0.2280 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)I230.CB) [> 3.7801 = 6.3002 < 8.1903] w=0.2231 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)M93.CB) [> 4.0417 = 6.7362 < 8.7571] w=0.2229 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)D204.CB) [> 3.4797 = 5.7995 < 7.5394] w=0.2229 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)A132.CB) [> 3.0196 = 5.0327 < 6.5425] w=0.2229 to align # Constraint # added constraint: constraint((T0315)C136.CB, (T0315)I151.CB) [> 4.0471 = 6.7452 < 8.7688] w=0.2228 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)L175.CB) [> 3.9196 = 6.5327 < 8.4925] w=0.2221 to align # Constraint # added constraint: constraint((T0315)K40.CB, (T0315)L81.CB) [> 3.5852 = 5.9754 < 7.7680] w=0.2212 to align # Constraint # added constraint: constraint((T0315)Y97.CB, (T0315)R130.CB) [> 3.9349 = 6.5581 < 8.5256] w=0.2198 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)V201.CB) [> 3.9589 = 6.5981 < 8.5775] w=0.2155 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)C136.CB) [> 3.5126 = 5.8543 < 7.6106] w=0.2154 to align # Constraint # added constraint: constraint((T0315)I43.CB, (T0315)H84.CB) [> 3.6407 = 6.0679 < 7.8883] w=0.2141 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)I126.CB) [> 3.9515 = 6.5858 < 8.5616] w=0.2137 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)A132.CB) [> 3.6333 = 6.0555 < 7.8722] w=0.2136 to align # Constraint # added constraint: constraint((T0315)L75.CB, (T0315)R120.CB) [> 4.3622 = 7.2703 < 9.4514] w=0.2130 to align # Constraint # added constraint: constraint((T0315)H98.CB, (T0315)R130.CB) [> 3.5626 = 5.9376 < 7.7189] w=0.2118 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)A205.CB) [> 4.3643 = 7.2739 < 9.4560] w=0.2082 to align # Constraint # added constraint: constraint((T0315)P206.CB, (T0315)R217.CB) [> 3.3866 = 5.6444 < 7.3377] w=0.2082 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I151.CB) [> 4.5816 = 7.6360 < 9.9268] w=0.2081 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)V226.CB) [> 3.6131 = 6.0218 < 7.8283] w=0.2080 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)V190.CB) [> 3.9937 = 6.6562 < 8.6531] w=0.2068 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)S156.CB) [> 4.0439 = 6.7398 < 8.7617] w=0.2059 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)V110.CB) [> 3.8842 = 6.4736 < 8.4157] w=0.2007 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)G94.CA) [> 2.9948 = 4.9913 < 6.4886] w=0.2006 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)Q114.CB) [> 2.9504 = 4.9172 < 6.3924] w=0.2004 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)F111.CB) [> 3.6196 = 6.0327 < 7.8426] w=0.2001 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)I88.CB) [> 3.6989 = 6.1648 < 8.0142] w=0.2000 to align # Constraint # added constraint: constraint((T0315)H98.CB, (T0315)H128.CB) [> 3.3063 = 5.5105 < 7.1637] w=0.2000 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)Q107.CB) [> 3.8492 = 6.4153 < 8.3399] w=0.1992 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)N129.CB) [> 3.9969 = 6.6614 < 8.6598] w=0.1988 to align # Constraint # added constraint: constraint((T0315)A205.CB, (T0315)R217.CB) [> 4.1807 = 6.9679 < 9.0583] w=0.1933 to align # Constraint # added constraint: constraint((T0315)M33.CB, (T0315)P220.CB) [> 3.8545 = 6.4242 < 8.3514] w=0.1933 to align # Constraint # added constraint: constraint((T0315)I230.CB, (T0315)Q244.CB) [> 4.2210 = 7.0349 < 9.1454] w=0.1933 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)I126.CB) [> 4.0934 = 6.8224 < 8.8691] w=0.1933 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)I125.CB) [> 3.4931 = 5.8219 < 7.5684] w=0.1933 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)R222.CB) [> 3.7295 = 6.2159 < 8.0807] w=0.1933 to align # Constraint # added constraint: constraint((T0315)Y97.CB, (T0315)A132.CB) [> 3.0411 = 5.0685 < 6.5891] w=0.1932 to align # Constraint # added constraint: constraint((T0315)D163.CB, (T0315)V190.CB) [> 4.0547 = 6.7578 < 8.7851] w=0.1932 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)T203.CB) [> 3.1362 = 5.2270 < 6.7951] w=0.1928 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)Q107.CB) [> 3.8857 = 6.4761 < 8.4190] w=0.1928 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)G177.CA) [> 3.7747 = 6.2911 < 8.1785] w=0.1926 to align # Constraint # added constraint: constraint((T0315)H98.CB, (T0315)Q107.CB) [> 3.6080 = 6.0133 < 7.8173] w=0.1920 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)R198.CB) [> 3.2851 = 5.4751 < 7.1177] w=0.1916 to align # Constraint # added constraint: constraint((T0315)Y97.CB, (T0315)Q107.CB) [> 3.9493 = 6.5821 < 8.5568] w=0.1905 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)I173.CB) [> 3.0108 = 5.0179 < 6.5233] w=0.1859 to align # Constraint # added constraint: constraint((T0315)N10.CB, (T0315)R45.CB) [> 3.6052 = 6.0087 < 7.8113] w=0.1859 to align # Constraint # added constraint: constraint((T0315)A227.CB, (T0315)Y238.CB) [> 3.8723 = 6.4538 < 8.3900] w=0.1858 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)V65.CB) [> 4.0817 = 6.8029 < 8.8438] w=0.1858 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)E202.CB) [> 3.9898 = 6.6496 < 8.6445] w=0.1858 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)V179.CB) [> 3.4773 = 5.7955 < 7.5342] w=0.1856 to align # Constraint # added constraint: constraint((T0315)R130.CB, (T0315)S156.CB) [> 3.6488 = 6.0813 < 7.9058] w=0.1851 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)F155.CB) [> 4.0268 = 6.7114 < 8.7248] w=0.1841 to align # Constraint # added constraint: constraint((T0315)A191.CB, (T0315)V201.CB) [> 4.1432 = 6.9053 < 8.9768] w=0.1841 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)V35.CB) [> 3.6336 = 6.0560 < 7.8727] w=0.1840 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)W77.CB) [> 3.4477 = 5.7462 < 7.4701] w=0.1839 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)R130.CB) [> 2.8432 = 4.7386 < 6.1602] w=0.1838 to align # Constraint # added constraint: constraint((T0315)W99.CB, (T0315)R130.CB) [> 4.1195 = 6.8659 < 8.9256] w=0.1789 to align # Constraint # added constraint: constraint((T0315)N39.CB, (T0315)D66.CB) [> 2.9757 = 4.9594 < 6.4473] w=0.1784 to align # Constraint # added constraint: constraint((T0315)T133.CB, (T0315)G157.CA) [> 4.1745 = 6.9574 < 9.0447] w=0.1784 to align # Constraint # added constraint: constraint((T0315)A231.CB, (T0315)E240.CB) [> 4.3826 = 7.3044 < 9.4957] w=0.1784 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)D96.CB) [> 3.5732 = 5.9553 < 7.7419] w=0.1783 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)G89.CA) [> 4.1354 = 6.8924 < 8.9601] w=0.1783 to align # Constraint # added constraint: constraint((T0315)T5.CB, (T0315)G176.CA) [> 4.3821 = 7.3035 < 9.4945] w=0.1781 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)V226.CB) [> 3.9052 = 6.5087 < 8.4613] w=0.1778 to align # Constraint # added constraint: constraint((T0315)H98.CB, (T0315)N129.CB) [> 4.2747 = 7.1244 < 9.2618] w=0.1775 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)I127.CB) [> 4.0553 = 6.7588 < 8.7865] w=0.1774 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)D135.CB) [> 3.7111 = 6.1852 < 8.0408] w=0.1710 to align # Constraint # added constraint: constraint((T0315)V21.CB, (T0315)A221.CB) [> 4.1872 = 6.9787 < 9.0724] w=0.1710 to align # Constraint # added constraint: constraint((T0315)L9.CB, (T0315)Y207.CB) [> 3.2660 = 5.4433 < 7.0763] w=0.1709 to align # Constraint # added constraint: constraint((T0315)L208.CB, (T0315)N218.CB) [> 3.6444 = 6.0740 < 7.8962] w=0.1709 to align # Constraint # added constraint: constraint((T0315)A145.CB, (T0315)F171.CB) [> 4.0930 = 6.8216 < 8.8681] w=0.1700 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)V190.CB) [> 4.4343 = 7.3905 < 9.6076] w=0.1695 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)Y172.CB) [> 4.3266 = 7.2110 < 9.3743] w=0.1693 to align # Constraint # added constraint: constraint((T0315)A162.CB, (T0315)S195.CB) [> 3.5143 = 5.8572 < 7.6143] w=0.1680 to align # Constraint # added constraint: constraint((T0315)T224.CB, (T0315)T245.CB) [> 4.4256 = 7.3760 < 9.5888] w=0.1635 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)I59.CB) [> 3.5933 = 5.9888 < 7.7854] w=0.1635 to align # Constraint # added constraint: constraint((T0315)S156.CB, (T0315)G176.CA) [> 3.9503 = 6.5838 < 8.5590] w=0.1634 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)R222.CB) [> 3.4101 = 5.6836 < 7.3886] w=0.1631 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)M152.CB) [> 4.3846 = 7.3077 < 9.5000] w=0.1631 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)I126.CB) [> 4.3256 = 7.2092 < 9.3720] w=0.1627 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)V106.CB) [> 3.5645 = 5.9409 < 7.7231] w=0.1561 to align # Constraint # added constraint: constraint((T0315)S209.CB, (T0315)R222.CB) [> 3.8218 = 6.3696 < 8.2805] w=0.1561 to align # Constraint # added constraint: constraint((T0315)H74.CB, (T0315)E109.CB) [> 3.8015 = 6.3358 < 8.2365] w=0.1561 to align # Constraint # added constraint: constraint((T0315)S209.CB, (T0315)N218.CB) [> 2.8047 = 4.6744 < 6.0768] w=0.1561 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)P64.CB) [> 3.5264 = 5.8774 < 7.6406] w=0.1560 to align # Constraint # added constraint: constraint((T0315)F70.CB, (T0315)V106.CB) [> 3.8747 = 6.4578 < 8.3952] w=0.1560 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)I127.CB) [> 4.0379 = 6.7298 < 8.7488] w=0.1560 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)D204.CB) [> 4.0053 = 6.6755 < 8.6782] w=0.1560 to align # Constraint # added constraint: constraint((T0315)Y207.CB, (T0315)E219.CB) [> 3.8823 = 6.4705 < 8.4116] w=0.1559 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)L225.CB) [> 4.0843 = 6.8071 < 8.8492] w=0.1555 to align # Constraint # added constraint: constraint((T0315)V21.CB, (T0315)Y207.CB) [> 3.7577 = 6.2628 < 8.1416] w=0.1554 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)Q114.CB) [> 3.8919 = 6.4865 < 8.4324] w=0.1553 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)I139.CB) [> 3.8055 = 6.3425 < 8.2452] w=0.1549 to align # Constraint # added constraint: constraint((T0315)G157.CA, (T0315)N183.CB) [> 3.2149 = 5.3582 < 6.9656] w=0.1547 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)Q229.CB) [> 3.7543 = 6.2572 < 8.1343] w=0.1487 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)D204.CB) [> 3.5310 = 5.8849 < 7.6504] w=0.1487 to align # Constraint # added constraint: constraint((T0315)P187.CB, (T0315)L236.CB) [> 4.5203 = 7.5338 < 9.7939] w=0.1487 to align # Constraint # added constraint: constraint((T0315)N39.CB, (T0315)G61.CA) [> 4.2879 = 7.1465 < 9.2905] w=0.1486 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)A205.CB) [> 4.1514 = 6.9189 < 8.9946] w=0.1486 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)I126.CB) [> 4.3235 = 7.2058 < 9.3675] w=0.1486 to align # Constraint # added constraint: constraint((T0315)Y97.CB, (T0315)N129.CB) [> 4.0244 = 6.7074 < 8.7196] w=0.1480 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)H98.CB) [> 3.6147 = 6.0245 < 7.8318] w=0.1478 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)C136.CB) [> 3.8981 = 6.4969 < 8.4460] w=0.1413 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)S154.CB) [> 3.7896 = 6.3159 < 8.2107] w=0.1413 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)A132.CB) [> 4.3429 = 7.2382 < 9.4096] w=0.1413 to align # Constraint # added constraint: constraint((T0315)Q114.CB, (T0315)I127.CB) [> 3.8894 = 6.4823 < 8.4270] w=0.1411 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)H128.CB) [> 3.8759 = 6.4598 < 8.3978] w=0.1402 to align # Constraint # added constraint: constraint((T0315)P64.CB, (T0315)Y97.CB) [> 4.0820 = 6.8032 < 8.8442] w=0.1390 to align # Constraint # added constraint: constraint((T0315)P206.CB, (T0315)V223.CB) [> 4.3941 = 7.3236 < 9.5206] w=0.1386 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)I88.CB) [> 4.3677 = 7.2796 < 9.4634] w=0.1383 to align # Constraint # added constraint: constraint((T0315)M196.CB, (T0315)L236.CB) [> 4.1603 = 6.9339 < 9.0141] w=0.1338 to align # Constraint # added constraint: constraint((T0315)F38.CB, (T0315)D66.CB) [> 3.5280 = 5.8800 < 7.6440] w=0.1338 to align # Constraint # added constraint: constraint((T0315)S156.CB, (T0315)P187.CB) [> 3.7601 = 6.2669 < 8.1470] w=0.1338 to align # Constraint # added constraint: constraint((T0315)A82.CB, (T0315)A118.CB) [> 3.9916 = 6.6527 < 8.6485] w=0.1338 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)D204.CB) [> 4.3028 = 7.1714 < 9.3228] w=0.1337 to align # Constraint # added constraint: constraint((T0315)R198.CB, (T0315)K251.CB) [> 4.0839 = 6.8064 < 8.8484] w=0.1337 to align # Constraint # added constraint: constraint((T0315)V201.CB, (T0315)V241.CB) [> 4.5104 = 7.5173 < 9.7725] w=0.1337 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)V190.CB) [> 4.1247 = 6.8744 < 8.9368] w=0.1332 to align # Constraint # added constraint: constraint((T0315)A82.CB, (T0315)K122.CB) [> 4.0349 = 6.7248 < 8.7423] w=0.1331 to align # Constraint # added constraint: constraint((T0315)F70.CB, (T0315)Q114.CB) [> 3.6142 = 6.0237 < 7.8308] w=0.1270 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)I230.CB) [> 4.0646 = 6.7744 < 8.8067] w=0.1264 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)L208.CB) [> 3.5132 = 5.8553 < 7.6118] w=0.1264 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)I173.CB) [> 3.8748 = 6.4580 < 8.3954] w=0.1263 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)Q114.CB) [> 3.7238 = 6.2063 < 8.0682] w=0.1261 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)N129.CB) [> 4.4305 = 7.3842 < 9.5995] w=0.1258 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)D204.CB) [> 4.5086 = 7.5144 < 9.7687] w=0.1189 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)L208.CB) [> 3.2722 = 5.4538 < 7.0899] w=0.1189 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)L169.CB) [> 4.4679 = 7.4465 < 9.6804] w=0.1189 to align # Constraint # added constraint: constraint((T0315)I68.CB, (T0315)Q114.CB) [> 4.5127 = 7.5211 < 9.7774] w=0.1189 to align # Constraint # added constraint: constraint((T0315)F181.CB, (T0315)H211.CB) [> 3.5276 = 5.8793 < 7.6431] w=0.1188 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)I78.CB) [> 4.2603 = 7.1004 < 9.2306] w=0.1188 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)H98.CB) [> 3.6816 = 6.1361 < 7.9769] w=0.1188 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)P178.CB) [> 3.8802 = 6.4671 < 8.4072] w=0.1188 to align # Constraint # added constraint: constraint((T0315)D51.CB, (T0315)P85.CB) [> 4.1762 = 6.9604 < 9.0485] w=0.1187 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)L175.CB) [> 4.1738 = 6.9563 < 9.0432] w=0.1186 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)G91.CA) [> 3.6021 = 6.0034 < 7.8045] w=0.1184 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)N183.CB) [> 3.5724 = 5.9539 < 7.7401] w=0.1183 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)L199.CB) [> 3.8113 = 6.3522 < 8.2579] w=0.1183 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)V165.CB) [> 4.1000 = 6.8334 < 8.8834] w=0.1179 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)P210.CB) [> 2.8379 = 4.7299 < 6.1488] w=0.1115 to align # Constraint # added constraint: constraint((T0315)E228.CB, (T0315)V241.CB) [> 4.4334 = 7.3889 < 9.6056] w=0.1115 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)Y97.CB) [> 3.6762 = 6.1270 < 7.9651] w=0.1115 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)G94.CA) [> 4.2391 = 7.0652 < 9.1847] w=0.1114 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)V190.CB) [> 3.7990 = 6.3316 < 8.2311] w=0.1114 to align # Constraint # added constraint: constraint((T0315)G94.CA, (T0315)Q114.CB) [> 4.3806 = 7.3009 < 9.4912] w=0.1113 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)G91.CA) [> 4.1434 = 6.9057 < 8.9774] w=0.1113 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G177.CA) [> 4.0925 = 6.8208 < 8.8670] w=0.1112 to align # Constraint # added constraint: constraint((T0315)L225.CB, (T0315)Q244.CB) [> 3.2383 = 5.3972 < 7.0163] w=0.1092 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)L255.CB) [> 4.0040 = 6.6733 < 8.6753] w=0.1041 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)K182.CB) [> 3.5515 = 5.9191 < 7.6948] w=0.1040 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I126.CB) [> 3.8270 = 6.3784 < 8.2919] w=0.1040 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)Y97.CB) [> 3.8449 = 6.4081 < 8.3306] w=0.1040 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)D204.CB) [> 4.1850 = 6.9750 < 9.0675] w=0.1040 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)S174.CB) [> 4.0354 = 6.7257 < 8.7434] w=0.1040 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)G150.CA) [> 3.9830 = 6.6383 < 8.6298] w=0.1039 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)W99.CB) [> 3.9117 = 6.5195 < 8.4753] w=0.1038 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)G176.CA) [> 3.7930 = 6.3216 < 8.2181] w=0.1038 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I88.CB) [> 3.6765 = 6.1275 < 7.9658] w=0.1035 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)Q114.CB) [> 3.5275 = 5.8791 < 7.6429] w=0.1035 to align # Constraint # added constraint: constraint((T0315)M93.CB, (T0315)R130.CB) [> 3.9767 = 6.6278 < 8.6161] w=0.1027 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)L199.CB) [> 3.7870 = 6.3117 < 8.2052] w=0.1024 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)H211.CB) [> 4.3675 = 7.2792 < 9.4630] w=0.0966 to align # Constraint # added constraint: constraint((T0315)D17.CB, (T0315)L208.CB) [> 4.5967 = 7.6612 < 9.9596] w=0.0966 to align # Constraint # added constraint: constraint((T0315)P210.CB, (T0315)L225.CB) [> 3.0087 = 5.0144 < 6.5188] w=0.0966 to align # Constraint # added constraint: constraint((T0315)S156.CB, (T0315)G177.CA) [> 3.7288 = 6.2146 < 8.0790] w=0.0966 to align # Constraint # added constraint: constraint((T0315)N10.CB, (T0315)V36.CB) [> 3.9627 = 6.6046 < 8.5859] w=0.0966 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)A205.CB) [> 3.8235 = 6.3725 < 8.2842] w=0.0965 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)I139.CB) [> 3.9969 = 6.6615 < 8.6599] w=0.0896 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)P210.CB) [> 2.6767 = 4.4611 < 5.7995] w=0.0892 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)L208.CB) [> 3.9152 = 6.5253 < 8.4829] w=0.0892 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)H128.CB) [> 4.5488 = 7.5813 < 9.8557] w=0.0892 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)I230.CB) [> 4.4771 = 7.4618 < 9.7004] w=0.0892 to align # Constraint # added constraint: constraint((T0315)D11.CB, (T0315)F38.CB) [> 3.8977 = 6.4962 < 8.4450] w=0.0892 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)K122.CB) [> 4.2744 = 7.1239 < 9.2611] w=0.0892 to align # Constraint # added constraint: constraint((T0315)Y14.CB, (T0315)L208.CB) [> 3.2087 = 5.3478 < 6.9521] w=0.0892 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)A205.CB) [> 4.0592 = 6.7654 < 8.7950] w=0.0892 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)G150.CA) [> 4.2553 = 7.0922 < 9.2198] w=0.0890 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)Y53.CB) [> 4.1757 = 6.9596 < 9.0475] w=0.0883 to align # Constraint # added constraint: constraint((T0315)A132.CB, (T0315)S158.CB) [> 4.2569 = 7.0948 < 9.2233] w=0.0818 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)I60.CB) [> 4.1842 = 6.9736 < 9.0657] w=0.0818 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)W62.CB) [> 4.4118 = 7.3531 < 9.5590] w=0.0818 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)W62.CB) [> 3.7672 = 6.2787 < 8.1623] w=0.0818 to align # Constraint # added constraint: constraint((T0315)V65.CB, (T0315)H74.CB) [> 3.8401 = 6.4002 < 8.3202] w=0.0818 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)V35.CB) [> 4.6570 = 7.7616 < 10.0901] w=0.0818 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I125.CB) [> 4.0432 = 6.7387 < 8.7604] w=0.0817 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)H128.CB) [> 3.8214 = 6.3691 < 8.2798] w=0.0815 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)G91.CA) [> 3.4206 = 5.7010 < 7.4113] w=0.0814 to align # Constraint # added constraint: constraint((T0315)D96.CB, (T0315)I127.CB) [> 4.1715 = 6.9525 < 9.0382] w=0.0805 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)P178.CB) [> 3.5736 = 5.9559 < 7.7427] w=0.0744 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)G91.CA) [> 4.3462 = 7.2436 < 9.4167] w=0.0743 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)T246.CB) [> 4.3802 = 7.3004 < 9.4905] w=0.0743 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)H128.CB) [> 4.1861 = 6.9768 < 9.0698] w=0.0743 to align # Constraint # added constraint: constraint((T0315)S209.CB, (T0315)A221.CB) [> 3.6016 = 6.0027 < 7.8035] w=0.0743 to align # Constraint # added constraint: constraint((T0315)V21.CB, (T0315)L208.CB) [> 3.4845 = 5.8076 < 7.5498] w=0.0742 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)G176.CA) [> 4.0108 = 6.6847 < 8.6901] w=0.0736 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)I173.CB) [> 4.4181 = 7.3635 < 9.5725] w=0.0729 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)M152.CB) [> 4.5006 = 7.5010 < 9.7513] w=0.0674 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)C242.CB) [> 3.5359 = 5.8932 < 7.6611] w=0.0669 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)L208.CB) [> 4.2403 = 7.0671 < 9.1872] w=0.0669 to align # Constraint # added constraint: constraint((T0315)I68.CB, (T0315)I78.CB) [> 3.2910 = 5.4850 < 7.1304] w=0.0669 to align # Constraint # added constraint: constraint((T0315)F181.CB, (T0315)D204.CB) [> 4.3919 = 7.3198 < 9.5158] w=0.0669 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)S174.CB) [> 4.3437 = 7.2394 < 9.4113] w=0.0669 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)S174.CB) [> 4.3691 = 7.2819 < 9.4664] w=0.0668 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)G176.CA) [> 4.4299 = 7.3831 < 9.5980] w=0.0667 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)G91.CA) [> 3.6788 = 6.1313 < 7.9707] w=0.0667 to align # Constraint # added constraint: constraint((T0315)A67.CB, (T0315)H128.CB) [> 4.1463 = 6.9105 < 8.9836] w=0.0662 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G91.CA) [> 4.3551 = 7.2585 < 9.4361] w=0.0649 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)D204.CB) [> 4.6121 = 7.6868 < 9.9928] w=0.0595 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)D204.CB) [> 4.5073 = 7.5122 < 9.7659] w=0.0595 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I60.CB) [> 3.8356 = 6.3926 < 8.3104] w=0.0595 to align # Constraint # added constraint: constraint((T0315)S41.CB, (T0315)G58.CA) [> 4.4741 = 7.4568 < 9.6938] w=0.0595 to align # Constraint # added constraint: constraint((T0315)F181.CB, (T0315)E219.CB) [> 4.3988 = 7.3313 < 9.5307] w=0.0595 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)S154.CB) [> 3.4698 = 5.7829 < 7.5178] w=0.0595 to align # Constraint # added constraint: constraint((T0315)Y14.CB, (T0315)N39.CB) [> 4.1618 = 6.9363 < 9.0172] w=0.0595 to align # Constraint # added constraint: constraint((T0315)Y14.CB, (T0315)T42.CB) [> 3.8890 = 6.4816 < 8.4262] w=0.0595 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G61.CA) [> 4.1941 = 6.9901 < 9.0872] w=0.0594 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)V190.CB) [> 3.8900 = 6.4833 < 8.4282] w=0.0592 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)S174.CB) [> 4.1032 = 6.8387 < 8.8903] w=0.0591 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)I59.CB) [> 3.7633 = 6.2722 < 8.1538] w=0.0591 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)L175.CB) [> 3.7458 = 6.2430 < 8.1159] w=0.0580 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)V190.CB) [> 3.4631 = 5.7719 < 7.5035] w=0.0578 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)P210.CB) [> 4.3536 = 7.2559 < 9.4327] w=0.0520 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)G177.CA) [> 3.4168 = 5.6947 < 7.4030] w=0.0520 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)G61.CA) [> 4.6621 = 7.7702 < 10.1012] w=0.0520 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)I161.CB) [> 4.1652 = 6.9419 < 9.0245] w=0.0520 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)G176.CA) [> 4.1672 = 6.9453 < 9.0288] w=0.0520 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I78.CB) [> 4.1047 = 6.8412 < 8.8936] w=0.0520 to align # Constraint # added constraint: constraint((T0315)L208.CB, (T0315)R217.CB) [> 3.9426 = 6.5710 < 8.5423] w=0.0520 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)I161.CB) [> 3.7047 = 6.1745 < 8.0268] w=0.0520 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)V190.CB) [> 3.3123 = 5.5205 < 7.1767] w=0.0520 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)V190.CB) [> 3.4587 = 5.7645 < 7.4939] w=0.0520 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)S154.CB) [> 3.4933 = 5.8222 < 7.5688] w=0.0520 to align # Constraint # added constraint: constraint((T0315)A132.CB, (T0315)I164.CB) [> 3.5487 = 5.9146 < 7.6890] w=0.0520 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)I173.CB) [> 3.5968 = 5.9946 < 7.7930] w=0.0520 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)P210.CB) [> 4.1854 = 6.9757 < 9.0684] w=0.0520 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I59.CB) [> 4.2272 = 7.0454 < 9.1590] w=0.0520 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)D96.CB) [> 4.1654 = 6.9423 < 9.0250] w=0.0518 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)T203.CB) [> 4.0945 = 6.8241 < 8.8713] w=0.0517 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)H128.CB) [> 4.4842 = 7.4737 < 9.7158] w=0.0516 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)M152.CB) [> 4.2505 = 7.0842 < 9.2095] w=0.0515 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)V190.CB) [> 4.4159 = 7.3599 < 9.5679] w=0.0513 to align # Constraint # added constraint: constraint((T0315)V190.CB, (T0315)V201.CB) [> 3.9313 = 6.5521 < 8.5178] w=0.0512 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)D204.CB) [> 3.6167 = 6.0279 < 7.8362] w=0.0510 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)L175.CB) [> 3.7378 = 6.2296 < 8.0985] w=0.0506 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)P206.CB) [> 3.9621 = 6.6035 < 8.5845] w=0.0499 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)S174.CB) [> 4.4176 = 7.3627 < 9.5716] w=0.0446 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)P178.CB) [> 4.4472 = 7.4120 < 9.6355] w=0.0446 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)M152.CB) [> 4.2108 = 7.0179 < 9.1233] w=0.0446 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)S174.CB) [> 3.3461 = 5.5769 < 7.2499] w=0.0446 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)A205.CB) [> 3.7861 = 6.3101 < 8.2031] w=0.0446 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)V201.CB) [> 3.3618 = 5.6030 < 7.2839] w=0.0446 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)T203.CB) [> 3.5092 = 5.8487 < 7.6033] w=0.0446 to align # Constraint # added constraint: constraint((T0315)A231.CB, (T0315)T245.CB) [> 3.7533 = 6.2554 < 8.1321] w=0.0446 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)V201.CB) [> 4.3353 = 7.2255 < 9.3932] w=0.0446 to align # Constraint # added constraint: constraint((T0315)A205.CB, (T0315)R214.CB) [> 4.1243 = 6.8738 < 8.9360] w=0.0446 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)G177.CA) [> 4.3310 = 7.2183 < 9.3838] w=0.0446 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)D204.CB) [> 4.2328 = 7.0547 < 9.1711] w=0.0445 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)T203.CB) [> 4.6470 = 7.7450 < 10.0684] w=0.0445 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)G61.CA) [> 3.8977 = 6.4962 < 8.4451] w=0.0445 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)L175.CB) [> 4.1400 = 6.9000 < 8.9700] w=0.0445 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G177.CA) [> 4.7141 = 7.8568 < 10.2138] w=0.0444 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G176.CA) [> 4.1816 = 6.9694 < 9.0602] w=0.0444 to align # Constraint # added constraint: constraint((T0315)T180.CB, (T0315)T203.CB) [> 4.1941 = 6.9901 < 9.0872] w=0.0444 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)I59.CB) [> 3.9794 = 6.6323 < 8.6220] w=0.0443 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)F34.CB) [> 3.4309 = 5.7181 < 7.4336] w=0.0438 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)S174.CB) [> 4.0678 = 6.7797 < 8.8137] w=0.0436 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)P206.CB) [> 3.7494 = 6.2490 < 8.1237] w=0.0431 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)I88.CB) [> 4.4830 = 7.4716 < 9.7131] w=0.0379 to align # Constraint # added constraint: constraint((T0315)K122.CB, (T0315)G149.CA) [> 4.5208 = 7.5346 < 9.7950] w=0.0372 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)P178.CB) [> 3.2163 = 5.3605 < 6.9687] w=0.0372 to align # Constraint # added constraint: constraint((T0315)Y53.CB, (T0315)W62.CB) [> 4.6231 = 7.7051 < 10.0166] w=0.0372 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)I151.CB) [> 4.6684 = 7.7807 < 10.1149] w=0.0372 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)V190.CB) [> 4.2479 = 7.0799 < 9.2039] w=0.0372 to align # Constraint # added constraint: constraint((T0315)T42.CB, (T0315)W62.CB) [> 4.5889 = 7.6481 < 9.9425] w=0.0372 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)W62.CB) [> 4.3230 = 7.2051 < 9.3666] w=0.0372 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)H153.CB) [> 4.7067 = 7.8445 < 10.1978] w=0.0372 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)Y57.CB) [> 3.8802 = 6.4669 < 8.4070] w=0.0372 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)T203.CB) [> 4.0100 = 6.6833 < 8.6883] w=0.0372 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)G177.CA) [> 3.9246 = 6.5409 < 8.5032] w=0.0372 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)I127.CB) [> 3.6695 = 6.1159 < 7.9507] w=0.0372 to align # Constraint # added constraint: constraint((T0315)F181.CB, (T0315)R214.CB) [> 4.2501 = 7.0834 < 9.2085] w=0.0371 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)H128.CB) [> 3.9108 = 6.5180 < 8.4734] w=0.0371 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)V201.CB) [> 4.0391 = 6.7318 < 8.7513] w=0.0371 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)I151.CB) [> 4.3128 = 7.1880 < 9.3445] w=0.0371 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)I126.CB) [> 3.8404 = 6.4007 < 8.3209] w=0.0371 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)I125.CB) [> 3.9555 = 6.5926 < 8.5703] w=0.0371 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)I125.CB) [> 3.5663 = 5.9438 < 7.7270] w=0.0371 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)I127.CB) [> 4.3264 = 7.2108 < 9.3740] w=0.0371 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)V201.CB) [> 3.4318 = 5.7197 < 7.4356] w=0.0371 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)Y57.CB) [> 3.8859 = 6.4766 < 8.4195] w=0.0371 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)I60.CB) [> 4.0058 = 6.6763 < 8.6791] w=0.0371 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G58.CA) [> 3.2326 = 5.3876 < 7.0039] w=0.0371 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)A205.CB) [> 3.7031 = 6.1718 < 8.0233] w=0.0370 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)I151.CB) [> 4.0843 = 6.8072 < 8.8493] w=0.0369 to align # Constraint # added constraint: constraint((T0315)E20.CB, (T0315)A205.CB) [> 4.6817 = 7.8028 < 10.1437] w=0.0369 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)I78.CB) [> 3.4173 = 5.6956 < 7.4043] w=0.0369 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)V201.CB) [> 4.5805 = 7.6341 < 9.9244] w=0.0368 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)I59.CB) [> 4.2327 = 7.0545 < 9.1708] w=0.0365 to align # Constraint # added constraint: constraint((T0315)G37.CA, (T0315)D66.CB) [> 3.6701 = 6.1168 < 7.9519] w=0.0297 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)I151.CB) [> 3.5821 = 5.9701 < 7.7611] w=0.0297 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G176.CA) [> 3.4476 = 5.7460 < 7.4698] w=0.0297 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I127.CB) [> 4.2091 = 7.0152 < 9.1198] w=0.0297 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)Y207.CB) [> 3.7942 = 6.3236 < 8.2207] w=0.0297 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)S154.CB) [> 4.7185 = 7.8641 < 10.2234] w=0.0297 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)V201.CB) [> 3.1056 = 5.1761 < 6.7289] w=0.0297 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)T203.CB) [> 3.8590 = 6.4317 < 8.3612] w=0.0297 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)D204.CB) [> 3.5019 = 5.8365 < 7.5874] w=0.0297 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G91.CA) [> 4.3047 = 7.1746 < 9.3270] w=0.0297 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)I126.CB) [> 4.4036 = 7.3394 < 9.5412] w=0.0297 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)I125.CB) [> 3.2945 = 5.4908 < 7.1381] w=0.0297 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I126.CB) [> 4.0120 = 6.6867 < 8.6927] w=0.0297 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)I126.CB) [> 4.3581 = 7.2636 < 9.4426] w=0.0297 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)N129.CB) [> 3.7661 = 6.2768 < 8.1599] w=0.0297 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)Y57.CB) [> 2.3710 = 3.9516 < 5.1371] w=0.0297 to align # Constraint # added constraint: constraint((T0315)V179.CB, (T0315)L208.CB) [> 3.5560 = 5.9266 < 7.7046] w=0.0297 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)V201.CB) [> 4.4759 = 7.4598 < 9.6977] w=0.0297 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)P206.CB) [> 2.7567 = 4.5944 < 5.9728] w=0.0296 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)S154.CB) [> 4.3901 = 7.3168 < 9.5118] w=0.0295 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)W62.CB) [> 3.6547 = 6.0911 < 7.9185] w=0.0294 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)S154.CB) [> 3.8397 = 6.3995 < 8.3194] w=0.0293 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)A205.CB) [> 3.1432 = 5.2387 < 6.8103] w=0.0283 to align # Constraint # added constraint: constraint((T0315)D135.CB, (T0315)K168.CB) [> 4.1050 = 6.8417 < 8.8942] w=0.0283 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)G58.CA) [> 4.4521 = 7.4201 < 9.6462] w=0.0223 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)N129.CB) [> 4.4928 = 7.4880 < 9.7345] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)N129.CB) [> 4.3120 = 7.1866 < 9.3426] w=0.0223 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)D204.CB) [> 3.6109 = 6.0181 < 7.8235] w=0.0223 to align # Constraint # added constraint: constraint((T0315)M1.CB, (T0315)C242.CB) [> 3.2627 = 5.4379 < 7.0693] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)F155.CB) [> 3.8475 = 6.4125 < 8.3363] w=0.0223 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)M152.CB) [> 4.4749 = 7.4582 < 9.6956] w=0.0223 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)L175.CB) [> 4.3216 = 7.2026 < 9.3634] w=0.0223 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G177.CA) [> 3.6498 = 6.0830 < 7.9079] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G89.CA) [> 4.7151 = 7.8584 < 10.2160] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)I125.CB) [> 4.5885 = 7.6476 < 9.9418] w=0.0223 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)G176.CA) [> 4.7247 = 7.8744 < 10.2368] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)P178.CB) [> 4.2490 = 7.0816 < 9.2061] w=0.0223 to align # Constraint # added constraint: constraint((T0315)Q114.CB, (T0315)I126.CB) [> 4.1893 = 6.9822 < 9.0768] w=0.0223 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)P178.CB) [> 3.9296 = 6.5493 < 8.5141] w=0.0223 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)G177.CA) [> 4.0213 = 6.7022 < 8.7129] w=0.0223 to align # Constraint # added constraint: constraint((T0315)P178.CB, (T0315)R214.CB) [> 4.5900 = 7.6501 < 9.9451] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)I173.CB) [> 3.1931 = 5.3218 < 6.9183] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)L175.CB) [> 3.3290 = 5.5484 < 7.2129] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)G176.CA) [> 3.9072 = 6.5121 < 8.4657] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G58.CA) [> 4.2300 = 7.0500 < 9.1650] w=0.0223 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)A205.CB) [> 4.1540 = 6.9233 < 9.0002] w=0.0223 to align # Constraint # added constraint: constraint((T0315)L95.CB, (T0315)Q114.CB) [> 3.8956 = 6.4927 < 8.4404] w=0.0223 to align # Constraint # added constraint: constraint((T0315)S158.CB, (T0315)A184.CB) [> 3.9603 = 6.6005 < 8.5806] w=0.0223 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I127.CB) [> 3.9329 = 6.5549 < 8.5213] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)V190.CB) [> 3.8593 = 6.4322 < 8.3618] w=0.0223 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)I88.CB) [> 3.9685 = 6.6142 < 8.5985] w=0.0223 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)H128.CB) [> 3.7686 = 6.2809 < 8.1652] w=0.0223 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)A205.CB) [> 3.0500 = 5.0833 < 6.6083] w=0.0223 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)G149.CA) [> 3.9654 = 6.6090 < 8.5918] w=0.0223 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G89.CA) [> 4.0706 = 6.7844 < 8.8197] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I127.CB) [> 4.1183 = 6.8638 < 8.9230] w=0.0223 to align # Constraint # added constraint: constraint((T0315)F181.CB, (T0315)Y213.CB) [> 4.7154 = 7.8590 < 10.2168] w=0.0223 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)I127.CB) [> 3.8077 = 6.3462 < 8.2500] w=0.0223 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)H128.CB) [> 3.7990 = 6.3317 < 8.2312] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)N129.CB) [> 4.3719 = 7.2865 < 9.4725] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)N129.CB) [> 3.3674 = 5.6123 < 7.2960] w=0.0223 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)H128.CB) [> 3.6616 = 6.1026 < 7.9334] w=0.0223 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)P210.CB) [> 3.7197 = 6.1996 < 8.0594] w=0.0223 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)V201.CB) [> 4.1192 = 6.8653 < 8.9249] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)G177.CA) [> 4.5228 = 7.5380 < 9.7993] w=0.0223 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)I127.CB) [> 4.5707 = 7.6179 < 9.9032] w=0.0221 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)H128.CB) [> 3.2663 = 5.4438 < 7.0769] w=0.0221 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)R32.CB) [> 4.1226 = 6.8710 < 8.9323] w=0.0217 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)I125.CB) [> 4.3753 = 7.2922 < 9.4799] w=0.0217 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)M152.CB) [> 3.7363 = 6.2271 < 8.0953] w=0.0153 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)Y57.CB) [> 4.7597 = 7.9328 < 10.3126] w=0.0149 to align # Constraint # added constraint: constraint((T0315)G157.CA, (T0315)K168.CB) [> 4.0785 = 6.7975 < 8.8368] w=0.0149 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)P206.CB) [> 3.1872 = 5.3120 < 6.9056] w=0.0149 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)A205.CB) [> 4.6872 = 7.8119 < 10.1555] w=0.0149 to align # Constraint # added constraint: constraint((T0315)F155.CB, (T0315)V201.CB) [> 3.2482 = 5.4137 < 7.0378] w=0.0149 to align # Constraint # added constraint: constraint((T0315)H6.CB, (T0315)G150.CA) [> 4.7849 = 7.9748 < 10.3673] w=0.0149 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)G150.CA) [> 4.4871 = 7.4785 < 9.7220] w=0.0149 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)L175.CB) [> 4.0752 = 6.7921 < 8.8297] w=0.0149 to align # Constraint # added constraint: constraint((T0315)M152.CB, (T0315)P178.CB) [> 3.8197 = 6.3661 < 8.2759] w=0.0149 to align # Constraint # added constraint: constraint((T0315)I125.CB, (T0315)H153.CB) [> 3.6885 = 6.1474 < 7.9917] w=0.0149 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)M152.CB) [> 4.0777 = 6.7961 < 8.8350] w=0.0149 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)A205.CB) [> 4.6091 = 7.6819 < 9.9865] w=0.0149 to align # Constraint # added constraint: constraint((T0315)S154.CB, (T0315)A205.CB) [> 4.2753 = 7.1255 < 9.2632] w=0.0149 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)I60.CB) [> 3.7924 = 6.3206 < 8.2168] w=0.0149 to align # Constraint # added constraint: constraint((T0315)E44.CB, (T0315)Y53.CB) [> 4.3696 = 7.2826 < 9.4675] w=0.0149 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)H153.CB) [> 4.4735 = 7.4559 < 9.6926] w=0.0149 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I125.CB) [> 3.9212 = 6.5353 < 8.4959] w=0.0149 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)H128.CB) [> 4.4697 = 7.4495 < 9.6844] w=0.0149 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)G91.CA) [> 4.4587 = 7.4311 < 9.6604] w=0.0149 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)H153.CB) [> 4.0712 = 6.7854 < 8.8210] w=0.0149 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)G150.CA) [> 3.9400 = 6.5666 < 8.5366] w=0.0149 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)G91.CA) [> 4.1064 = 6.8440 < 8.8972] w=0.0149 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G91.CA) [> 3.6224 = 6.0373 < 7.8485] w=0.0149 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)I173.CB) [> 2.7710 = 4.6184 < 6.0039] w=0.0149 to align # Constraint # added constraint: constraint((T0315)N129.CB, (T0315)S174.CB) [> 4.2220 = 7.0366 < 9.1476] w=0.0149 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)G149.CA) [> 3.5160 = 5.8600 < 7.6180] w=0.0149 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)I127.CB) [> 4.5728 = 7.6213 < 9.9077] w=0.0148 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)S154.CB) [> 4.7797 = 7.9661 < 10.3560] w=0.0148 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)N129.CB) [> 3.6095 = 6.0158 < 7.8205] w=0.0148 to align # Constraint # added constraint: constraint((T0315)G58.CA, (T0315)Q114.CB) [> 4.1761 = 6.9602 < 9.0483] w=0.0148 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)H128.CB) [> 3.2468 = 5.4113 < 7.0347] w=0.0148 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)N129.CB) [> 4.3766 = 7.2942 < 9.4825] w=0.0148 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)H153.CB) [> 3.6771 = 6.1285 < 7.9670] w=0.0148 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)Q114.CB) [> 4.3409 = 7.2349 < 9.4053] w=0.0148 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)G58.CA) [> 4.6072 = 7.6786 < 9.9822] w=0.0148 to align # Constraint # added constraint: constraint((T0315)I78.CB, (T0315)K122.CB) [> 4.3065 = 7.1775 < 9.3308] w=0.0148 to align # Constraint # added constraint: constraint((T0315)Q229.CB, (T0315)Y238.CB) [> 4.7786 = 7.9644 < 10.3537] w=0.0148 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)V201.CB) [> 3.4744 = 5.7907 < 7.5279] w=0.0145 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)I151.CB) [> 4.3976 = 7.3294 < 9.5282] w=0.0142 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)P206.CB) [> 4.2751 = 7.1252 < 9.2628] w=0.0141 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)V36.CB) [> 3.0465 = 5.0776 < 6.6008] w=0.0074 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)I126.CB) [> 4.1071 = 6.8452 < 8.8987] w=0.0074 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)H153.CB) [> 3.4140 = 5.6900 < 7.3970] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V7.CB, (T0315)R32.CB) [> 4.7746 = 7.9577 < 10.3450] w=0.0074 to align # Constraint # added constraint: constraint((T0315)H153.CB, (T0315)P206.CB) [> 3.7975 = 6.3292 < 8.2280] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)P206.CB) [> 4.4969 = 7.4949 < 9.7434] w=0.0074 to align # Constraint # added constraint: constraint((T0315)P206.CB, (T0315)V241.CB) [> 4.0355 = 6.7258 < 8.7435] w=0.0074 to align # Constraint # added constraint: constraint((T0315)Y213.CB, (T0315)Y238.CB) [> 4.7544 = 7.9240 < 10.3011] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)G149.CA) [> 3.5029 = 5.8381 < 7.5895] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)G149.CA) [> 3.6531 = 6.0885 < 7.9150] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G91.CA, (T0315)G150.CA) [> 2.7715 = 4.6191 < 6.0048] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)V190.CB) [> 4.6687 = 7.7812 < 10.1156] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)V201.CB) [> 4.2815 = 7.1359 < 9.2766] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)F155.CB) [> 3.1363 = 5.2271 < 6.7952] w=0.0074 to align # Constraint # added constraint: constraint((T0315)K122.CB, (T0315)L233.CB) [> 4.7765 = 7.9608 < 10.3491] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)A205.CB) [> 4.0553 = 6.7587 < 8.7864] w=0.0074 to align # Constraint # added constraint: constraint((T0315)S174.CB, (T0315)P206.CB) [> 4.0786 = 6.7976 < 8.8369] w=0.0074 to align # Constraint # added constraint: constraint((T0315)L175.CB, (T0315)P206.CB) [> 2.6234 = 4.3723 < 5.6840] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G176.CA, (T0315)P206.CB) [> 4.5846 = 7.6411 < 9.9334] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)F155.CB) [> 4.0466 = 6.7443 < 8.7676] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I151.CB, (T0315)P178.CB) [> 4.7296 = 7.8827 < 10.2475] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G150.CA, (T0315)G176.CA) [> 4.0321 = 6.7202 < 8.7362] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G149.CA, (T0315)A205.CB) [> 4.3579 = 7.2631 < 9.4421] w=0.0074 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)D204.CB) [> 4.5745 = 7.6241 < 9.9114] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)K122.CB) [> 4.7620 = 7.9367 < 10.3177] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V36.CB, (T0315)M152.CB) [> 4.7193 = 7.8655 < 10.2251] w=0.0074 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)G61.CA) [> 2.9548 = 4.9247 < 6.4021] w=0.0074 to align # Constraint # added constraint: constraint((T0315)D4.CB, (T0315)S154.CB) [> 3.8372 = 6.3953 < 8.3139] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)S154.CB) [> 4.5603 = 7.6005 < 9.8806] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)S154.CB) [> 4.2582 = 7.0970 < 9.2261] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)M152.CB) [> 4.2745 = 7.1241 < 9.2613] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V190.CB, (T0315)D204.CB) [> 4.5339 = 7.5564 < 9.8233] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G177.CA, (T0315)P206.CB) [> 4.7677 = 7.9461 < 10.3299] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I59.CB, (T0315)Q114.CB) [> 3.5315 = 5.8858 < 7.6516] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I60.CB, (T0315)I151.CB) [> 4.7609 = 7.9348 < 10.3153] w=0.0074 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)G89.CA) [> 4.5553 = 7.5922 < 9.8699] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G61.CA, (T0315)H153.CB) [> 4.6423 = 7.7371 < 10.0582] w=0.0074 to align # Constraint # added constraint: constraint((T0315)R32.CB, (T0315)I125.CB) [> 4.4937 = 7.4895 < 9.7364] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)I88.CB) [> 4.4364 = 7.3940 < 9.6122] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)G89.CA) [> 3.2649 = 5.4415 < 7.0739] w=0.0074 to align # Constraint # added constraint: constraint((T0315)V35.CB, (T0315)V201.CB) [> 4.4805 = 7.4675 < 9.7078] w=0.0074 to align # Constraint # added constraint: constraint((T0315)Y57.CB, (T0315)V201.CB) [> 4.5739 = 7.6232 < 9.9101] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)G149.CA) [> 4.0206 = 6.7010 < 8.7112] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)G150.CA) [> 3.4041 = 5.6734 < 7.3755] w=0.0074 to align # Constraint # added constraint: constraint((T0315)G89.CA, (T0315)S174.CB) [> 4.2475 = 7.0792 < 9.2029] w=0.0074 to align # Constraint # added constraint: constraint((T0315)H128.CB, (T0315)V201.CB) [> 3.4773 = 5.7955 < 7.5342] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I127.CB, (T0315)V201.CB) [> 4.3116 = 7.1860 < 9.3419] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I126.CB, (T0315)V201.CB) [> 4.4517 = 7.4196 < 9.6455] w=0.0074 to align # Constraint # added constraint: constraint((T0315)I173.CB, (T0315)V201.CB) [> 4.6818 = 7.8031 < 10.1440] w=0.0074 to align # Constraint # added constraint: constraint((T0315)L2.CB, (T0315)M152.CB) [> 4.6979 = 7.8298 < 10.1788] w=0.0074 to align # Constraint # added constraint: constraint((T0315)W62.CB, (T0315)I125.CB) [> 4.5871 = 7.6452 < 9.9387] w=0.0072 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)S174.CB) [> 4.4131 = 7.3551 < 9.5616] w=0.0072 to align # Constraint # added constraint: constraint((T0315)F34.CB, (T0315)H153.CB) [> 4.7416 = 7.9026 < 10.2734] w=0.0068 to align # Constraint # added constraint: constraint((T0315)I88.CB, (T0315)H153.CB) [> 4.0609 = 6.7681 < 8.7985] w=0.0068 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0315/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0315/decoys/ # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_POPULUS_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 183 # 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 183 # 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 220 # 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 176 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS4 # ReadConformPDB reading from PDB file servers/3Dpro_TS5.pdb.gz looking for model 1 # Found a chain break before 201 # copying to AlignedFragments data structure # naming current conformation 3Dpro_TS5 # ReadConformPDB reading from PDB file servers/ABIpro_TS1.pdb.gz looking for model 1 # Found a chain break before 253 # 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 201 # 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 182 # 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 201 # 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 216 # 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 235 # copying to AlignedFragments data structure # naming current conformation BayesHH_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS1.pdb.gz looking for model 1 # Found a chain break before 212 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS1 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS2.pdb.gz looking for model 1 # Found a chain break before 102 # 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 235 # 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 235 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/Bilab-ENABLE_TS5.pdb.gz looking for model 1 # Found a chain break before 131 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS5 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # Found a chain break before 253 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS1 # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS2 # ReadConformPDB reading from PDB file servers/CIRCLE_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # Found a chain break before 223 # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CPHmodels_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation CPHmodels_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS2 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS3 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation CaspIta-FOX_TS4 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 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 T0315 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 T0315 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 T0315 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 205 # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FAMSD_TS2 # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # Found a chain break before 103 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS3 # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 # Found a chain break before 91 # 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 211 # copying to AlignedFragments data structure # naming current conformation FAMS_TS1 # ReadConformPDB reading from PDB file servers/FAMS_TS2.pdb.gz looking for model 1 # Found a chain break before 253 # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # Found a chain break before 223 # copying to AlignedFragments data structure # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # 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 246 # copying to AlignedFragments data structure # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation FOLDpro_TS1 # ReadConformPDB reading from PDB file servers/FOLDpro_TS2.pdb.gz looking for model 1 # Found a chain break before 213 # 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 229 # 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 206 # 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 176 # 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE1_AL2 # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation FORTE1_AL3 # ReadConformPDB reading from PDB file servers/FORTE1_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FORTE2_AL2 # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation FORTE2_AL3 # ReadConformPDB reading from PDB file servers/FORTE2_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation FORTE2_AL5 # ReadConformPDB reading from PDB file servers/FPSOLVER-SERVER_TS1.pdb.gz looking for model 1 # Found a chain break before 246 # 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 165 # 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 219 # 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 240 # 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 237 # 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 # Found a chain break before 212 # copying to AlignedFragments data structure # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # Found a chain break before 91 # 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 213 # 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 197 # 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 217 # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # naming current conformation FUGUE_AL5 # ReadConformPDB reading from PDB file servers/FUNCTION_TS1.pdb.gz looking for model 1 # Found a chain break before 255 # 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 246 # 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 256 # 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 222 # 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 205 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # Found a chain break before 235 # copying to AlignedFragments data structure # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # Found a chain break before 132 # copying to AlignedFragments data structure # naming current conformation HHpred1_TS1 # ReadConformPDB reading from PDB file servers/HHpred2_TS1.pdb.gz looking for model 1 # Found a chain break before 183 # 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 212 # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Huber-Torda-Server_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 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 T0315 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 T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation LOOPP_TS2 # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation LOOPP_TS3 # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # Found a chain break before 62 # copying to AlignedFragments data structure # naming current conformation LOOPP_TS4 # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 198 # 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 235 # 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 131 # 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 183 # 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 252 # 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 256 # 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 244 # 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 252 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS2.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS3.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS4.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS5.pdb.gz looking for model 1 # naming current conformation PROTINFO-AB_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO_TS1.pdb.gz looking for model 1 # naming current conformation PROTINFO_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # Found a chain break before 91 # 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 # Found a chain break before 255 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # Found a chain break before 208 # 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 # Found a chain break before 208 # 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 T0315 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 # Found a chain break before 254 # 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 # Found a chain break before 208 # 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 170 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS3 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS4.pdb.gz looking for model 1 # Found a chain break before 167 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # 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 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation RAPTOR-ACE_TS1 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS2.pdb.gz looking for model 1 # Found a chain break before 254 # 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 235 # 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 132 # 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 183 # 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 90 # 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 209 # 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 84 # 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 90 # 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 84 # 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 183 # 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 206 # 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 133 # 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 253 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS4 # ReadConformPDB reading from PDB file servers/RAPTOR_TS5.pdb.gz looking for model 1 # Found a chain break before 253 # copying to AlignedFragments data structure # naming current conformation RAPTOR_TS5 # ReadConformPDB reading from PDB file servers/ROBETTA_TS1.pdb.gz looking for model 1 # Found a chain break before 167 # 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 167 # 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 91 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS3 # ReadConformPDB reading from PDB file servers/ROBETTA_TS4.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS4 # ReadConformPDB reading from PDB file servers/ROBETTA_TS5.pdb.gz looking for model 1 # Found a chain break before 170 # 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 183 # 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 212 # 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 235 # 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 185 # 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 176 # 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T02_AL2 # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T02_AL4 # ReadConformPDB reading from PDB file servers/SAM-T02_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL1 # ReadConformPDB reading from PDB file servers/SAM-T99_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T99_AL2 # ReadConformPDB reading from PDB file servers/SAM-T99_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation SAM-T99_AL3 # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 251 # 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 T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 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 183 # 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 235 # 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 131 # 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 183 # copying to AlignedFragments data structure # naming current conformation SP3_TS4 # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # Found a chain break before 91 # copying to AlignedFragments data structure # naming current conformation SP3_TS5 # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 235 # 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 253 # copying to AlignedFragments data structure # naming current conformation SP4_TS2 # ReadConformPDB reading from PDB file servers/SP4_TS3.pdb.gz looking for model 1 # Found a chain break before 212 # copying to AlignedFragments data structure # naming current conformation SP4_TS3 # ReadConformPDB reading from PDB file servers/SP4_TS4.pdb.gz looking for model 1 # Found a chain break before 149 # 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 94 # 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 183 # 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 235 # 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 131 # 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 183 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS4 # ReadConformPDB reading from PDB file servers/SPARKS2_TS5.pdb.gz looking for model 1 # Found a chain break before 207 # copying to AlignedFragments data structure # naming current conformation SPARKS2_TS5 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_bnmx_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_bnmx_TS4 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_expm_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation UNI-EID_sfst_AL1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # 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 T0315 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 168 # 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 90 # 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 145 # 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 147 # 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 253 # 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 255 # copying to AlignedFragments data structure # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # Found a chain break before 254 # copying to AlignedFragments data structure # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation forecast-s_AL1 # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation forecast-s_AL2 # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 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 T0315 can't currently be optimized by undertaker # naming current conformation forecast-s_AL5 # ReadConformPDB reading from PDB file servers/gtg_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation gtg_AL1 # ReadConformPDB reading from PDB file servers/gtg_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation gtg_AL2 # ReadConformPDB reading from PDB file servers/gtg_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation gtg_AL3 # ReadConformPDB reading from PDB file servers/gtg_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation gtg_AL4 # ReadConformPDB reading from PDB file servers/gtg_AL5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation gtg_AL5 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 253 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS2.pdb.gz looking for model 1 # Found a chain break before 253 # 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 254 # 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 215 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # Found a chain break before 128 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS1.pdb.gz looking for model 1 # Found a chain break before 254 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS2.pdb.gz looking for model 1 WARNING: atoms too close: (T0315)R32.O and (T0315)M33.N only 0.000 apart, marking (T0315)M33.N as missing # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS3.pdb.gz looking for model 1 # Found a chain break before 254 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS4.pdb.gz looking for model 1 # Found a chain break before 256 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.4_TS5.pdb.gz looking for model 1 # Found a chain break before 254 # copying to AlignedFragments data structure # naming current conformation karypis.srv.4_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS1 # ReadConformPDB reading from PDB file servers/karypis.srv_TS2.pdb.gz looking for model 1 # Found a chain break before 206 # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # Found a chain break before 250 # copying to AlignedFragments data structure # naming current conformation karypis.srv_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # Found a chain break before 197 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # Found a chain break before 210 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS2 # ReadConformPDB reading from PDB file servers/keasar-server_TS3.pdb.gz looking for model 1 # Found a chain break before 211 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS3 # ReadConformPDB reading from PDB file servers/keasar-server_TS4.pdb.gz looking for model 1 # Found a chain break before 210 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS4 # ReadConformPDB reading from PDB file servers/keasar-server_TS5.pdb.gz looking for model 1 # Found a chain break before 210 # copying to AlignedFragments data structure # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation mGen-3D_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS2 # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS3 # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 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 T0315 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS5 # ReadConformPDB reading from PDB file servers/panther2_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0315 can't currently be optimized by undertaker # naming current conformation panther2_TS1 # ReadConformPDB reading from PDB file servers/shub_TS1.pdb.gz looking for model 1 # Found a chain break before 254 # copying to AlignedFragments data structure # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score -0.2313 model score -0.2321 model score -0.2776 model score -0.1962 model score -0.2779 model score -0.2558 model score -0.2868 model score -0.2554 model score -0.2608 model score -0.2288 model score -0.2081 model score -0.2082 model score -0.2463 model score -0.2857 model score -0.3422 model score -0.3423 model score 1.0891 model score 0.1469 model score 0.9210 model score 1.4015 model score 1.3156 model score 1.3580 model score 1.2341 model score 1.2523 model score -0.3486 model score -0.3044 model score -0.2737 model score -0.2978 model score -0.2969 model score -0.3016 model score -0.2741 model score -0.2637 model score -0.2459 model score -0.2872 model score -0.2363 model score -0.2754 model score -0.3089 model score -0.2251 model score -0.2507 model score -0.2919 model score 0.4321 model score 1.2645 model score 1.2648 model score 1.2698 model score 1.2639 model score 1.2662 model score -0.2939 model score -0.2473 model score -0.2991 model score -0.2837 model score -0.2916 model score -0.3165 model score -0.2741 model score -0.2872 model score -0.2473 model score -0.2863 model score -0.3417 model score -0.3452 model score 0.1330 model score -0.1390 model score -0.2874 model score 1.2776 model score 1.2648 model score 1.2806 model score 1.2659 model score 1.2891 model score 1.2776 model score 1.2648 model score 1.2659 model score 1.2815 model score 1.2744 model score 2.6197 model score 2.5150 model score 2.4034 model score 2.3302 model score 2.5725 model score -0.2942 model score 0.4348 model score 0.8763 model score 1.6630 model score 0.8605 model score 1.2648 model score 1.2665 model score 1.2741 model score 1.2832 model score 1.2806 model score -0.2938 model score -0.2863 model score -0.2899 model score -0.2379 model score -0.2908 model score -0.3130 model score -0.2932 model score -0.3093 model score -0.3062 model score -0.2984 model score -0.2906 model score -0.3356 model score -0.3452 model score -0.2766 model score -0.2426 model score 0.1404 model score -0.2383 model score 1.1173 model score -0.1335 model score -0.1994 model score -0.1966 model score -0.3000 model score 0.3607 model score -0.3061 model score -0.2795 model score -0.3123 model score -0.3169 model score -0.1019 model score -0.3212 model score 0.5843 model score 0.6917 model score -0.1335 model score -0.3010 model score -0.2993 model score -0.3018 model score -0.3008 model score -0.2960 model score -0.2993 model score -0.2983 model score -0.3050 model score -0.3010 model score -0.2957 model score -0.2701 model score -0.2768 model score -0.2125 model score -0.2679 model score -0.2701 model score -0.2963 model score -0.1383 model score -0.1363 model score -0.1046 model score -0.2910 model score -0.2603 model score -0.3024 model score -0.2534 model score -0.1655 model score -0.3126 model score -0.2723 model score -0.2860 model score -0.3080 model score -0.2977 model score -0.2911 model score -0.2915 model score -0.3087 model score -0.1878 model score 0.3064 model score -0.3027 model score -0.3120 model score -0.3068 model score -0.1963 model score 0.2764 model score -0.3065 model score -0.3041 model score -0.3126 model score -0.3028 model score -0.2956 model score -0.3113 model score -0.3024 model score -0.3105 model score -0.3123 model score -0.2909 model score -0.3043 model score 0.7065 model score 1.2648 model score 1.2656 model score 1.2647 model score 1.2655 model score 1.2730 model score 1.2648 model score 1.2656 model score 1.2658 model score 1.2655 model score 1.2647 model score -0.2609 model score -0.2375 model score -0.1662 model score -0.0590 model score -0.2347 model score -0.2915 model score -0.3007 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USE_META, weight: 0.9889 cost: -0.3121 min: -0.3486 max: 2.6197 USE_META, weight: 0.9885 cost: -0.3106 min: -0.3486 max: 2.6197 USE_META, weight: 0.9838 cost: -0.2952 min: -0.3486 max: 2.6197 USE_META, weight: 0.5108 cost: 1.2648 min: -0.3486 max: 2.6197 USE_META, weight: 0.5074 cost: 1.2761 min: -0.3486 max: 2.6197 USE_META, weight: 0.5105 cost: 1.2659 min: -0.3486 max: 2.6197 USE_META, weight: 0.5051 cost: 1.2837 min: -0.3486 max: 2.6197 USE_META, weight: 0.5065 cost: 1.2789 min: -0.3486 max: 2.6197 USE_META, weight: 0.5108 cost: 1.2648 min: -0.3486 max: 2.6197 USE_META, weight: 0.5106 cost: 1.2655 min: -0.3486 max: 2.6197 USE_META, weight: 0.5106 cost: 1.2656 min: -0.3486 max: 2.6197 USE_META, weight: 0.5108 cost: 1.2647 min: -0.3486 max: 2.6197 USE_META, weight: 0.5086 cost: 1.2723 min: -0.3486 max: 2.6197 USE_META, weight: 0.9879 cost: -0.3087 min: -0.3486 max: 2.6197 USE_META, weight: 0.9877 cost: -0.3081 min: -0.3486 max: 2.6197 USE_META, weight: 0.9872 cost: -0.3063 min: 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-0.2653 min: -0.3486 max: 2.6197 USE_META, weight: 0.9752 cost: -0.2669 min: -0.3486 max: 2.6197 USE_META, weight: 0.9676 cost: -0.2417 min: -0.3486 max: 2.6197 USE_META, weight: 0.9839 cost: -0.2956 min: -0.3486 max: 2.6197 USE_META, weight: 0.9676 cost: -0.2418 min: -0.3486 max: 2.6197 USE_META, weight: 0.9787 cost: -0.2785 min: -0.3486 max: 2.6197 USE_META, weight: 0.8269 cost: 0.2224 min: -0.3486 max: 2.6197 USE_META, weight: 0.8236 cost: 0.2331 min: -0.3486 max: 2.6197 USE_META, weight: 0.9662 cost: -0.2371 min: -0.3486 max: 2.6197 USE_META, weight: 0.9861 cost: -0.3026 min: -0.3486 max: 2.6197 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9999 eval: 0.0002 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9995 eval: 0.0011 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9995 eval: 0.0011 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9995 eval: 0.0011 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0005 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0005 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0005 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9922 eval: 0.0188 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9922 eval: 0.0188 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9922 eval: 0.0188 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0043 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0043 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0043 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9984 eval: 0.0038 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9984 eval: 0.0038 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9984 eval: 0.0038 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9955 eval: 0.0107 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9955 eval: 0.0107 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9955 eval: 0.0107 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9980 eval: 0.0048 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9980 eval: 0.0048 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9980 eval: 0.0048 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9886 eval: 0.0273 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9886 eval: 0.0273 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9886 eval: 0.0273 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9138 eval: 0.2062 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9138 eval: 0.2062 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9138 eval: 0.2062 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9993 eval: 0.0017 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9635 eval: 0.0873 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9635 eval: 0.0873 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9635 eval: 0.0873 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9999 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9999 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9999 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9940 eval: 0.0144 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9940 eval: 0.0144 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9940 eval: 0.0144 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9113 eval: 0.2122 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9113 eval: 0.2122 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9113 eval: 0.2122 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0004 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0004 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9998 eval: 0.0004 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0027 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0027 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0027 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0044 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0044 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0044 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9898 eval: 0.0244 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9898 eval: 0.0244 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9898 eval: 0.0244 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0026 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0026 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0026 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0001 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9719 eval: 0.0672 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9719 eval: 0.0672 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9719 eval: 0.0672 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9966 eval: 0.0082 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9966 eval: 0.0082 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9966 eval: 0.0082 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9976 eval: 0.0058 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9976 eval: 0.0058 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9976 eval: 0.0058 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.1000 eval: 2.1531 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.1000 eval: 2.1531 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.1000 eval: 2.1531 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0025 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0025 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9989 eval: 0.0025 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0042 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0042 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9982 eval: 0.0042 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9990 eval: 0.0023 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9990 eval: 0.0023 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9990 eval: 0.0023 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9994 eval: 0.0013 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9994 eval: 0.0013 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 0.9994 eval: 0.0013 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 2.1531 Number of contacts in models: 255 Number of contacts in alignments: 156 NUMB_ALIGNS: 156 Adding 9302 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: -399.4719, CN propb: -399.4719 weights: 0.3739 constraints: 962 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 962 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 962 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 8340 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 8340 # 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 9302 # command: