# 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/T0342/ # command:# Making conformation for sequence T0342 numbered 1 through 188 Created new target T0342 from T0342.a2m # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0342/ # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0342//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0342/manyalignments-good-all.under or /projects/compbio/experiments/protein-predict/casp7/T0342//projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0342/manyalignments-good-all.under.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0342/manyalignments-good-all.under # reading script from file /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0342/manyalignments-good-all.under # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bzlA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2bzlA expands to /projects/compbio/data/pdb/2bzl.pdb.gz 2bzlA:Skipped atom 1123, because occupancy 0.3 <= existing 0.700 in 2bzlA Skipped atom 1127, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1129, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1131, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1133, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1135, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1137, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1139, because occupancy 0.300 <= existing 0.700 in 2bzlA Skipped atom 1170, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1174, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1176, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1434, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1438, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1440, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1471, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1475, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1477, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1479, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1481, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1483, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1750, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1754, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1756, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1808, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1812, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1814, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1816, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 1818, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 2115, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 2119, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 2121, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 2123, because occupancy 0.500 <= existing 0.500 in 2bzlA Skipped atom 2125, because occupancy 0.500 <= existing 0.500 in 2bzlA # T0342 read from 2bzlA/merged-good-all-a2m # 2bzlA read from 2bzlA/merged-good-all-a2m # adding 2bzlA to template set # found chain 2bzlA in template set T0342 2 :ANSGCKDVTGPDEESFLY 2bzlA 946 :EENRVELIPTKENNTGYI # choosing archetypes in rotamer library T0342 38 :AAFFCVARLQDFKLDF 2bzlA 964 :NASHIKVVVGGAEWHY T0342 68 :IATIFQS 2bzlA 980 :IATQGPL T0342 100 :V 2bzlA 1048 :S T0342 103 :GMYVVIEVKVATQ 2bzlA 1049 :VCYATTGLKVKHL T0342 116 :EGKEITCRSYLMTN 2bzlA 1063 :SGQERTVWHLQYTD T0342 130 :YESAPPS 2bzlA 1078 :PDHGCPE T0342 137 :PQYKKIICMGAKE 2bzlA 1090 :LSYLEEIQSVRRH T0342 163 :IE 2bzlA 1103 :TN T0342 165 :PNDYTG 2bzlA 1107 :LEGTKN Number of specific fragments extracted= 10 number of extra gaps= 0 total=10 Number of alignments=1 # 2bzlA read from 2bzlA/merged-good-all-a2m # found chain 2bzlA in template set T0342 3 :NSGCKDVTGPDE 2bzlA 946 :EENRVELIPTKE T0342 33 :LRNPSAAFFCVARLQDFKLDF 2bzlA 959 :NTGYINASHIKVVVGGAEWHY T0342 68 :IATIFQSPG 2bzlA 980 :IATQGPLPH T0342 99 :GVK 2bzlA 1047 :DSV T0342 104 :MYVVIEVKVAT 2bzlA 1050 :CYATTGLKVKH T0342 115 :QEGKEITCRSYLMTN 2bzlA 1062 :LSGQERTVWHLQYTD T0342 130 :YESAPP 2bzlA 1078 :PDHGCP T0342 136 :SPQYKKIIC 2bzlA 1086 :VQGFLSYLE T0342 155 :EYQEKLKAIEPN 2bzlA 1095 :EIQSVRRHTNSM T0342 167 :DYTGKV 2bzlA 1109 :GTKNRH Number of specific fragments extracted= 10 number of extra gaps= 0 total=20 Number of alignments=2 # 2bzlA read from 2bzlA/merged-good-all-a2m # found chain 2bzlA in template set T0342 42 :CVARLQDFKLDFG 2bzlA 1031 :SSATYGKFKVTTK T0342 60 :TSQTWHGGIAT 2bzlA 1044 :FRTDSVCYATT T0342 81 :G 2bzlA 1055 :G T0342 108 :IEVKVATQEGKEITCRSYLMTNYESAPPSP 2bzlA 1056 :LKVKHLLSGQERTVWHLQYTDWPDHGCPED T0342 138 :QYKKIICMGAKEN 2bzlA 1091 :SYLEEIQSVRRHT T0342 164 :EPNDYTG 2bzlA 1106 :MLEGTKN Number of specific fragments extracted= 6 number of extra gaps= 0 total=26 Number of alignments=3 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1hw7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1hw7A expands to /projects/compbio/data/pdb/1hw7.pdb.gz 1hw7A:Skipped atom 702, because occupancy 0.480 <= existing 0.520 in 1hw7A Skipped atom 704, because occupancy 0.480 <= existing 0.520 in 1hw7A Skipped atom 706, because occupancy 0.480 <= existing 0.520 in 1hw7A Skipped atom 708, because occupancy 0.480 <= existing 0.520 in 1hw7A Skipped atom 710, because occupancy 0.480 <= existing 0.520 in 1hw7A Skipped atom 712, because occupancy 0.480 <= existing 0.520 in 1hw7A # T0342 read from 1hw7A/merged-good-all-a2m # 1hw7A read from 1hw7A/merged-good-all-a2m # adding 1hw7A to template set # found chain 1hw7A in template set Warning: unaligning (T0342)K85 because of BadResidue code BAD_PEPTIDE at template residue (1hw7A)E99 T0342 38 :AAFFCVARLQD 1hw7A 63 :FDGDITVQLQG T0342 57 :Q 1hw7A 74 :D T0342 62 :QTWHGGIATI 1hw7A 75 :GPMNLAVING T0342 74 :SPGDEVWGVVW 1hw7A 85 :NNNQQMRGVAR T0342 86 :MNKSN 1hw7A 100 :IPENA T0342 91 :LNSL 1hw7A 106 :LKTL T0342 98 :EG 1hw7A 110 :VG T0342 103 :GMY 1hw7A 112 :NGY T0342 108 :IEVKVATQEG 1hw7A 115 :VVITITPSEG T0342 118 :KEI 1hw7A 166 :KPA T0342 122 :CRSYLMTNYESAPPSPQ 1hw7A 169 :AGGMLLQVMPAQNAQQD T0342 153 :PLEYQEKL 1hw7A 186 :DFDHLATL T0342 161 :KAIEPNDYTGKVSEEIEDIIKKGE 1hw7A 195 :ETIKTEELLTLPANEVLWRLYHEE T0342 187 :TL 1hw7A 221 :TV Number of specific fragments extracted= 14 number of extra gaps= 1 total=40 Number of alignments=4 # 1hw7A read from 1hw7A/merged-good-all-a2m # found chain 1hw7A in template set T0342 31 :IHLRNPSAAFFCVARLQD 1hw7A 56 :LLTATLKFDGDITVQLQG T0342 61 :SQTWHGGIATI 1hw7A 74 :DGPMNLAVING T0342 74 :SPGDE 1hw7A 85 :NNNQQ T0342 79 :VWGVVWKMN 1hw7A 113 :GYVVITITP T0342 88 :KSNLNSLDEQEGVK 1hw7A 140 :ACLEDYFMRSEQLP T0342 105 :YVVI 1hw7A 154 :TRLF T0342 110 :VKVATQEGKEI 1hw7A 158 :IRTGDVDGKPA T0342 122 :CRSYLMTNYESAPPSPQ 1hw7A 169 :AGGMLLQVMPAQNAQQD T0342 153 :PLEYQEKL 1hw7A 186 :DFDHLATL T0342 161 :KAIEPNDYTGKVSEEIEDIIKKGETQTL 1hw7A 195 :ETIKTEELLTLPANEVLWRLYHEEEVTV Number of specific fragments extracted= 10 number of extra gaps= 0 total=50 Number of alignments=5 # 1hw7A read from 1hw7A/merged-good-all-a2m # found chain 1hw7A in template set T0342 29 :ERIHLRNPSAAFFCVARLQD 1hw7A 54 :TSLLTATLKFDGDITVQLQG T0342 49 :FKLDFGNSQ 1hw7A 80 :AVINGNNNQ T0342 65 :HGGIATIFQSPGDEVWGVV 1hw7A 113 :GYVVITITPSEGERYQGVV T0342 86 :MN 1hw7A 133 :LE T0342 88 :KSNLNSLDEQEGVKS 1hw7A 140 :ACLEDYFMRSEQLPT T0342 106 :VV 1hw7A 155 :RL T0342 109 :EVKVATQEGKEITCRSYLMTNYESAPPSPQYKKI 1hw7A 157 :FIRTGDVDGKPAAGGMLLQVMPAQNAQQDDFDHL T0342 157 :QEKLKAIEPNDYTGKVSEEIEDIIKKGETQTL 1hw7A 191 :ATLTETIKTEELLTLPANEVLWRLYHEEEVTV Number of specific fragments extracted= 8 number of extra gaps= 0 total=58 Number of alignments=6 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2g0qA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2g0qA expands to /projects/compbio/data/pdb/2g0q.pdb.gz 2g0qA:# T0342 read from 2g0qA/merged-good-all-a2m # 2g0qA read from 2g0qA/merged-good-all-a2m # adding 2g0qA to template set # found chain 2g0qA in template set Warning: unaligning (T0342)V9 because first residue in template chain is (2g0qA)C10 T0342 10 :TGPDEESFLYFAYGSNLLTERIHLRNPSAAFFCVARLQDFKLDFG 2g0qA 11 :SSDSLQLHNVFVYGSFQDPDVINVMLDRTPEIVSATLPGFQRFRL T0342 61 :SQ 2g0qA 56 :KG T0342 66 :GGIATIFQSPGDEVWG 2g0qA 58 :RLYPCIVPSEKGEVHG T0342 82 :VVWKMNKSNLNSLDEQEG 2g0qA 75 :VLMGVTSDELENLDAVEG T0342 103 :GMYVVIEVKVATQE 2g0qA 93 :NEYERVTVGIVRED T0342 117 :GKEITCRSYLMTNYESAPPS 2g0qA 108 :SEKMAVKTYMWINKADPDMF T0342 155 :EYQEKLKAI 2g0qA 131 :NFEEWKRLH T0342 169 :TGKVSEEIEDIIKKGETQ 2g0qA 140 :KKKFIETFKKIMECKKKP Number of specific fragments extracted= 8 number of extra gaps= 0 total=66 Number of alignments=7 # 2g0qA read from 2g0qA/merged-good-all-a2m # found chain 2g0qA in template set Warning: unaligning (T0342)V9 because first residue in template chain is (2g0qA)C10 T0342 10 :TGPDEESFLYFAYGSNLLTERIHLRNPSAAFFCVARLQDFKL 2g0qA 11 :SSDSLQLHNVFVYGSFQDPDVINVMLDRTPEIVSATLPGFQR T0342 61 :SQTWHGGIATIFQSPGDEVWG 2g0qA 53 :FRLKGRLYPCIVPSEKGEVHG T0342 82 :VVWKMNKSNLNSLDEQE 2g0qA 75 :VLMGVTSDELENLDAVE T0342 102 :SGMYVVIEVKVATQE 2g0qA 92 :GNEYERVTVGIVRED T0342 117 :GKEITCRSYLMTN 2g0qA 108 :SEKMAVKTYMWIN T0342 130 :YESAPPS 2g0qA 123 :DPDMFGE T0342 155 :EYQEKLK 2g0qA 131 :NFEEWKR T0342 178 :DIIKKG 2g0qA 138 :LHKKKF Number of specific fragments extracted= 8 number of extra gaps= 0 total=74 Number of alignments=8 # 2g0qA read from 2g0qA/merged-good-all-a2m # found chain 2g0qA in template set Warning: unaligning (T0342)V9 because first residue in template chain is (2g0qA)C10 Warning: unaligning (T0342)Q186 because last residue in template chain is (2g0qA)Q158 T0342 10 :TGPDEESFLYFAYGSNLLTERIHLRNPSAAFFCVARLQDFKL 2g0qA 11 :SSDSLQLHNVFVYGSFQDPDVINVMLDRTPEIVSATLPGFQR T0342 53 :FGNSQGK 2g0qA 53 :FRLKGRL T0342 68 :IATIFQSPGDEVWG 2g0qA 60 :YPCIVPSEKGEVHG T0342 82 :VVWKMNKSNLNSLDEQEG 2g0qA 75 :VLMGVTSDELENLDAVEG T0342 103 :GMYVVIEVKV 2g0qA 93 :NEYERVTVGI T0342 113 :ATQEGKEITCRSYLM 2g0qA 104 :REDNSEKMAVKTYMW T0342 128 :TNYESAPPS 2g0qA 121 :KADPDMFGE T0342 155 :EYQEKLKAIEP 2g0qA 131 :NFEEWKRLHKK T0342 170 :GKVSEEIEDIIKKGET 2g0qA 142 :KFIETFKKIMECKKKP Number of specific fragments extracted= 9 number of extra gaps= 0 total=83 Number of alignments=9 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1eejA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1eejA expands to /projects/compbio/data/pdb/1eej.pdb.gz 1eejA:# T0342 read from 1eejA/merged-good-all-a2m # 1eejA read from 1eejA/merged-good-all-a2m # adding 1eejA to template set # found chain 1eejA in template set T0342 28 :TERIHLRNPSAAFFCVARLQDFKLDF 1eejA 6 :QQTLAKMGIKSSDIQPAPVAGMKTVL T0342 64 :WHGGIATI 1eejA 32 :TNSGVLYI T0342 73 :QS 1eejA 40 :TD T0342 75 :PGD 1eejA 84 :PQE T0342 120 :ITCRSYLMTN 1eejA 116 :ITVRYLAFPR T0342 130 :YESA 1eejA 127 :GLDS T0342 138 :QYKKIICMGAKENGLPLEYQEKLKAIEPNDYTGK 1eejA 131 :DAEKEMKAIWCAKDKNKAFDDVMAGKSVAPASCD T0342 172 :VSEEIEDIIK 1eejA 166 :DIADHYALGV Number of specific fragments extracted= 8 number of extra gaps= 0 total=91 Number of alignments=10 # 1eejA read from 1eejA/merged-good-all-a2m # found chain 1eejA in template set T0342 28 :TERIHLRNPSAAFFCVARLQDFKLDFG 1eejA 6 :QQTLAKMGIKSSDIQPAPVAGMKTVLT T0342 65 :HGGIATI 1eejA 33 :NSGVLYI T0342 74 :SPGDE 1eejA 40 :TDDGK T0342 79 :VWGVVWKM 1eejA 116 :ITVRYLAF T0342 88 :KSNLNSLDEQE 1eejA 130 :SDAEKEMKAIW T0342 99 :GVKSGM 1eejA 178 :GVSGTP T0342 111 :KVATQEGKEIT 1eejA 184 :AVVLSNGTLVP T0342 132 :SAPPSPQYKKIICMGAKE 1eejA 195 :GYQPPKEMKEFLDEHQKM Number of specific fragments extracted= 8 number of extra gaps= 0 total=99 Number of alignments=11 # 1eejA read from 1eejA/merged-good-all-a2m # found chain 1eejA in template set T0342 28 :TERIHLRNPSAAFFCVARLQDFKLDF 1eejA 6 :QQTLAKMGIKSSDIQPAPVAGMKTVL T0342 64 :WHGGIATIF 1eejA 32 :TNSGVLYIT T0342 74 :SPGDEV 1eejA 41 :DDGKHI T0342 80 :WGVVWKMN 1eejA 48 :QGPMYDVS T0342 90 :NLNSLDEQEGVKSGMY 1eejA 63 :TNKMLLKQLNALEKEM T0342 110 :VKVATQEGKEI 1eejA 79 :IVYKAPQEKHV T0342 155 :EYQEKLKAIEPN 1eejA 131 :DAEKEMKAIWCA T0342 170 :GKVSEEIEDIIKKGE 1eejA 143 :KDKNKAFDDVMAGKS Number of specific fragments extracted= 8 number of extra gaps= 0 total=107 Number of alignments=12 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1mdbA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1mdbA expands to /projects/compbio/data/pdb/1mdb.pdb.gz 1mdbA:# T0342 read from 1mdbA/merged-good-all-a2m # 1mdbA read from 1mdbA/merged-good-all-a2m # adding 1mdbA to template set # found chain 1mdbA in template set Warning: unaligning (T0342)G183 because last residue in template chain is (1mdbA)G536 T0342 6 :CKDVTGPDEESFLYFAYG 1mdbA 368 :DHDRDVKPGETGHLLTRG T0342 24 :SNLLTERIHL 1mdbA 392 :YYKAEEHNAA T0342 34 :RNPSAAFFCVARL 1mdbA 403 :FTEDGFYRTGDIV T0342 50 :KL 1mdbA 416 :RL T0342 57 :QGKTSQTWHGG 1mdbA 418 :TRDGYIVVEGR T0342 72 :FQSPGDEVW 1mdbA 433 :INRGGEKVA T0342 95 :DEQE 1mdbA 443 :EEVE T0342 99 :GVK 1mdbA 451 :AHP T0342 103 :GMYVVIEVKVATQEGK 1mdbA 454 :AVHDAAMVSMPDQFLG T0342 120 :ITCRSYLMT 1mdbA 470 :ERSCVFIIP T0342 130 :YESAPPSPQYKKIICM 1mdbA 479 :RDEAPKAAELKAFLRE T0342 161 :KAIEPNDYTG 1mdbA 495 :RGLAAYKIPD T0342 171 :KVSEEIEDIIKK 1mdbA 524 :ALREAISEKLLA Number of specific fragments extracted= 13 number of extra gaps= 0 total=120 Number of alignments=13 # 1mdbA read from 1mdbA/merged-good-all-a2m # found chain 1mdbA in template set Warning: unaligning (T0342)G183 because last residue in template chain is (1mdbA)G536 T0342 7 :KDVTGPDEESFLYFAYGSN 1mdbA 369 :HDRDVKPGETGHLLTRGPY T0342 26 :LLTERIH 1mdbA 394 :KAEEHNA T0342 33 :LRNPSAAFFCVARL 1mdbA 402 :SFTEDGFYRTGDIV T0342 50 :KL 1mdbA 416 :RL T0342 61 :SQTWHGGIATI 1mdbA 418 :TRDGYIVVEGR T0342 72 :FQSPGDEV 1mdbA 433 :INRGGEKV T0342 94 :LDEQE 1mdbA 442 :AEEVE T0342 99 :GV 1mdbA 451 :AH T0342 102 :SGMYVVIEVKVATQEGKE 1mdbA 453 :PAVHDAAMVSMPDQFLGE T0342 121 :TCRSYLMT 1mdbA 471 :RSCVFIIP T0342 130 :YESAPPSPQYKKIICM 1mdbA 479 :RDEAPKAAELKAFLRE T0342 161 :KAIEPNDYTG 1mdbA 495 :RGLAAYKIPD T0342 171 :KVSEEIEDIIKK 1mdbA 524 :ALREAISEKLLA Number of specific fragments extracted= 13 number of extra gaps= 0 total=133 Number of alignments=14 # 1mdbA read from 1mdbA/merged-good-all-a2m # found chain 1mdbA in template set T0342 6 :CKDVTGPDEESFLYFAYGSNLL 1mdbA 368 :DHDRDVKPGETGHLLTRGPYTI T0342 28 :TERIHLRN 1mdbA 396 :EEHNAASF T0342 36 :PSAAFFCVARL 1mdbA 405 :EDGFYRTGDIV T0342 52 :DF 1mdbA 416 :RL T0342 56 :S 1mdbA 418 :T T0342 65 :HGGIATIF 1mdbA 419 :RDGYIVVE T0342 73 :QSPGDEV 1mdbA 434 :NRGGEKV T0342 91 :LNSLDEQEGV 1mdbA 443 :EEVENHLLAH T0342 102 :SGMYVVIEVKVATQEGKEITCRSYLM 1mdbA 453 :PAVHDAAMVSMPDQFLGERSCVFIIP T0342 131 :ESAPPSPQ 1mdbA 479 :RDEAPKAA T0342 142 :IICMGAKENGLPL 1mdbA 487 :ELKAFLRERGLAA Number of specific fragments extracted= 11 number of extra gaps= 0 total=144 Number of alignments=15 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1jroB/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1jroB expands to /projects/compbio/data/pdb/1jro.pdb.gz 1jroB:# T0342 read from 1jroB/merged-good-all-a2m # 1jroB read from 1jroB/merged-good-all-a2m # adding 1jroB to template set # found chain 1jroB in template set T0342 30 :RIHLRNPSAAFFCVARLQDFKLDF 1jroB 588 :AAYMARISLSATGFYATPKLSWDR T0342 59 :KTSQTWHGGIATI 1jroB 612 :LRGQGRPFLYFAY T0342 81 :GVVW 1jroB 625 :GAAI T0342 108 :IEVKVATQEG 1jroB 629 :TEVVIDRLTG T0342 118 :KEITCRSYLMT 1jroB 641 :RILRTDILHDA T0342 132 :SAPPSPQ 1jroB 652 :GASLNPA T0342 139 :YKKIICMGA 1jroB 664 :IEGAYVQGA Number of specific fragments extracted= 7 number of extra gaps= 0 total=151 Number of alignments=16 # 1jroB read from 1jroB/merged-good-all-a2m # found chain 1jroB in template set T0342 30 :RIHLRNPSAAFFCVARLQDF 1jroB 588 :AAYMARISLSATGFYATPKL T0342 52 :DFGNSQGKTSQTWHGGIATI 1jroB 608 :SWDRLRGQGRPFLYFAYGAA T0342 78 :EVWGVV 1jroB 628 :ITEVVI T0342 101 :KSGMYVVI 1jroB 636 :LTGENRIL T0342 121 :TCRSYLMT 1jroB 644 :RTDILHDA T0342 132 :SAPPSPQ 1jroB 652 :GASLNPA T0342 139 :YKKIICMGA 1jroB 664 :IEGAYVQGA Number of specific fragments extracted= 7 number of extra gaps= 0 total=158 Number of alignments=17 # 1jroB read from 1jroB/merged-good-all-a2m # found chain 1jroB in template set T0342 142 :IICMGAKENGLP 1jroB 584 :EIVAAAYMARIS Number of specific fragments extracted= 1 number of extra gaps= 0 total=159 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wduA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wduA expands to /projects/compbio/data/pdb/1wdu.pdb.gz 1wduA:# T0342 read from 1wduA/merged-good-all-a2m # 1wduA read from 1wduA/merged-good-all-a2m # adding 1wduA to template set # found chain 1wduA in template set Warning: unaligning (T0342)E15 because first residue in template chain is (1wduA)P21 Warning: unaligning (T0342)F53 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wduA)K66 Warning: unaligning (T0342)K59 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wduA)K66 T0342 16 :SFLYFAYGSNLLTERIHLRN 1wduA 22 :PYRVLQANLQRKKLATAELA T0342 37 :SA 1wduA 48 :KA T0342 42 :CVARLQDF 1wduA 50 :AIALIQEP T0342 52 :D 1wduA 58 :Y T0342 60 :TSQTW 1wduA 67 :GFRGV T0342 67 :GIATIFQSPGDEVWGVVWKMN 1wduA 72 :RVFQSTAQGDGTVKAAIAVFD T0342 100 :VK 1wduA 100 :YP T0342 103 :GM 1wduA 102 :QL T0342 107 :VIEVKVATQ 1wduA 108 :IVVVGIRTR T0342 117 :GKEITCRSYLMT 1wduA 117 :AWEITLVSYYFE T0342 132 :SAPPSPQYKKIICMGAKENG 1wduA 129 :PDKPIESYLEQIKRVERKMG T0342 162 :AIEPNDYTGKVSEEIEDIIKKG 1wduA 163 :TWWGSKEDDARGDQLMGTLGEL Number of specific fragments extracted= 12 number of extra gaps= 0 total=171 Number of alignments=18 # 1wduA read from 1wduA/merged-good-all-a2m # found chain 1wduA in template set Warning: unaligning (T0342)E15 because first residue in template chain is (1wduA)P21 Warning: unaligning (T0342)F53 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wduA)K66 Warning: unaligning (T0342)K59 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE at template residue (1wduA)K66 T0342 16 :SFLYFAYGSNLLTERIH 1wduA 22 :PYRVLQANLQRKKLATA T0342 40 :FFCVARLQDFK 1wduA 48 :KAAIALIQEPY T0342 60 :TSQT 1wduA 67 :GFRG T0342 66 :GGIATIFQSPGDEVWGVVWKM 1wduA 71 :VRVFQSTAQGDGTVKAAIAVF T0342 88 :KSN 1wduA 101 :PQL T0342 102 :SGM 1wduA 105 :TNN T0342 107 :VIEVKVATQE 1wduA 108 :IVVVGIRTRA T0342 118 :KEITCRSYLMT 1wduA 118 :WEITLVSYYFE T0342 132 :SAPPSPQYKKIICMGAKENGL 1wduA 129 :PDKPIESYLEQIKRVERKMGP T0342 167 :DYTGKVSEEIEDIIKKGE 1wduA 168 :KEDDARGDQLMGTLGELG Number of specific fragments extracted= 10 number of extra gaps= 0 total=181 Number of alignments=19 # 1wduA read from 1wduA/merged-good-all-a2m # found chain 1wduA in template set Warning: unaligning (T0342)E15 because first residue in template chain is (1wduA)P21 Warning: unaligning (T0342)G58 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (1wduA)K66 T0342 16 :SFLYFAYGSNLLTER 1wduA 22 :PYRVLQANLQRKKLA T0342 31 :IHLRN 1wduA 40 :LAIEA T0342 51 :LDFGNSQ 1wduA 52 :ALIQEPY T0342 65 :HGGIATIFQSPGDEVWGVVWKMN 1wduA 70 :GVRVFQSTAQGDGTVKAAIAVFD T0342 100 :VKSG 1wduA 100 :YPQL T0342 104 :MYVVIEVKVATQE 1wduA 105 :TNNIVVVGIRTRA T0342 118 :KEITCRSYL 1wduA 118 :WEITLVSYY T0342 130 :YESAPPSPQYKKIICMGAKEN 1wduA 127 :FEPDKPIESYLEQIKRVERKM Number of specific fragments extracted= 8 number of extra gaps= 0 total=189 Number of alignments=20 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2ab5A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2ab5A expands to /projects/compbio/data/pdb/2ab5.pdb.gz 2ab5A:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0342 read from 2ab5A/merged-good-all-a2m # 2ab5A read from 2ab5A/merged-good-all-a2m # adding 2ab5A to template set # found chain 2ab5A in template set T0342 69 :ATIFQSPG 2ab5A 278 :ITISKKGK T0342 78 :EVWGVVW 2ab5A 286 :YLLYELG T0342 85 :KMN 2ab5A 294 :EMH T0342 88 :KSNLNSLDEQE 2ab5A 300 :IQLLYKIKNIL T0342 103 :GMYVVIEVKVATQEGKEITCRSYLMTN 2ab5A 311 :GIGKVTIKKLKMKDGTIKEMCKFNVRN T0342 137 :PQYKKIICMGAKE 2ab5A 339 :NHLKNIIIPIFNK T0342 163 :IEPNDYTGKVSEEIEDIIKKGE 2ab5A 352 :YPMLTNKHYDYLYFKDNLLKDI Number of specific fragments extracted= 7 number of extra gaps= 0 total=196 Number of alignments=21 # 2ab5A read from 2ab5A/merged-good-all-a2m # found chain 2ab5A in template set T0342 68 :IATIFQSPG 2ab5A 277 :WITISKKGK T0342 78 :EVWGVV 2ab5A 286 :YLLYEL T0342 84 :WKMNKSN 2ab5A 293 :IEMHIRD T0342 91 :LNSLDEQEGV 2ab5A 303 :LYKIKNILGI T0342 105 :YVVIEVKVATQEGKEITCRSYLMTN 2ab5A 313 :GKVTIKKLKMKDGTIKEMCKFNVRN T0342 137 :PQYKKIICMGAKENGL 2ab5A 339 :NHLKNIIIPIFNKYPM T0342 153 :PLEYQEK 2ab5A 359 :HYDYLYF T0342 160 :L 2ab5A 369 :L T0342 161 :KAIEPNDYT 2ab5A 371 :KDIKYYNDL Number of specific fragments extracted= 9 number of extra gaps= 0 total=205 Number of alignments=22 # 2ab5A read from 2ab5A/merged-good-all-a2m # found chain 2ab5A in template set T0342 67 :GIATIFQSPGDEVWGVVWKMN 2ab5A 276 :GWITISKKGKYLLYELGIEMH T0342 88 :KSNLNSLDEQEG 2ab5A 300 :IQLLYKIKNILG T0342 104 :MYVVIEVKVATQEGKEITCRSYLMTN 2ab5A 312 :IGKVTIKKLKMKDGTIKEMCKFNVRN T0342 136 :SPQYKKIICMGAKEN 2ab5A 338 :KNHLKNIIIPIFNKY T0342 154 :LEYQEKLKA 2ab5A 363 :LYFKDNLLK T0342 163 :IEPNDYTGKVSEEIEDIIK 2ab5A 379 :LSYYLRPIKPFNTTEDILN Number of specific fragments extracted= 6 number of extra gaps= 0 total=211 Number of alignments=23 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2f7fA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2f7fA expands to /projects/compbio/data/pdb/2f7f.pdb.gz 2f7fA:Skipped atom 97, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 101, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 103, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 105, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 107, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 340, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 344, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 346, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 348, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 350, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 352, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 381, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 385, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 387, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 389, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 391, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 703, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 707, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 709, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 711, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 713, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 735, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 739, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 741, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 743, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 771, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 775, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 777, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 779, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 781, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 2013, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 2017, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 2019, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 2021, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 2023, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3037, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3041, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3043, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3045, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3047, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3049, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3051, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3053, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3055, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3057, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3059, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3306, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3310, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3312, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3314, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3316, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3318, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3587, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3591, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3593, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3595, because occupancy 0.500 <= existing 0.500 in 2f7fA Skipped atom 3597, because occupancy 0.500 <= existing 0.500 in 2f7fA # T0342 read from 2f7fA/merged-good-all-a2m # 2f7fA read from 2f7fA/merged-good-all-a2m # adding 2f7fA to template set # found chain 2f7fA in template set Warning: unaligning (T0342)A38 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)E94 Warning: unaligning (T0342)A39 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)E94 Warning: unaligning (T0342)L46 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)A102 Warning: unaligning (T0342)Q97 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)Y323 Warning: unaligning (T0342)E98 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)Y323 T0342 28 :TERIHLRNPS 2f7fA 83 :PEDFLTYLAN T0342 40 :FFCVAR 2f7fA 95 :FKCTVR T0342 47 :QDFKLDF 2f7fA 103 :LEGDLVF T0342 62 :QT 2f7fA 110 :NN T0342 66 :GGIATIFQS 2f7fA 112 :EPLIQIEGP T0342 75 :PGDEVW 2f7fA 306 :QKSKID T0342 83 :VWKMN 2f7fA 312 :VWGVG T0342 92 :NSLDE 2f7fA 317 :TKLIT T0342 99 :GVKSGMYVVIEVKVATQEG 2f7fA 324 :DQPALGAVFKLVSIEGEDG T0342 118 :KEIT 2f7fA 406 :KYVR T0342 130 :YESAPPSPQYKKIICMGAKE 2f7fA 427 :VYELPTLDEIKQYAKENLDS T0342 152 :LPLEYQ 2f7fA 447 :LHEEYK T0342 164 :EPNDYTG 2f7fA 453 :RDLNPQK T0342 171 :KVSEEIEDIIKKG 2f7fA 467 :DCWNHKMNLLEKV Number of specific fragments extracted= 14 number of extra gaps= 3 total=225 Number of alignments=24 # 2f7fA read from 2f7fA/merged-good-all-a2m # found chain 2f7fA in template set Warning: unaligning (T0342)I31 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)Y323 Warning: unaligning (T0342)H32 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)Y323 Warning: unaligning (T0342)G54 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)S351 Warning: unaligning (T0342)N55 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)N353 Warning: unaligning (T0342)S56 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)N353 Warning: unaligning (T0342)K85 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)L383 Warning: unaligning (T0342)M86 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)L383 T0342 19 :YFAYGSNLL 2f7fA 312 :VWGVGTKLI T0342 30 :R 2f7fA 321 :T T0342 33 :LRNPSAA 2f7fA 325 :QPALGAV T0342 41 :FCVARLQD 2f7fA 332 :FKLVSIEG T0342 49 :FKLDF 2f7fA 344 :MKDTI T0342 57 :QGKTSQTWHGGIATIFQSPGDEVWGVVW 2f7fA 354 :AEKVTTPGKKQVWRITRKSDKKSEGDYV T0342 103 :GM 2f7fA 385 :NE T0342 109 :EVKVAT 2f7fA 393 :EIYMFH T0342 115 :QE 2f7fA 400 :VH T0342 118 :KEIT 2f7fA 406 :KYVR T0342 127 :MTN 2f7fA 413 :ARP T0342 130 :YESAPPSPQYKKIICMGAKE 2f7fA 427 :VYELPTLDEIKQYAKENLDS T0342 152 :LPLEYQ 2f7fA 447 :LHEEYK T0342 164 :EPNDYTG 2f7fA 453 :RDLNPQK T0342 171 :KVSEEIEDIIKKGET 2f7fA 467 :DCWNHKMNLLEKVRK Number of specific fragments extracted= 15 number of extra gaps= 3 total=240 Number of alignments=25 # 2f7fA read from 2f7fA/merged-good-all-a2m # found chain 2f7fA in template set Warning: unaligning (T0342)K85 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE in next template residue (2f7fA)L383 Warning: unaligning (T0342)M86 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (2f7fA)L383 Warning: unaligning (T0342)T185 because last residue in template chain is (2f7fA)H485 T0342 51 :LDFGNSQGKTSQTW 2f7fA 335 :VSIEGEDGQMKDTI T0342 65 :HGGIATIFQSPGDEVWGVVW 2f7fA 362 :KKQVWRITRKSDKKSEGDYV T0342 98 :EGVKSGMYVVIEVKVATQEGKEIT 2f7fA 384 :WNEDPRQEEEIYMFHPVHTFINKY T0342 122 :CRSYLM 2f7fA 411 :FEARPV T0342 128 :TNYESAPPSPQYKKIICMGAKEN 2f7fA 425 :KRVYELPTLDEIKQYAKENLDSL T0342 151 :GLP 2f7fA 459 :KYP T0342 154 :LEYQEKLKA 2f7fA 466 :TDCWNHKMN T0342 175 :EIEDIIKKGE 2f7fA 475 :LLEKVRKDVK Number of specific fragments extracted= 8 number of extra gaps= 1 total=248 Number of alignments=26 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2f71A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2f71A expands to /projects/compbio/data/pdb/2f71.pdb.gz 2f71A:Skipped atom 12, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 16, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 18, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 20, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 22, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 166, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 170, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 172, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 174, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 176, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 178, because occupancy 0.450 <= existing 0.450 in 2f71A Skipped atom 181, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 185, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 187, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 189, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 191, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 223, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 227, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 229, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 231, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 233, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 235, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 281, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 285, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 287, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 289, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 291, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 293, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 295, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 297, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 531, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 533, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 535, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 537, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 539, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 541, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 543, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 545, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 547, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 549, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 551, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 553, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 555, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 557, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 559, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 561, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 563, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 565, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 567, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 569, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 571, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 573, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 575, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 577, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 579, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 581, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 647, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 651, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 653, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 655, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 657, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 700, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 704, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 706, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 708, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 710, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 712, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 997, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1001, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1003, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1005, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1038, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1042, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1044, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1055, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1059, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1061, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1063, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1065, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1067, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1379, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1383, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1385, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1387, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1389, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1391, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1467, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1471, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1473, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1475, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1477, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1479, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1517, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1521, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1523, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1525, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1527, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1645, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1649, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1651, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1653, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1655, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1657, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1678, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1682, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1684, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1744, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1748, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1750, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1752, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1754, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1756, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1766, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1770, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1772, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1774, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1776, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1778, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1780, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1782, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1831, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1835, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1837, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1839, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1841, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1843, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1867, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1871, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1873, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1875, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1908, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1912, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1914, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 1977, because occupancy 0.200 <= existing 0.800 in 2f71A Skipped atom 1981, because occupancy 0.200 <= existing 0.800 in 2f71A Skipped atom 1983, because occupancy 0.200 <= existing 0.800 in 2f71A Skipped atom 2060, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2064, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2066, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2068, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2070, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2072, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2195, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2199, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2201, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2203, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2205, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2346, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2350, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2352, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2473, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2477, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2479, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2481, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2493, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2497, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2499, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2501, because occupancy 0.500 <= existing 0.500 in 2f71A Skipped atom 2503, because occupancy 0.500 <= existing 0.500 in 2f71A # T0342 read from 2f71A/merged-good-all-a2m # 2f71A read from 2f71A/merged-good-all-a2m # adding 2f71A to template set # found chain 2f71A in template set T0342 29 :ERIHLRN 2f71A 38 :PKNKNRN T0342 36 :PSAAFFCVARLQDFKLDF 2f71A 64 :NDYINASLIKMEEAQRSY T0342 68 :IATIFQS 2f71A 82 :ILTQGPL T0342 75 :PGDEVWGVVW 2f71A 136 :EDTNLKLTLI T0342 101 :KSGMYVVIEVKVATQE 2f71A 149 :IKSYYTVRQLELENLT T0342 117 :GKEITCRSYLMTN 2f71A 166 :QETREILHFHYTT T0342 130 :YESAPPSPQ 2f71A 181 :DFGVPESPA T0342 139 :YKKIICMGAK 2f71A 191 :FLNFLFKVRE T0342 150 :NG 2f71A 201 :SG Number of specific fragments extracted= 9 number of extra gaps= 0 total=257 Number of alignments=27 # 2f71A read from 2f71A/merged-good-all-a2m # found chain 2f71A in template set Warning: unaligning (T0342)H32 because of BadResidue code BAD_PEPTIDE in next template residue (2f71A)Q61 Warning: unaligning (T0342)L33 because of BadResidue code BAD_PEPTIDE at template residue (2f71A)Q61 Warning: unaligning (T0342)R34 because of BadResidue code BAD_PEPTIDE at template residue (2f71A)E62 Warning: unaligning (T0342)N35 because of BadResidue code BAD_PEPTIDE at template residue (2f71A)D63 T0342 36 :PSAAFFCVARLQDFKLDF 2f71A 64 :NDYINASLIKMEEAQRSY T0342 68 :IATIFQSPG 2f71A 82 :ILTQGPLPN T0342 102 :SGMYVVIEVKVATQE 2f71A 150 :KSYYTVRQLELENLT T0342 117 :GKEITCRSYLMTN 2f71A 166 :QETREILHFHYTT T0342 130 :YESAPPSPQ 2f71A 181 :DFGVPESPA T0342 139 :YKKIICMGAKEN 2f71A 191 :FLNFLFKVRESG Number of specific fragments extracted= 6 number of extra gaps= 1 total=263 Number of alignments=28 # 2f71A read from 2f71A/merged-good-all-a2m # found chain 2f71A in template set T0342 4 :SGCKDVTGPDEESF 2f71A 119 :LKCAQYWPQKEEKE T0342 44 :ARLQDFKLDFGNSQ 2f71A 133 :MIFEDTNLKLTLIS T0342 71 :IFQ 2f71A 147 :EDI T0342 102 :SGMYVVIEVKVA 2f71A 150 :KSYYTVRQLELE T0342 114 :TQEGKEITCRSYLMTNYES 2f71A 163 :LTTQETREILHFHYTTWPD T0342 133 :APPSP 2f71A 183 :GVPES T0342 138 :QYKKIICMG 2f71A 190 :SFLNFLFKV T0342 148 :KE 2f71A 199 :RE Number of specific fragments extracted= 8 number of extra gaps= 0 total=271 Number of alignments=29 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1g4wR/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1g4wR expands to /projects/compbio/data/pdb/1g4w.pdb.gz 1g4wR:# T0342 read from 1g4wR/merged-good-all-a2m # 1g4wR read from 1g4wR/merged-good-all-a2m # adding 1g4wR to template set # found chain 1g4wR in template set T0342 35 :NPS 1g4wR 325 :LSD T0342 38 :AAFFCVARL 1g4wR 330 :PVPVNTLTF T0342 62 :QTWHGGIATIFQS 1g4wR 339 :DGKPVALAGSYPK T0342 75 :PG 1g4wR 397 :GE T0342 79 :VWGVVWKM 1g4wR 399 :VHTNSQKV T0342 88 :KSN 1g4wR 407 :SSA T0342 101 :KSGMYVVIEVKVAT 1g4wR 411 :QGEAIDQYNMQLSC T0342 116 :EGKEITCRSYLMTN 1g4wR 425 :GEKRYTIPVLHVKN T0342 130 :YESAPPSPQYKKIICMGAKENGLP 1g4wR 441 :DHQPLPSTDQLEYLADRVKNSNQN T0342 164 :EPNDYTG 1g4wR 465 :GAPGRSS Number of specific fragments extracted= 10 number of extra gaps= 0 total=281 Number of alignments=30 # 1g4wR read from 1g4wR/merged-good-all-a2m # found chain 1g4wR in template set T0342 60 :TSQTWHGGIATI 1g4wR 325 :LSDGMPVPVNTL T0342 73 :QSPGDE 1g4wR 337 :TFDGKP T0342 79 :VWGVVWKM 1g4wR 399 :VHTNSQKV T0342 88 :KSN 1g4wR 407 :SSA T0342 102 :SGMYVVIEVKVAT 1g4wR 412 :GEAIDQYNMQLSC T0342 116 :EGKEITCRSYLMTN 1g4wR 425 :GEKRYTIPVLHVKN T0342 130 :YESAPPSPQYKKIICMGAKENGLP 1g4wR 441 :DHQPLPSTDQLEYLADRVKNSNQN Number of specific fragments extracted= 7 number of extra gaps= 0 total=288 Number of alignments=31 # 1g4wR read from 1g4wR/merged-good-all-a2m # found chain 1g4wR in template set T0342 28 :TERIHLRNPSAAFFCVARLQDFKLDFGNSQGK 1g4wR 378 :EDQMQAKQLPPYFRGSYTFGEVHTNSQKVSSA T0342 100 :VKSGMYVVIEVKVATQEGKEIT 1g4wR 410 :SQGEAIDQYNMQLSCGEKRYTI T0342 122 :CRSYLMTNYESAPPSPQYKKIICMGAKEN 1g4wR 433 :VLHVKNWPDHQPLPSTDQLEYLADRVKNS Number of specific fragments extracted= 3 number of extra gaps= 0 total=291 Number of alignments=32 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1wu7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1wu7A expands to /projects/compbio/data/pdb/1wu7.pdb.gz 1wu7A:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0342 read from 1wu7A/merged-good-all-a2m # 1wu7A read from 1wu7A/merged-good-all-a2m # adding 1wu7A to template set # found chain 1wu7A in template set T0342 30 :RIHLRNPSAAFFCVAR 1wu7A 88 :RMVTSRKDLQRPLRWY T0342 46 :LQDFKL 1wu7A 105 :FPKVWR T0342 54 :GNSQGKTSQTWHGGI 1wu7A 111 :YEEPQAGRYREHYQF T0342 69 :ATIFQS 1wu7A 127 :ADIFGS T0342 76 :GDEVWGVVWKM 1wu7A 302 :GESVPAVGFGM T0342 88 :KSNLNSLDEQEGVKSGM 1wu7A 314 :DAVISLLLKRENVQIPR T0342 116 :EGK 1wu7A 331 :EKK T0342 123 :RSYLMTN 1wu7A 334 :SVYICRV T0342 133 :APPSPQYKK 1wu7A 341 :GKINSSIMN T0342 155 :EYQEKLKAIE 1wu7A 350 :EYSRKLRERG T0342 165 :PNDYTGKVSEEIEDIIKKG 1wu7A 363 :TVEIMERGLSAQLKYASAI Number of specific fragments extracted= 11 number of extra gaps= 0 total=302 Number of alignments=33 # 1wu7A read from 1wu7A/merged-good-all-a2m # found chain 1wu7A in template set T0342 46 :LQDFKLDFGN 1wu7A 254 :VKNVRYDFSI T0342 58 :GKTSQTWHGGIATIFQSPGDE 1wu7A 264 :VRGLSYYTGIVFEAYDRSGQF T0342 79 :VWGVVWKMNKSNLNSLDEQEGVK 1wu7A 305 :VPAVGFGMGDAVISLLLKRENVQ T0342 114 :TQEGKE 1wu7A 328 :IPREKK T0342 123 :RSYLMTN 1wu7A 334 :SVYICRV T0342 133 :A 1wu7A 341 :G T0342 151 :GLPLEYQEKL 1wu7A 342 :KINSSIMNEY T0342 161 :KAIEPNDYT 1wu7A 353 :RKLRERGMN T0342 170 :GKVSEEIEDIIKKGE 1wu7A 368 :ERGLSAQLKYASAIG Number of specific fragments extracted= 9 number of extra gaps= 0 total=311 Number of alignments=34 # 1wu7A read from 1wu7A/merged-good-all-a2m # found chain 1wu7A in template set T0342 11 :GPDEESFL 1wu7A 70 :DKGGREVT T0342 26 :LLTERIHLRN 1wu7A 82 :ATPSTVRMVT T0342 36 :PSAAFFCVARLQDFKLDFGNSQGKTSQTW 1wu7A 94 :KDLQRPLRWYSFPKVWRYEEPQAGRYREH T0342 65 :HGGIATIFQSPGDE 1wu7A 271 :TGIVFEAYDRSGQF T0342 79 :VWGVVWKMNKSNLNSLDEQEGVKSG 1wu7A 305 :VPAVGFGMGDAVISLLLKRENVQIP T0342 117 :GKEITCRSYLMTNY 1wu7A 330 :REKKSVYICRVGKI T0342 136 :SPQYKK 1wu7A 344 :NSSIMN T0342 155 :EYQEKLKAIEPN 1wu7A 350 :EYSRKLRERGMN T0342 167 :DYTGKVSEEIEDIIKKG 1wu7A 366 :IMERGLSAQLKYASAIG Number of specific fragments extracted= 9 number of extra gaps= 0 total=320 Number of alignments=35 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1vkbA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1vkbA expands to /projects/compbio/data/pdb/1vkb.pdb.gz 1vkbA:Skipped atom 175, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 177, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 179, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 181, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 233, because occupancy 0.200 <= existing 0.800 in 1vkbA Skipped atom 235, because occupancy 0.200 <= existing 0.800 in 1vkbA Skipped atom 292, because occupancy 0.500 <= existing 0.500 in 1vkbA Skipped atom 294, because occupancy 0.500 <= existing 0.500 in 1vkbA Skipped atom 323, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 325, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 507, because occupancy 0.500 <= existing 0.500 in 1vkbA Skipped atom 509, because occupancy 0.500 <= existing 0.500 in 1vkbA Skipped atom 686, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 688, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 690, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 692, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 711, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 713, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 719, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 721, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 723, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 725, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 1072, because occupancy 0.350 <= existing 0.650 in 1vkbA Skipped atom 1074, because occupancy 0.350 <= existing 0.650 in 1vkbA # T0342 read from 1vkbA/merged-good-all-a2m # 1vkbA read from 1vkbA/merged-good-all-a2m # adding 1vkbA to template set # found chain 1vkbA in template set Warning: unaligning (T0342)E14 because first residue in template chain is (1vkbA)H-1 T0342 15 :ESFLYFAYGSNLLTERIHLRN 1vkbA 0 :HMAHIFVYGTLKRGQPNHKVM T0342 36 :PSAAFFCVARLQD 1vkbA 26 :GLAAFRGRGCTVE T0342 49 :FKLDF 1vkbA 40 :FPLVI T0342 59 :KTSQTW 1vkbA 45 :AGEHNI T0342 69 :ATIFQSPG 1vkbA 51 :PWLLYLPG T0342 77 :DEVWGVVWKMNKSNLNSLDEQEGVK 1vkbA 61 :HCVTGEIYEVDEQMLRFLDDFEDCP T0342 103 :GMYVVIEVKVATQE 1vkbA 86 :SMYQRTALQVQVLE T0342 118 :KEITCRSYLMTN 1vkbA 108 :DSVQCFVYTTAT T0342 130 :YESAPPS 1vkbA 124 :WLFLPYH T0342 164 :EPNDYTG 1vkbA 131 :ESYDSEG Number of specific fragments extracted= 10 number of extra gaps= 0 total=330 Number of alignments=36 # 1vkbA read from 1vkbA/merged-good-all-a2m # found chain 1vkbA in template set Warning: unaligning (T0342)E14 because first residue in template chain is (1vkbA)H-1 T0342 15 :ESFLYFAYGSNLLTERIH 1vkbA 0 :HMAHIFVYGTLKRGQPNH T0342 33 :LR 1vkbA 23 :HS T0342 38 :AAFFCVARLQD 1vkbA 28 :AAFRGRGCTVE T0342 49 :FKLDFGNSQG 1vkbA 40 :FPLVIAGEHN T0342 68 :IATIFQSPG 1vkbA 50 :IPWLLYLPG T0342 77 :DEVWGVVWKMNKSNLNSLDEQEGVK 1vkbA 61 :HCVTGEIYEVDEQMLRFLDDFEDCP T0342 103 :GMYVVIEVKVATQE 1vkbA 86 :SMYQRTALQVQVLE T0342 118 :KEITCRSYLMTN 1vkbA 108 :DSVQCFVYTTAT T0342 130 :YES 1vkbA 129 :YHE Number of specific fragments extracted= 9 number of extra gaps= 0 total=339 Number of alignments=37 # 1vkbA read from 1vkbA/merged-good-all-a2m # found chain 1vkbA in template set Warning: unaligning (T0342)E14 because first residue in template chain is (1vkbA)H-1 T0342 15 :ESFLYFAYGSNL 1vkbA 0 :HMAHIFVYGTLK T0342 27 :LTERIH 1vkbA 16 :NHKVML T0342 33 :LRNPSAAFFCVARLQD 1vkbA 23 :HSHGLAAFRGRGCTVE T0342 49 :FKLDFGN 1vkbA 40 :FPLVIAG T0342 65 :HGGIATIFQSPGD 1vkbA 47 :EHNIPWLLYLPGK T0342 78 :EVWGVVWKMNKSNLNSLDEQEGVK 1vkbA 62 :CVTGEIYEVDEQMLRFLDDFEDCP T0342 103 :GMYVVIEVKVATQ 1vkbA 86 :SMYQRTALQVQVL T0342 117 :GKEITCRSYLMTNYESA 1vkbA 107 :GDSVQCFVYTTATYAPE Number of specific fragments extracted= 8 number of extra gaps= 0 total=347 Number of alignments=38 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2bv5A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2bv5A expands to /projects/compbio/data/pdb/2bv5.pdb.gz 2bv5A:Skipped atom 31, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 32, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 33, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 34, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 35, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 36, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 37, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 38, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 109, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 110, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 111, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 112, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 113, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 114, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 188, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 189, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 190, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 191, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 192, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 193, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 379, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 380, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 381, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 382, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 383, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 384, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 385, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 386, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 448, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 449, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 450, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 451, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 452, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 603, because occupancy 0.350 <= existing 0.650 in 2bv5A Skipped atom 604, because occupancy 0.350 <= existing 0.650 in 2bv5A Skipped atom 1242, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1243, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1244, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1245, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1246, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1247, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1248, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1632, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1633, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1634, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1635, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1636, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1637, because occupancy 0.500 <= existing 0.500 in 2bv5A Bad short name: OCD for alphabet: pdb_atoms Bad short name: OCD for alphabet: pdb_atoms Skipped atom 1796, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1797, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1798, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 1799, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2041, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2042, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2043, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2044, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2045, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2046, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2140, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2141, because occupancy 0.500 <= existing 0.500 in 2bv5A Skipped atom 2142, because occupancy 0.500 <= existing 0.500 in 2bv5A # T0342 read from 2bv5A/merged-good-all-a2m # 2bv5A read from 2bv5A/merged-good-all-a2m # adding 2bv5A to template set # found chain 2bv5A in template set T0342 4 :SGCKDVTGPDEE 2bv5A 281 :FEIPMNFVDPKE T0342 26 :LLTERIHLRN 2bv5A 293 :YDIPGLVRKN T0342 36 :PSAAFF 2bv5A 305 :KTILPN T0342 47 :QDFKLDFGNSQ 2bv5A 311 :PHSRVCLTSPD T0342 59 :KTSQTWHGGIATIFQS 2bv5A 322 :PDDPLSSYINANYIRG T0342 75 :PG 2bv5A 396 :DG T0342 79 :VWGVVWKM 2bv5A 398 :VEITVQKV T0342 100 :VKSGMYVVIEVKVAT 2bv5A 406 :IHTEDYRLRLISLKS T0342 116 :EGKEITCRSYLMTNYESAPPS 2bv5A 421 :GTEERGLKHYWFTSWPDQKTP T0342 137 :PQYKKIIC 2bv5A 445 :PPLLHLVR T0342 175 :EIEDIIKKGETQTL 2bv5A 453 :EVEEAAQQEGPHCA Number of specific fragments extracted= 11 number of extra gaps= 0 total=358 Number of alignments=39 # 2bv5A read from 2bv5A/merged-good-all-a2m # found chain 2bv5A in template set T0342 5 :GCKDVTGPDEE 2bv5A 282 :EIPMNFVDPKE T0342 26 :LLTERIHLRNPSAAFF 2bv5A 295 :IPGLVRKNRYKTILPN T0342 48 :DFKLDFGN 2bv5A 312 :HSRVCLTS T0342 57 :QGKTSQTWHGGIATIFQSPGDE 2bv5A 320 :PDPDDPLSSYINANYIRGYGGE T0342 79 :VWGVVWKM 2bv5A 398 :VEITVQKV T0342 102 :SGMYVVIEVKVAT 2bv5A 408 :TEDYRLRLISLKS T0342 116 :EGKEITCRSYLMTNYESAPP 2bv5A 421 :GTEERGLKHYWFTSWPDQKT T0342 136 :SPQYKKIIC 2bv5A 444 :APPLLHLVR T0342 175 :EIEDIIKKGETQTL 2bv5A 453 :EVEEAAQQEGPHCA Number of specific fragments extracted= 9 number of extra gaps= 0 total=367 Number of alignments=40 # 2bv5A read from 2bv5A/merged-good-all-a2m # found chain 2bv5A in template set Warning: unaligning (T0342)L18 because of BadResidue code BAD_PEPTIDE in next template residue (2bv5A)I346 Warning: unaligning (T0342)Y19 because of BadResidue code BAD_PEPTIDE at template residue (2bv5A)I346 T0342 11 :GPDEESF 2bv5A 338 :YGGEEKV T0342 20 :FAYGSN 2bv5A 347 :ATQGPI T0342 26 :LLTERIHLRN 2bv5A 354 :STVADFWRMV T0342 36 :PSAAFFCVARLQDFKLDFG 2bv5A 385 :TEYWPEEQVAYDGVEITVQ T0342 70 :TIFQS 2bv5A 404 :KVIHT T0342 103 :GMYVVIEVKVATQEGKEITCRSYLMTNYESAPPSP 2bv5A 409 :EDYRLRLISLKSGTEERGLKHYWFTSWPDQKTPDR T0342 138 :QYKKIICMGAKENG 2bv5A 449 :HLVREVEEAAQQEG Number of specific fragments extracted= 7 number of extra gaps= 1 total=374 Number of alignments=41 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1ln1A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1ln1A expands to /projects/compbio/data/pdb/1ln1.pdb.gz 1ln1A:# T0342 read from 1ln1A/merged-good-all-a2m # 1ln1A read from 1ln1A/merged-good-all-a2m # adding 1ln1A to template set # found chain 1ln1A in template set Warning: unaligning (T0342)G183 because last residue in template chain is (1ln1A)Y210 T0342 26 :LLTERIHLRNPSAAFFCVARLQDFKLDF 1ln1A 73 :MDSDYRKQWDQYVKELYEQECNGETVVY T0342 55 :NSQ 1ln1A 104 :KYP T0342 61 :SQTWHGGIATI 1ln1A 107 :FPMSNRDYVYL T0342 72 :FQSPGDEVWGVVWKM 1ln1A 123 :LDMEGRKIHVILARS T0342 87 :N 1ln1A 139 :S T0342 88 :KSN 1ln1A 141 :PQL T0342 99 :GVKSG 1ln1A 144 :GERSG T0342 105 :YVVIEVK 1ln1A 155 :YKQSLAI T0342 113 :ATQEGKEITCRSYLMT 1ln1A 162 :ESDGKKGSKVFMYYFD T0342 130 :YESAPPSPQYKKI 1ln1A 178 :NPGGQIPSWLINW T0342 147 :AKENGLP 1ln1A 191 :AAKNGVP T0342 171 :KVSEEIEDIIKK 1ln1A 198 :NFLKDMARACQN Number of specific fragments extracted= 12 number of extra gaps= 0 total=386 Number of alignments=42 # 1ln1A read from 1ln1A/merged-good-all-a2m # found chain 1ln1A in template set Warning: unaligning (T0342)G183 because last residue in template chain is (1ln1A)Y210 T0342 26 :LLTERIHLRNPSAAFFCVARLQDFKLDF 1ln1A 73 :MDSDYRKQWDQYVKELYEQECNGETVVY T0342 55 :NSQGKTS 1ln1A 104 :KYPFPMS T0342 65 :HGGIATI 1ln1A 111 :NRDYVYL T0342 72 :FQSPGDEVWGVVWKM 1ln1A 123 :LDMEGRKIHVILARS T0342 87 :N 1ln1A 139 :S T0342 88 :KSN 1ln1A 141 :PQL T0342 99 :GVKSG 1ln1A 144 :GERSG T0342 104 :MYVVIEVKVAT 1ln1A 154 :QYKQSLAIESD T0342 116 :EGKEITCRSYLM 1ln1A 165 :GKKGSKVFMYYF T0342 130 :YESAPPSPQYKKIIC 1ln1A 178 :NPGGQIPSWLINWAA T0342 149 :ENGL 1ln1A 193 :KNGV T0342 170 :GKVSEEIEDIIKK 1ln1A 197 :PNFLKDMARACQN Number of specific fragments extracted= 12 number of extra gaps= 0 total=398 Number of alignments=43 # 1ln1A read from 1ln1A/merged-good-all-a2m # found chain 1ln1A in template set T0342 29 :ERIHLRN 1ln1A 11 :EQFWEAC T0342 36 :PSAAFFCVARLQDFKLDFGNSQGKTSQTW 1ln1A 26 :AGADWQLLVETSGISIYRLLDKKTGLYEY T0342 104 :MYVVIEVKVATQEGKEIT 1ln1A 115 :VYLRQRRDLDMEGRKIHV T0342 122 :CRSYLMTN 1ln1A 172 :FMYYFDNP T0342 132 :SAP 1ln1A 180 :GGQ T0342 152 :LPLEYQEKLK 1ln1A 183 :IPSWLINWAA T0342 169 :TGKVSEEIED 1ln1A 193 :KNGVPNFLKD Number of specific fragments extracted= 7 number of extra gaps= 0 total=405 Number of alignments=44 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1zba3/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/T0342/1zba3/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0342/1zba3/merged-good-all-a2m.gz for input Trying 1zba3/merged-good-all-a2m Error: Couldn't open file 1zba3/merged-good-all-a2m or 1zba3/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fh7A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fh7A expands to /projects/compbio/data/pdb/2fh7.pdb.gz 2fh7A:Skipped atom 129, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 131, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 133, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 135, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 137, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 139, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 141, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 143, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 145, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 147, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 149, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 413, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 415, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 417, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 419, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 421, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 423, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 425, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 427, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 429, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 747, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 749, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 751, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 753, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 755, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 757, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 759, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 761, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 763, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 765, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 767, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1366, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1368, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1370, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1372, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1374, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1376, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1794, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1796, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1798, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1800, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1802, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1804, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1806, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1808, because occupancy 0.300 <= existing 0.700 in 2fh7A Skipped atom 1937, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1939, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1941, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1943, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1945, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1947, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 1949, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2385, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2387, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2389, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2391, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2393, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2395, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 2397, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3718, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3720, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3722, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3724, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3726, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3728, because occupancy 0.500 <= existing 0.500 in 2fh7A Skipped atom 3730, because occupancy 0.500 <= existing 0.500 in 2fh7A # T0342 read from 2fh7A/merged-good-all-a2m # 2fh7A read from 2fh7A/merged-good-all-a2m # adding 2fh7A to template set # found chain 2fh7A in template set Warning: unaligning (T0342)A162 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE in next template residue (2fh7A)F1870 Warning: unaligning (T0342)I163 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE at template residue (2fh7A)F1870 Warning: unaligning (T0342)E164 because of BadResidue code BAD_PEPTIDE at template residue (2fh7A)G1871 T0342 38 :AAFFCVARLQDFKL 2fh7A 1444 :SDYINANYVDGYRR T0342 62 :QT 2fh7A 1458 :QN T0342 67 :GIATIFQS 2fh7A 1460 :AYIATQGP T0342 76 :GDEVWG 2fh7A 1797 :ERSARY T0342 82 :VVWKMN 2fh7A 1806 :VVDPMA T0342 100 :VKSGMYVVIEVKVATQ 2fh7A 1813 :YNMPQYILREFKVTDA T0342 116 :EGKEITCRSYLMTN 2fh7A 1830 :DGQSRTVRQFQFTD T0342 130 :YESAP 2fh7A 1846 :EQGVP T0342 135 :PSPQYKKIICM 2fh7A 1852 :SGEGFIDFIGQ T0342 156 :YQEKLK 2fh7A 1863 :VHKTKE T0342 165 :P 2fh7A 1872 :Q Number of specific fragments extracted= 11 number of extra gaps= 1 total=416 Number of alignments=45 # 2fh7A read from 2fh7A/merged-good-all-a2m # found chain 2fh7A in template set Warning: unaligning (T0342)E149 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE in next template residue (2fh7A)F1870 Warning: unaligning (T0342)N150 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE at template residue (2fh7A)F1870 Warning: unaligning (T0342)G151 because of BadResidue code BAD_PEPTIDE at template residue (2fh7A)G1871 T0342 34 :RNPSAAFF 2fh7A 1505 :WPNRGTET T0342 42 :CVARLQDFKL 2fh7A 1516 :IQVTLLDTIE T0342 61 :SQTWHGGIATIFQSPGDE 2fh7A 1526 :LATFCVRTFSLHKNGSSE T0342 88 :KSNLNSLDEQE 2fh7A 1758 :AETTEDFWRML T0342 99 :GVK 2fh7A 1814 :NMP T0342 104 :MYVVIEVKVAT 2fh7A 1817 :QYILREFKVTD T0342 115 :QEGKEITCRSYLMTN 2fh7A 1829 :RDGQSRTVRQFQFTD T0342 130 :YESAPP 2fh7A 1845 :PEQGVP T0342 136 :S 2fh7A 1853 :G T0342 137 :PQYKKIICMGAK 2fh7A 1857 :IDFIGQVHKTKE T0342 152 :LP 2fh7A 1872 :QD Number of specific fragments extracted= 11 number of extra gaps= 1 total=427 Number of alignments=46 # 2fh7A read from 2fh7A/merged-good-all-a2m # found chain 2fh7A in template set Warning: unaligning (T0342)C42 because of BadResidue code BAD_PEPTIDE in next template residue (2fh7A)K1781 Warning: unaligning (T0342)V43 because of BadResidue code BAD_PEPTIDE at template residue (2fh7A)K1781 Warning: unaligning (T0342)E149 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE in next template residue (2fh7A)F1870 Warning: unaligning (T0342)N150 because of BadResidue code TOO_FEW_ATOMS+BAD_PEPTIDE at template residue (2fh7A)F1870 Warning: unaligning (T0342)G151 because of BadResidue code BAD_PEPTIDE at template residue (2fh7A)G1871 T0342 9 :VTGPDEESFLYFAYGSN 2fh7A 1741 :IDGYRQQKAYIATQGPL T0342 26 :LLTERIHLRN 2fh7A 1759 :ETTEDFWRML T0342 41 :F 2fh7A 1779 :L T0342 44 :ARLQDFKLDFGNSQGKTSQTWHGGIATIFQSPG 2fh7A 1782 :LREMGREKCHQYWPAERSARYQYFVVDPMAEYN T0342 102 :SGMYVVIEVKV 2fh7A 1815 :MPQYILREFKV T0342 113 :ATQEGKEITCRSYLMTNYESAPPSP 2fh7A 1827 :DARDGQSRTVRQFQFTDWPEQGVPK T0342 138 :QYKKIICMGAK 2fh7A 1858 :DFIGQVHKTKE T0342 152 :LP 2fh7A 1872 :QD Number of specific fragments extracted= 8 number of extra gaps= 2 total=435 Number of alignments=47 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1t5hX/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1t5hX expands to /projects/compbio/data/pdb/1t5h.pdb.gz 1t5hX:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0342 read from 1t5hX/merged-good-all-a2m # 1t5hX read from 1t5hX/merged-good-all-a2m # adding 1t5hX to template set # found chain 1t5hX in template set T0342 3 :N 1t5hX 266 :G T0342 9 :VTGPDEESFLYFAYGSNLLTERI 1t5hX 267 :SSLKLDSLRHVTFAGATMPDAVL T0342 75 :PGDE 1t5hX 347 :NGEE T0342 81 :G 1t5hX 351 :G T0342 82 :VVWKMN 1t5hX 353 :LIVAAS T0342 88 :KSNLN 1t5hX 369 :PQATA T0342 102 :SGMYVVIEVKVATQEG 1t5hX 378 :DGWYRTSDVAVWTPEG T0342 118 :KE 1t5hX 441 :GQ T0342 121 :TCRSYLMTNYESAPPSPQYKKII 1t5hX 443 :SVTACVVPRLGETLSADALDTFC T0342 148 :KENGLPL 1t5hX 466 :RSSELAD T0342 163 :IEPNDYTGKVSEEIEDII 1t5hX 485 :LPKNALNKVLRRQLVQQV Number of specific fragments extracted= 11 number of extra gaps= 0 total=446 Number of alignments=48 # 1t5hX read from 1t5hX/merged-good-all-a2m # found chain 1t5hX in template set T0342 6 :CKDVTGPDEESFLYFAYGSNLLTE 1t5hX 264 :HAGSSLKLDSLRHVTFAGATMPDA T0342 30 :RIHLRNPSAAFFCVAR 1t5hX 291 :TVHQHLPGEKVNIYGT T0342 48 :DFKLDFGNSQGKTSQTWHG 1t5hX 309 :AMNSLYMRQPKTGTEMAPG T0342 67 :GIATIFQSPGDE 1t5hX 330 :SEVRIVRIGGGV T0342 85 :KM 1t5hX 396 :RI T0342 87 :NKSN 1t5hX 400 :RVDD T0342 91 :LNSLDEQEGVKSGMYVVIEVKVATQEGKE 1t5hX 414 :PSEIERVLGTAPGVTEVVVIGLADQRWGQ T0342 121 :TCRSYLMTNYESAPPSPQYKKI 1t5hX 443 :SVTACVVPRLGETLSADALDTF T0342 147 :AKENGLPL 1t5hX 465 :CRSSELAD T0342 163 :IEPNDYTGKVSEEIEDII 1t5hX 485 :LPKNALNKVLRRQLVQQV Number of specific fragments extracted= 10 number of extra gaps= 0 total=456 Number of alignments=49 # 1t5hX read from 1t5hX/merged-good-all-a2m # found chain 1t5hX in template set T0342 18 :LYFAYGSNLLTER 1t5hX 276 :HVTFAGATMPDAV T0342 31 :IHLRN 1t5hX 292 :VHQHL T0342 36 :PSAAFFCVARLQDF 1t5hX 316 :RQPKTGTEMAPGFF T0342 50 :KLDFGNSQGKTSQTW 1t5hX 331 :EVRIVRIGGGVDEIV T0342 66 :GGIATIFQSPGDEVW 1t5hX 382 :RTSDVAVWTPEGTVR T0342 81 :G 1t5hX 399 :G T0342 87 :NKSN 1t5hX 400 :RVDD T0342 91 :LNSLDEQEGVKSGMYVVIEVKVATQEGKEITCRSYLMTNYESAP 1t5hX 414 :PSEIERVLGTAPGVTEVVVIGLADQRWGQSVTACVVPRLGETLS T0342 137 :P 1t5hX 458 :A T0342 154 :LEYQEKLKAIEPND 1t5hX 459 :DALDTFCRSSELAD Number of specific fragments extracted= 10 number of extra gaps= 0 total=466 Number of alignments=50 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1cjxA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1cjxA expands to /projects/compbio/data/pdb/1cjx.pdb.gz 1cjxA:Skipped atom 465, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 467, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 469, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 471, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 1193, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 1195, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 1197, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2045, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2047, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2049, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2051, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2459, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2461, because occupancy 0.500 <= existing 0.500 in 1cjxA Skipped atom 2464, because occupancy 0.500 <= existing 0.500 in 1cjxA # T0342 read from 1cjxA/merged-good-all-a2m # 1cjxA read from 1cjxA/merged-good-all-a2m # adding 1cjxA to template set # found chain 1cjxA in template set Warning: unaligning (T0342)K101 because of BadResidue code BAD_PEPTIDE in next template residue (1cjxA)E132 Warning: unaligning (T0342)S102 because of BadResidue code BAD_PEPTIDE at template residue (1cjxA)E132 Warning: unaligning (T0342)G103 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1cjxA)G133 T0342 16 :SFLYFAYGSN 1cjxA 12 :GFEFIEFASP T0342 26 :LLTERIHLRN 1cjxA 25 :TLEPIFEIMG T0342 38 :AAFFCVARLQDFKL 1cjxA 35 :FTKVATHRSKNVHL T0342 62 :QTWHGGIATIFQSPGD 1cjxA 49 :YRQGEINLILNNEPNS T0342 79 :VWGVVWKM 1cjxA 77 :VCGMAFRV T0342 87 :N 1cjxA 86 :D T0342 88 :KSNLNSLDEQ 1cjxA 88 :QKAYNRALEL T0342 99 :GV 1cjxA 98 :GA T0342 104 :M 1cjxA 134 :S T0342 112 :VATQEG 1cjxA 141 :FVYLEG T0342 122 :CRSYLMTN 1cjxA 240 :HVAFLTDD T0342 143 :ICMGAKENG 1cjxA 251 :TWDALKKIG T0342 152 :LPLEYQEKL 1cjxA 266 :PPDTYYEML T0342 161 :KAIEPNDYT 1cjxA 276 :GRLPDHGEP T0342 173 :SEEIEDI 1cjxA 285 :VDQLQAR Number of specific fragments extracted= 15 number of extra gaps= 1 total=481 Number of alignments=51 # 1cjxA read from 1cjxA/merged-good-all-a2m # found chain 1cjxA in template set Warning: unaligning (T0342)K101 because of BadResidue code BAD_PEPTIDE in next template residue (1cjxA)E132 Warning: unaligning (T0342)S102 because of BadResidue code BAD_PEPTIDE at template residue (1cjxA)E132 Warning: unaligning (T0342)G103 because of BadResidue code NON_PLANAR_PEPTIDE+BAD_PEPTIDE at template residue (1cjxA)G133 T0342 14 :E 1cjxA 7 :P T0342 15 :ESFLYFAYGS 1cjxA 11 :MGFEFIEFAS T0342 34 :RNPS 1cjxA 21 :PTPG T0342 38 :AAFFCVARLQDFKLD 1cjxA 35 :FTKVATHRSKNVHLY T0342 63 :TWHGGIATIFQSPGDE 1cjxA 50 :RQGEINLILNNEPNSI T0342 79 :VWGVVWKM 1cjxA 77 :VCGMAFRV T0342 87 :N 1cjxA 86 :D T0342 88 :KSNLNSLDEQE 1cjxA 88 :QKAYNRALELG T0342 99 :GV 1cjxA 129 :RF T0342 104 :M 1cjxA 134 :S T0342 112 :VATQEG 1cjxA 141 :FVYLEG T0342 123 :RSYLMTN 1cjxA 241 :VAFLTDD T0342 139 :YKK 1cjxA 248 :LVK T0342 143 :ICMGAKENG 1cjxA 251 :TWDALKKIG T0342 152 :LPLEYQEKL 1cjxA 266 :PPDTYYEML T0342 161 :KAIEPNDYT 1cjxA 276 :GRLPDHGEP T0342 173 :SEEIEDI 1cjxA 285 :VDQLQAR Number of specific fragments extracted= 17 number of extra gaps= 1 total=498 Number of alignments=52 # 1cjxA read from 1cjxA/merged-good-all-a2m # found chain 1cjxA in template set T0342 16 :SFLYFAYGSN 1cjxA 12 :GFEFIEFASP T0342 26 :LLTERIHLRN 1cjxA 25 :TLEPIFEIMG T0342 40 :FFCVARLQDF 1cjxA 35 :FTKVATHRSK T0342 50 :KLDF 1cjxA 47 :HLYR T0342 64 :WHGGIATIFQSPGD 1cjxA 51 :QGEINLILNNEPNS T0342 79 :VWGVVWKMN 1cjxA 77 :VCGMAFRVK T0342 88 :KSNLNSLDEQ 1cjxA 88 :QKAYNRALEL T0342 103 :GMYV 1cjxA 98 :GAQP T0342 110 :VKVATQEGKEIT 1cjxA 102 :IHIDTGPMELNL T0342 122 :CRSYLMTN 1cjxA 240 :HVAFLTDD T0342 140 :KKIICMGAKENGL 1cjxA 248 :LVKTWDALKKIGM T0342 153 :PLEYQEKLKAI 1cjxA 267 :PDTYYEMLEGR T0342 165 :PNDYTGKVSEEIE 1cjxA 278 :LPDHGEPVDQLQA Number of specific fragments extracted= 13 number of extra gaps= 0 total=511 Number of alignments=53 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1v30A/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments # T0342 read from 1v30A/merged-good-all-a2m # 1v30A read from 1v30A/merged-good-all-a2m # found chain 1v30A in training set Warning: unaligning (T0342)S16 because first residue in template chain is (1v30A)S7 T0342 17 :FLYFAYGSNLLTERIHLRNPSAAFFCVARLQDFKLDF 1v30A 8 :VRIAVYGTLRKGKPLHWYLKGAKFLGEDWIEGYQLYF T0342 62 :QTW 1v30A 45 :EYL T0342 69 :ATIFQSPG 1v30A 48 :PYAVKGKG T0342 78 :EVWGVVWKMNKSNLNSLDEQEG 1v30A 56 :KLKVEVYEVDKETFERINEIEI T0342 102 :SGMYVVIEVK 1v30A 78 :GTGYRLVEVS T0342 114 :TQEGK 1v30A 88 :TKFGK T0342 122 :CRSYLMTN 1v30A 93 :AFLWEWGS Number of specific fragments extracted= 7 number of extra gaps= 0 total=518 Number of alignments=54 # 1v30A read from 1v30A/merged-good-all-a2m # found chain 1v30A in training set Warning: unaligning (T0342)S16 because first residue in template chain is (1v30A)S7 T0342 17 :FLYFAYGSNLLTERIHLRNPSAAFFCVARLQDFKLDFGNS 1v30A 8 :VRIAVYGTLRKGKPLHWYLKGAKFLGEDWIEGYQLYFEYL T0342 69 :ATIFQSPG 1v30A 48 :PYAVKGKG T0342 78 :EVWGVVWKMNKSNLNSLDEQEGV 1v30A 56 :KLKVEVYEVDKETFERINEIEIG T0342 102 :SG 1v30A 79 :TG T0342 105 :YVVIEVK 1v30A 81 :YRLVEVS T0342 114 :TQEGK 1v30A 88 :TKFGK T0342 122 :CRSYLMTN 1v30A 93 :AFLWEWGS Number of specific fragments extracted= 7 number of extra gaps= 0 total=525 Number of alignments=55 # 1v30A read from 1v30A/merged-good-all-a2m # found chain 1v30A in training set Warning: unaligning (T0342)S16 because first residue in template chain is (1v30A)S7 T0342 17 :FLYFAYGSNL 1v30A 8 :VRIAVYGTLR T0342 32 :HLRNPSAAFFCVARLQDFKLDFG 1v30A 23 :HWYLKGAKFLGEDWIEGYQLYFE T0342 58 :GK 1v30A 46 :YL T0342 69 :ATIFQS 1v30A 48 :PYAVKG T0342 76 :GDEVWGVVWKMNKSNLNSLDEQEGV 1v30A 54 :KGKLKVEVYEVDKETFERINEIEIG T0342 103 :GMYV 1v30A 79 :TGYR T0342 109 :EVKVATQEGK 1v30A 83 :LVEVSTKFGK T0342 121 :TCRSYLMTNYES 1v30A 93 :AFLWEWGSKPRG Number of specific fragments extracted= 8 number of extra gaps= 0 total=533 Number of alignments=56 # Reading fragments from alignment file # Attempting to read fragment alignments from file 2fvgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 2fvgA expands to /projects/compbio/data/pdb/2fvg.pdb.gz 2fvgA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0342 read from 2fvgA/merged-good-all-a2m # 2fvgA read from 2fvgA/merged-good-all-a2m # adding 2fvgA to template set # found chain 2fvgA in template set T0342 14 :EES 2fvgA 51 :SSK T0342 18 :LYFAYGSNLL 2fvgA 54 :KLLVSAHMDE T0342 38 :AAFFCVARLQDFKLDFGNSQGKTSQTWHGGIATI 2fvgA 64 :VGFVVSKIEKDGKVSFLPVGGVDPRILPGKVVQV T0342 72 :FQS 2fvgA 100 :LKG T0342 75 :PGDEV 2fvgA 123 :ENLRI T0342 91 :LNSLDEQ 2fvgA 134 :ADEAKKY T0342 100 :VKSGMYVVIEVKVATQEG 2fvgA 141 :VSIGDYVSFVSDYIEKNG T0342 126 :LMTN 2fvgA 243 :AITF T0342 130 :YESAPPSPQYKKIICMGAKENGLP 2fvgA 248 :HRGYVIPKEIFQTIVDTAKNNDIP Number of specific fragments extracted= 9 number of extra gaps= 0 total=542 Number of alignments=57 # 2fvgA read from 2fvgA/merged-good-all-a2m # found chain 2fvgA in template set Warning: unaligning (T0342)N87 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2fvgA)P120 T0342 15 :ESFLYFAYGSNLL 2fvgA 51 :SSKKLLVSAHMDE T0342 41 :F 2fvgA 64 :V T0342 43 :VARLQD 2fvgA 65 :GFVVSK T0342 49 :FKLDFGNSQGKTSQTWHGGIATI 2fvgA 75 :GKVSFLPVGGVDPRILPGKVVQV T0342 75 :PG 2fvgA 98 :KN T0342 79 :VWGVVWKM 2fvgA 100 :LKGVIGYR T0342 99 :GVKSGMYVVIEVKVATQEG 2fvgA 140 :YVSIGDYVSFVSDYIEKNG T0342 126 :LMTN 2fvgA 243 :AITF T0342 130 :YESAPPSPQYKKIICMGAKENGLP 2fvgA 248 :HRGYVIPKEIFQTIVDTAKNNDIP Number of specific fragments extracted= 9 number of extra gaps= 0 total=551 Number of alignments=58 # 2fvgA read from 2fvgA/merged-good-all-a2m # found chain 2fvgA in template set Warning: unaligning (T0342)Q57 because of BadResidue code CHAIN_BREAK_BEFORE+BAD_PEPTIDE in next template residue (2fvgA)P120 T0342 39 :AFFCVARLQDFKLDFGNS 2fvgA 90 :LPGKVVQVKNLKGVIGYR T0342 65 :HGGIATIFQS 2fvgA 123 :ENLRIDFGFS T0342 87 :NKSN 2fvgA 133 :SADE T0342 94 :LDE 2fvgA 137 :AKK T0342 99 :GVKSGMYVVIEVKVATQEGKEIT 2fvgA 140 :YVSIGDYVSFVSDYIEKNGRAVG T0342 124 :SYLMTNYESAPPSPQYKKIICMGAKENGLP 2fvgA 242 :PAITFYHRGYVIPKEIFQTIVDTAKNNDIP Number of specific fragments extracted= 6 number of extra gaps= 0 total=557 Number of alignments=59 # Reading fragments from alignment file # Attempting to read fragment alignments from file 1xhsA/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/T0342/1xhsA/merged-good-all-a2m or /projects/compbio/experiments/protein-predict/casp7/T0342/1xhsA/merged-good-all-a2m.gz for input Trying 1xhsA/merged-good-all-a2m Error: Couldn't open file 1xhsA/merged-good-all-a2m or 1xhsA/merged-good-all-a2m.gz for input # Reading fragments from alignment file # Attempting to read fragment alignments from file 1yqgA/merged-good-all-a2m with NO bystroff filtering # adding to alignment library if long or multiple fragments 1yqgA expands to /projects/compbio/data/pdb/1yqg.pdb.gz 1yqgA:Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M Bad short name: MSE for alphabet: ExtAA Replacing MSE with M # T0342 read from 1yqgA/merged-good-all-a2m # 1yqgA read from 1yqgA/merged-good-all-a2m # adding 1yqgA to template set # found chain 1yqgA in template set T0342 14 :EESFLYFAYGSNLLTERIHLRNPSAAFFCVA 1yqgA 79 :TNGALVLSVAAGLSVGTLSRYLGGTRRIVRV T0342 53 :FGN 1yqgA 110 :MPN T0342 60 :TSQTWHGGIATIFQSPG 1yqgA 113 :TPGKIGLGVSGMYAEAE T0342 86 :MNKSNLNSLDEQEG 1yqgA 130 :VSETDRRIADRIMK T0342 103 :GM 1yqgA 144 :SV T0342 126 :LMTNY 1yqgA 150 :WLDDE T0342 137 :PQ 1yqgA 155 :EK T0342 143 :ICMGAKENGLPLEYQEKL 1yqgA 157 :MHGITGISGSGPAYVFYL T0342 161 :KAIE 1yqgA 176 :DALQ T0342 165 :PNDYTGKVSEEIEDIIKK 1yqgA 184 :RQGFDMAEARALSLATFK Number of specific fragments extracted= 10 number of extra gaps= 0 total=567 Number of alignments=60 # 1yqgA read from 1yqgA/merged-good-all-a2m # found chain 1yqgA in template set T0342 15 :ESFLYFAYGSNLLTERIHLRNPSAAFFCV 1yqgA 80 :NGALVLSVAAGLSVGTLSRYLGGTRRIVR T0342 52 :DFGN 1yqgA 109 :VMPN T0342 61 :SQTWHG 1yqgA 113 :TPGKIG T0342 67 :GIATIFQSPG 1yqgA 120 :GVSGMYAEAE T0342 86 :MNKSNLNSLDEQEGV 1yqgA 130 :VSETDRRIADRIMKS T0342 102 :SG 1yqgA 145 :VG T0342 111 :KVATQEG 1yqgA 147 :LTVWLDD T0342 137 :PQ 1yqgA 155 :EK T0342 143 :ICMGAKENGLPLEYQEKL 1yqgA 157 :MHGITGISGSGPAYVFYL T0342 161 :KAIEPN 1yqgA 176 :DALQNA T0342 167 :DYTGKVSEEIEDIIKK 1yqgA 186 :GFDMAEARALSLATFK Number of specific fragments extracted= 11 number of extra gaps= 0 total=578 Number of alignments=61 # 1yqgA read from 1yqgA/merged-good-all-a2m # found chain 1yqgA in template set T0342 15 :ESFLYFAYGSNLLTERIHLRNPSAAFFCVAR 1yqgA 80 :NGALVLSVAAGLSVGTLSRYLGGTRRIVRVM T0342 58 :GKTSQTWHGGIATIFQSPG 1yqgA 111 :PNTPGKIGLGVSGMYAEAE T0342 86 :MNKSNLNSLDEQEGVK 1yqgA 130 :VSETDRRIADRIMKSV T0342 108 :IEVKVATQEG 1yqgA 146 :GLTVWLDDEE T0342 136 :SPQY 1yqgA 167 :GPAY T0342 140 :KKIICMGAKENGLPLEYQEKLKA 1yqgA 175 :LDALQNAAIRQGFDMAEARALSL T0342 174 :EEIEDIIKK 1yqgA 198 :ATFKGAVAL Number of specific fragments extracted= 7 number of extra gaps= 0 total=585 Number of alignments=62 # command:Warning: Couldn't open file /projects/compbio/experiments/protein-predict/casp7/T0342//projects/compbio/experiments/protein-predict/casp7/T0342/align.constraints_v3.costfcn or /projects/compbio/experiments/protein-predict/casp7/T0342//projects/compbio/experiments/protein-predict/casp7/T0342/align.constraints_v3.costfcn.gz for input Trying /projects/compbio/experiments/protein-predict/casp7/T0342/align.constraints_v3.costfcn # reading script from file /projects/compbio/experiments/protein-predict/casp7/T0342/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((T0342)E109.CB, (T0342)C122.CB) [> 4.2820 = 7.1367 < 9.2778] w=1.0000 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)C122.CB) [> 3.3321 = 5.5535 < 7.2195] w=0.9910 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)S124.CB) [> 4.2008 = 7.0014 < 9.1018] w=0.9867 to align # Constraint # added constraint: constraint((T0342)K111.CB, (T0342)I120.CB) [> 4.2137 = 7.0229 < 9.1297] w=0.9635 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)S124.CB) [> 3.2004 = 5.3339 < 6.9341] w=0.9622 to align # Constraint # added constraint: constraint((T0342)K111.CB, (T0342)T121.CB) [> 3.6549 = 6.0915 < 7.9189] w=0.9598 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)Y125.CB) [> 3.4238 = 5.7063 < 7.4181] w=0.9596 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)R123.CB) [> 3.5437 = 5.9061 < 7.6780] w=0.9408 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)M127.CB) [> 3.2823 = 5.4705 < 7.1117] w=0.9265 to align # Constraint # added constraint: constraint((T0342)V112.CB, (T0342)T121.CB) [> 4.1599 = 6.9331 < 9.0131] w=0.8948 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)R123.CB) [> 4.1983 = 6.9971 < 9.0963] w=0.8906 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)S124.CB) [> 3.6161 = 6.0268 < 7.8348] w=0.8738 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)R123.CB) [> 4.1483 = 6.9138 < 8.9880] w=0.8676 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)L126.CB) [> 3.2028 = 5.3380 < 6.9394] w=0.8650 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)T121.CB) [> 3.7496 = 6.2493 < 8.1241] w=0.8581 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)Y125.CB) [> 4.3091 = 7.1818 < 9.3364] w=0.8483 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)L126.CB) [> 3.7249 = 6.2082 < 8.0707] w=0.8473 to align # Constraint # added constraint: constraint((T0342)K111.CB, (T0342)C122.CB) [> 4.2882 = 7.1469 < 9.2910] w=0.8436 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)L126.CB) [> 4.3348 = 7.2247 < 9.3921] w=0.8404 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)R123.CB) [> 3.6005 = 6.0008 < 7.8010] w=0.8366 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)T121.CB) [> 4.1427 = 6.9044 < 8.9758] w=0.8278 to align # Constraint # added constraint: constraint((T0342)V112.CB, (T0342)C122.CB) [> 3.4400 = 5.7334 < 7.4534] w=0.8231 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)Y125.CB) [> 4.2176 = 7.0293 < 9.1382] w=0.7642 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)Y125.CB) [> 3.1900 = 5.3167 < 6.9117] w=0.7486 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)S124.CB) [> 4.1199 = 6.8664 < 8.9264] w=0.7262 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)M127.CB) [> 4.0144 = 6.6906 < 8.6978] w=0.7211 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)L126.CB) [> 3.6806 = 6.1343 < 7.9746] w=0.6662 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)T128.CB) [> 3.6299 = 6.0498 < 7.8647] w=0.6221 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)T128.CB) [> 3.6560 = 6.0934 < 7.9214] w=0.5916 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)T70.CB) [> 4.0867 = 6.8111 < 8.8545] w=0.5661 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)I71.CB) [> 3.9975 = 6.6625 < 8.6613] w=0.5661 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)T128.CB) [> 4.0925 = 6.8208 < 8.8671] w=0.5422 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)I71.CB) [> 3.2734 = 5.4557 < 7.0925] w=0.5377 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)A69.CB) [> 3.4883 = 5.8139 < 7.5581] w=0.5187 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)N129.CB) [> 3.3052 = 5.5086 < 7.1612] w=0.5176 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)A69.CB) [> 3.8110 = 6.3516 < 8.2571] w=0.5079 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)A69.CB) [> 3.8456 = 6.4094 < 8.3322] w=0.4990 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)T70.CB) [> 3.5246 = 5.8744 < 7.6367] w=0.4946 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)I71.CB) [> 3.6648 = 6.1080 < 7.9404] w=0.4865 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)G81.CA) [> 3.9576 = 6.5960 < 8.5748] w=0.4667 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)S74.CB) [> 3.6176 = 6.0293 < 7.8381] w=0.4602 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)F72.CB) [> 3.7922 = 6.3204 < 8.2165] w=0.4542 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)N129.CB) [> 4.3499 = 7.2498 < 9.4247] w=0.4389 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)S124.CB) [> 3.9778 = 6.6297 < 8.6186] w=0.4141 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)L126.CB) [> 3.5712 = 5.9519 < 7.7375] w=0.4138 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)D52.CB) [> 3.2940 = 5.4899 < 7.1369] w=0.4019 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)F53.CB) [> 4.2848 = 7.1414 < 9.2838] w=0.4016 to align # Constraint # added constraint: constraint((T0342)G103.CA, (T0342)T128.CB) [> 4.1143 = 6.8572 < 8.9144] w=0.4003 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)M127.CB) [> 3.5002 = 5.8337 < 7.5838] w=0.3977 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)D52.CB) [> 4.1852 = 6.9754 < 9.0680] w=0.3863 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)A44.CB) [> 3.5806 = 5.9677 < 7.7581] w=0.3859 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)I68.CB) [> 3.7184 = 6.1973 < 8.0565] w=0.3822 to align # Constraint # added constraint: constraint((T0342)D95.CB, (T0342)V107.CB) [> 3.5062 = 5.8436 < 7.5967] w=0.3807 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)S74.CB) [> 2.9568 = 4.9280 < 6.4064] w=0.3749 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)Q73.CB) [> 3.6859 = 6.1432 < 7.9862] w=0.3745 to align # Constraint # added constraint: constraint((T0342)F17.CB, (T0342)K85.CB) [> 4.4220 = 7.3700 < 9.5810] w=0.3742 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)V83.CB) [> 3.5032 = 5.8386 < 7.5902] w=0.3742 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)W84.CB) [> 3.5001 = 5.8335 < 7.5836] w=0.3742 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)K85.CB) [> 3.4495 = 5.7492 < 7.4740] w=0.3742 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)V83.CB) [> 3.6656 = 6.1094 < 7.9422] w=0.3742 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)G81.CA) [> 3.7562 = 6.2603 < 8.1384] w=0.3742 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V82.CB) [> 3.7501 = 6.2501 < 8.1251] w=0.3742 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)R123.CB) [> 4.0886 = 6.8144 < 8.8587] w=0.3742 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)G81.CA) [> 3.5542 = 5.9237 < 7.7008] w=0.3742 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)V82.CB) [> 3.7417 = 6.2361 < 8.1069] w=0.3742 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)A69.CB) [> 3.8144 = 6.3573 < 8.2645] w=0.3742 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)I71.CB) [> 3.2696 = 5.4493 < 7.0841] w=0.3742 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)V79.CB) [> 3.4513 = 5.7522 < 7.4779] w=0.3742 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)G81.CA) [> 3.6495 = 6.0824 < 7.9072] w=0.3742 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)P75.CB) [> 3.8274 = 6.3791 < 8.2928] w=0.3710 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)M127.CB) [> 2.9291 = 4.8819 < 6.3464] w=0.3675 to align # Constraint # added constraint: constraint((T0342)A39.CB, (T0342)M86.CB) [> 4.0315 = 6.7191 < 8.7348] w=0.3674 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)F53.CB) [> 4.1750 = 6.9583 < 9.0458] w=0.3594 to align # Constraint # added constraint: constraint((T0342)M127.CB, (T0342)Y139.CB) [> 3.6479 = 6.0798 < 7.9038] w=0.3581 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)I68.CB) [> 4.2582 = 7.0969 < 9.2260] w=0.3566 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)I71.CB) [> 4.0453 = 6.7421 < 8.7648] w=0.3488 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)Q115.CB) [> 4.2385 = 7.0642 < 9.1835] w=0.3458 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)V79.CB) [> 2.9412 = 4.9020 < 6.3726] w=0.3420 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)M127.CB) [> 3.6633 = 6.1055 < 7.9372] w=0.3411 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)F72.CB) [> 3.3298 = 5.5496 < 7.2144] w=0.3410 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)Y139.CB) [> 4.1152 = 6.8587 < 8.9164] w=0.3410 to align # Constraint # added constraint: constraint((T0342)T28.CB, (T0342)F41.CB) [> 3.8471 = 6.4118 < 8.3354] w=0.3399 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)A69.CB) [> 3.6292 = 6.0487 < 7.8633] w=0.3374 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)T70.CB) [> 3.9313 = 6.5522 < 8.5179] w=0.3337 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)V79.CB) [> 3.0037 = 5.0062 < 6.5081] w=0.3336 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)F53.CB) [> 3.4603 = 5.7671 < 7.4972] w=0.3331 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)I142.CB) [> 4.2032 = 7.0054 < 9.1070] w=0.3287 to align # Constraint # added constraint: constraint((T0342)L91.CB, (T0342)R123.CB) [> 4.2994 = 7.1657 < 9.3154] w=0.3251 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)Y125.CB) [> 4.2705 = 7.1175 < 9.2528] w=0.3207 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)V79.CB) [> 3.1286 = 5.2143 < 6.7786] w=0.3199 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)V79.CB) [> 3.9321 = 6.5535 < 8.5196] w=0.3167 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)E78.CB) [> 2.8949 = 4.8249 < 6.2724] w=0.3167 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)W80.CB) [> 4.0459 = 6.7432 < 8.7661] w=0.3167 to align # Constraint # added constraint: constraint((T0342)E98.CB, (T0342)V107.CB) [> 3.8109 = 6.3515 < 8.2570] w=0.3166 to align # Constraint # added constraint: constraint((T0342)F72.CB, (T0342)L126.CB) [> 4.1602 = 6.9337 < 9.0138] w=0.3151 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)V82.CB) [> 4.0345 = 6.7242 < 8.7415] w=0.3142 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)G81.CA) [> 3.5700 = 5.9500 < 7.7350] w=0.3142 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)W80.CB) [> 3.2914 = 5.4857 < 7.1314] w=0.3142 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)G81.CA) [> 4.1969 = 6.9949 < 9.0934] w=0.3142 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)L51.CB) [> 3.7714 = 6.2857 < 8.1714] w=0.3113 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)Q73.CB) [> 4.5408 = 7.5679 < 9.8383] w=0.3066 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)I108.CB) [> 3.2691 = 5.4485 < 7.0831] w=0.3061 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)D52.CB) [> 3.7952 = 6.3253 < 8.2229] w=0.3042 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)S124.CB) [> 4.2508 = 7.0847 < 9.2101] w=0.3015 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)I142.CB) [> 3.9580 = 6.5967 < 8.5757] w=0.2946 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)E78.CB) [> 3.5684 = 5.9473 < 7.7315] w=0.2921 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V83.CB) [> 3.4855 = 5.8092 < 7.5520] w=0.2912 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)L94.CB) [> 4.3656 = 7.2760 < 9.4588] w=0.2889 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)A69.CB) [> 2.4841 = 4.1402 < 5.3822] w=0.2889 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)S124.CB) [> 4.5034 = 7.5057 < 9.7574] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)C122.CB) [> 2.6922 = 4.4869 < 5.8330] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)L46.CB) [> 3.9868 = 6.6447 < 8.6381] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)R123.CB) [> 3.0494 = 5.0824 < 6.6071] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)C122.CB) [> 3.3493 = 5.5821 < 7.2568] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)L91.CB) [> 4.3332 = 7.2220 < 9.3886] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)M86.CB) [> 3.6177 = 6.0296 < 7.8384] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)W84.CB) [> 3.5158 = 5.8597 < 7.6176] w=0.2889 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)C122.CB) [> 2.9207 = 4.8678 < 6.3281] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F17.CB, (T0342)L91.CB) [> 2.9306 = 4.8844 < 6.3497] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F17.CB, (T0342)M86.CB) [> 3.1809 = 5.3015 < 6.8919] w=0.2889 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)E78.CB) [> 4.4740 = 7.4566 < 9.6936] w=0.2889 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)G76.CA) [> 4.1382 = 6.8969 < 8.9660] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Q47.CB, (T0342)E78.CB) [> 3.2816 = 5.4694 < 7.1102] w=0.2889 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)T114.CB) [> 3.2459 = 5.4099 < 7.0329] w=0.2889 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)W80.CB) [> 4.5278 = 7.5463 < 9.8102] w=0.2889 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)G81.CA) [> 3.7084 = 6.1807 < 8.0349] w=0.2889 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)V82.CB) [> 4.0018 = 6.6696 < 8.6705] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)W84.CB) [> 4.2061 = 7.0102 < 9.1132] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)V83.CB) [> 2.9668 = 4.9447 < 6.4281] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F40.CB, (T0342)W84.CB) [> 3.5995 = 5.9991 < 7.7989] w=0.2889 to align # Constraint # added constraint: constraint((T0342)F40.CB, (T0342)V83.CB) [> 4.5551 = 7.5918 < 9.8693] w=0.2889 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)G81.CA) [> 4.0999 = 6.8332 < 8.8831] w=0.2889 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)I142.CB) [> 3.6087 = 6.0145 < 7.8189] w=0.2873 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)C122.CB) [> 3.7170 = 6.1951 < 8.0536] w=0.2868 to align # Constraint # added constraint: constraint((T0342)N129.CB, (T0342)Y139.CB) [> 4.2039 = 7.0065 < 9.1085] w=0.2865 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)Q138.CB) [> 3.0474 = 5.0789 < 6.6026] w=0.2848 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)F41.CB) [> 4.2215 = 7.0358 < 9.1466] w=0.2834 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)L51.CB) [> 3.5568 = 5.9280 < 7.7064] w=0.2830 to align # Constraint # added constraint: constraint((T0342)F72.CB, (T0342)M127.CB) [> 3.3104 = 5.5173 < 7.1725] w=0.2830 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)W64.CB) [> 3.7357 = 6.2263 < 8.0941] w=0.2825 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)Q73.CB) [> 3.4564 = 5.7607 < 7.4890] w=0.2782 to align # Constraint # added constraint: constraint((T0342)S16.CB, (T0342)K85.CB) [> 3.1233 = 5.2055 < 6.7672] w=0.2779 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)W80.CB) [> 3.8814 = 6.4690 < 8.4096] w=0.2779 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V83.CB) [> 3.5954 = 5.9922 < 7.7899] w=0.2779 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)V110.CB) [> 3.1040 = 5.1734 < 6.7254] w=0.2769 to align # Constraint # added constraint: constraint((T0342)G54.CA, (T0342)A69.CB) [> 3.8691 = 6.4485 < 8.3830] w=0.2768 to align # Constraint # added constraint: constraint((T0342)M127.CB, (T0342)I142.CB) [> 3.6927 = 6.1544 < 8.0008] w=0.2754 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)G67.CA) [> 3.9120 = 6.5200 < 8.4760] w=0.2752 to align # Constraint # added constraint: constraint((T0342)G54.CA, (T0342)T70.CB) [> 4.1481 = 6.9135 < 8.9875] w=0.2695 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)W80.CB) [> 3.6470 = 6.0784 < 7.9019] w=0.2665 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)T70.CB) [> 3.9640 = 6.6067 < 8.5887] w=0.2660 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)V83.CB) [> 4.2771 = 7.1285 < 9.2670] w=0.2626 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)G81.CA) [> 3.9455 = 6.5759 < 8.5486] w=0.2626 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)I71.CB) [> 3.6554 = 6.0923 < 7.9200] w=0.2624 to align # Constraint # added constraint: constraint((T0342)L94.CB, (T0342)Y125.CB) [> 4.2558 = 7.0931 < 9.2210] w=0.2609 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)I71.CB) [> 4.3344 = 7.2240 < 9.3912] w=0.2609 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)Q115.CB) [> 3.3205 = 5.5341 < 7.1944] w=0.2568 to align # Constraint # added constraint: constraint((T0342)F17.CB, (T0342)R123.CB) [> 3.9118 = 6.5197 < 8.4756] w=0.2568 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)R123.CB) [> 4.2129 = 7.0215 < 9.1280] w=0.2568 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)S124.CB) [> 3.9587 = 6.5979 < 8.5772] w=0.2568 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V110.CB) [> 3.8620 = 6.4367 < 8.3677] w=0.2568 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)S124.CB) [> 2.6643 = 4.4405 < 5.7727] w=0.2568 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)S124.CB) [> 4.2135 = 7.0225 < 9.1293] w=0.2568 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)V110.CB) [> 3.3196 = 5.5326 < 7.1923] w=0.2568 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)K111.CB) [> 4.5136 = 7.5227 < 9.7795] w=0.2568 to align # Constraint # added constraint: constraint((T0342)Q73.CB, (T0342)L126.CB) [> 3.7278 = 6.2130 < 8.0768] w=0.2568 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)I71.CB) [> 4.0320 = 6.7199 < 8.7359] w=0.2567 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)I176.CB) [> 4.0507 = 6.7511 < 8.7764] w=0.2514 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)T114.CB) [> 3.5036 = 5.8394 < 7.5912] w=0.2495 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V112.CB) [> 2.5387 = 4.2312 < 5.5006] w=0.2495 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)A113.CB) [> 3.8354 = 6.3923 < 8.3099] w=0.2495 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)V112.CB) [> 3.9076 = 6.5127 < 8.4665] w=0.2495 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)G81.CA) [> 3.1480 = 5.2467 < 6.8207] w=0.2465 to align # Constraint # added constraint: constraint((T0342)R45.CB, (T0342)A113.CB) [> 3.1239 = 5.2065 < 6.7684] w=0.2452 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)V82.CB) [> 3.3455 = 5.5759 < 7.2487] w=0.2440 to align # Constraint # added constraint: constraint((T0342)T128.CB, (T0342)Y139.CB) [> 4.3825 = 7.3042 < 9.4954] w=0.2410 to align # Constraint # added constraint: constraint((T0342)M127.CB, (T0342)I143.CB) [> 3.3810 = 5.6351 < 7.3256] w=0.2403 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)T70.CB) [> 3.3721 = 5.6202 < 7.3063] w=0.2388 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)T63.CB) [> 3.3953 = 5.6589 < 7.3565] w=0.2387 to align # Constraint # added constraint: constraint((T0342)F17.CB, (T0342)N87.CB) [> 4.4674 = 7.4457 < 9.6794] w=0.2373 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)V110.CB) [> 3.6925 = 6.1542 < 8.0005] w=0.2351 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)L126.CB) [> 3.7057 = 6.1763 < 8.0291] w=0.2312 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)R34.CB) [> 4.1791 = 6.9651 < 9.0546] w=0.2247 to align # Constraint # added constraint: constraint((T0342)R34.CB, (T0342)Q97.CB) [> 4.3645 = 7.2741 < 9.4564] w=0.2247 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V112.CB) [> 3.1242 = 5.2071 < 6.7692] w=0.2247 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)V112.CB) [> 3.2070 = 5.3451 < 6.9486] w=0.2247 to align # Constraint # added constraint: constraint((T0342)F49.CB, (T0342)D77.CB) [> 3.8693 = 6.4488 < 8.3834] w=0.2247 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)D77.CB) [> 3.0088 = 5.0146 < 6.5190] w=0.2247 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)T70.CB) [> 4.2074 = 7.0123 < 9.1160] w=0.2226 to align # Constraint # added constraint: constraint((T0342)E98.CB, (T0342)Y125.CB) [> 2.8683 = 4.7806 < 6.2147] w=0.2204 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)I31.CB) [> 4.1384 = 6.8973 < 8.9665] w=0.2193 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)V82.CB) [> 3.5062 = 5.8436 < 7.5967] w=0.2191 to align # Constraint # added constraint: constraint((T0342)F72.CB, (T0342)Y130.CB) [> 3.7702 = 6.2836 < 8.1687] w=0.2188 to align # Constraint # added constraint: constraint((T0342)L126.CB, (T0342)Y139.CB) [> 3.5607 = 5.9345 < 7.7148] w=0.2182 to align # Constraint # added constraint: constraint((T0342)S124.CB, (T0342)Y139.CB) [> 4.1885 = 6.9808 < 9.0751] w=0.2182 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)N87.CB) [> 4.5631 = 7.6052 < 9.8867] w=0.2179 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)K85.CB) [> 3.6760 = 6.1266 < 7.9646] w=0.2179 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)V83.CB) [> 3.3041 = 5.5068 < 7.1589] w=0.2179 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V82.CB) [> 3.6400 = 6.0667 < 7.8868] w=0.2179 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)V82.CB) [> 3.9943 = 6.6572 < 8.6543] w=0.2166 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)M86.CB) [> 2.8716 = 4.7860 < 6.2218] w=0.2150 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)V83.CB) [> 3.0813 = 5.1355 < 6.6762] w=0.2148 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)W84.CB) [> 4.4437 = 7.4063 < 9.6281] w=0.2129 to align # Constraint # added constraint: constraint((T0342)G54.CA, (T0342)I68.CB) [> 3.9297 = 6.5494 < 8.5142] w=0.2126 to align # Constraint # added constraint: constraint((T0342)I163.CB, (T0342)I176.CB) [> 4.0758 = 6.7930 < 8.8309] w=0.2124 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)G67.CA) [> 3.6090 = 6.0150 < 7.8195] w=0.2089 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)K111.CB) [> 3.8566 = 6.4276 < 8.3559] w=0.2087 to align # Constraint # added constraint: constraint((T0342)T28.CB, (T0342)A38.CB) [> 3.0521 = 5.0868 < 6.6129] w=0.2079 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)T70.CB) [> 3.8647 = 6.4412 < 8.3735] w=0.2052 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)V79.CB) [> 3.8999 = 6.4999 < 8.4498] w=0.2023 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)S124.CB) [> 3.3941 = 5.6569 < 7.3540] w=0.2021 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)I143.CB) [> 3.9446 = 6.5743 < 8.5466] w=0.1999 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)I68.CB) [> 3.9054 = 6.5090 < 8.4618] w=0.1966 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)V79.CB) [> 4.0968 = 6.8280 < 8.8764] w=0.1958 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)V83.CB) [> 4.2019 = 7.0031 < 9.1041] w=0.1947 to align # Constraint # added constraint: constraint((T0342)F40.CB, (T0342)D52.CB) [> 3.7735 = 6.2892 < 8.1759] w=0.1942 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)V83.CB) [> 4.2553 = 7.0922 < 9.2199] w=0.1939 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)T63.CB) [> 3.7775 = 6.2959 < 8.1847] w=0.1926 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)D77.CB) [> 4.5140 = 7.5234 < 9.7804] w=0.1926 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)A113.CB) [> 4.5332 = 7.5553 < 9.8218] w=0.1926 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)T114.CB) [> 3.7603 = 6.2671 < 8.1472] w=0.1926 to align # Constraint # added constraint: constraint((T0342)F40.CB, (T0342)V82.CB) [> 4.0559 = 6.7598 < 8.7877] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)N90.CB) [> 3.4615 = 5.7692 < 7.4999] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)K85.CB) [> 4.1743 = 6.9572 < 9.0444] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)W84.CB) [> 2.8327 = 4.7212 < 6.1375] w=0.1926 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)A69.CB) [> 3.6518 = 6.0864 < 7.9123] w=0.1926 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)G81.CA) [> 4.6763 = 7.7938 < 10.1320] w=0.1926 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)V82.CB) [> 4.7159 = 7.8598 < 10.2177] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)W84.CB) [> 4.0557 = 6.7596 < 8.7874] w=0.1926 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)W84.CB) [> 4.6088 = 7.6813 < 9.9856] w=0.1926 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)L126.CB) [> 4.6725 = 7.7875 < 10.1237] w=0.1926 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)V110.CB) [> 4.2732 = 7.1221 < 9.2587] w=0.1926 to align # Constraint # added constraint: constraint((T0342)Q47.CB, (T0342)K111.CB) [> 3.6783 = 6.1305 < 7.9697] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)C122.CB) [> 4.4121 = 7.3535 < 9.5596] w=0.1926 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)I120.CB) [> 4.2282 = 7.0469 < 9.1610] w=0.1926 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)T114.CB) [> 4.1618 = 6.9364 < 9.0173] w=0.1926 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)L94.CB) [> 4.1192 = 6.8653 < 8.9249] w=0.1926 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)I120.CB) [> 3.8396 = 6.3993 < 8.3191] w=0.1926 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)M86.CB) [> 4.4064 = 7.3440 < 9.5472] w=0.1926 to align # Constraint # added constraint: constraint((T0342)S16.CB, (T0342)N87.CB) [> 3.7340 = 6.2233 < 8.0903] w=0.1926 to align # Constraint # added constraint: constraint((T0342)S16.CB, (T0342)M86.CB) [> 3.7689 = 6.2815 < 8.1660] w=0.1926 to align # Constraint # added constraint: constraint((T0342)E15.CB, (T0342)K88.CB) [> 4.2732 = 7.1220 < 9.2585] w=0.1926 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)Q62.CB) [> 3.8660 = 6.4433 < 8.3762] w=0.1925 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)T63.CB) [> 3.5089 = 5.8482 < 7.6026] w=0.1920 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)C42.CB) [> 3.7943 = 6.3239 < 8.2211] w=0.1916 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)I120.CB) [> 3.9559 = 6.5932 < 8.5711] w=0.1908 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)I120.CB) [> 4.0016 = 6.6693 < 8.6700] w=0.1908 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)C122.CB) [> 3.9070 = 6.5117 < 8.4651] w=0.1899 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)V82.CB) [> 3.1579 = 5.2631 < 6.8421] w=0.1888 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)V112.CB) [> 3.5548 = 5.9247 < 7.7021] w=0.1837 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)F53.CB) [> 3.5964 = 5.9940 < 7.7922] w=0.1836 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)Y125.CB) [> 4.5646 = 7.6076 < 9.8899] w=0.1822 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)I71.CB) [> 4.4516 = 7.4193 < 9.6451] w=0.1816 to align # Constraint # added constraint: constraint((T0342)S16.CB, (T0342)W84.CB) [> 4.3505 = 7.2509 < 9.4261] w=0.1816 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)V82.CB) [> 4.2658 = 7.1097 < 9.2426] w=0.1816 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V79.CB) [> 4.1843 = 6.9738 < 9.0659] w=0.1816 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)V83.CB) [> 4.0195 = 6.6992 < 8.7090] w=0.1816 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)T70.CB) [> 4.2807 = 7.1345 < 9.2749] w=0.1816 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)E109.CB) [> 4.4802 = 7.4670 < 9.7071] w=0.1809 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)I71.CB) [> 3.7394 = 6.2324 < 8.1021] w=0.1794 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)I108.CB) [> 3.4603 = 5.7671 < 7.4973] w=0.1780 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)T70.CB) [> 3.0645 = 5.1075 < 6.6398] w=0.1769 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)V112.CB) [> 4.0847 = 6.8078 < 8.8502] w=0.1751 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)V82.CB) [> 4.0271 = 6.7118 < 8.7254] w=0.1750 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)C42.CB) [> 4.0356 = 6.7260 < 8.7438] w=0.1747 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)C42.CB) [> 3.6778 = 6.1297 < 7.9686] w=0.1747 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)T70.CB) [> 4.2614 = 7.1024 < 9.2331] w=0.1744 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)I68.CB) [> 4.3059 = 7.1764 < 9.3294] w=0.1738 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)G66.CA) [> 3.7992 = 6.3320 < 8.2317] w=0.1720 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)I68.CB) [> 3.8527 = 6.4212 < 8.3475] w=0.1713 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)I108.CB) [> 3.3328 = 5.5546 < 7.2210] w=0.1707 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)F41.CB) [> 3.7697 = 6.2828 < 8.1676] w=0.1692 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)F41.CB) [> 3.5934 = 5.9890 < 7.7857] w=0.1692 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)W84.CB) [> 3.6721 = 6.1201 < 7.9562] w=0.1679 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)W84.CB) [> 3.3513 = 5.5855 < 7.2612] w=0.1654 to align # Constraint # added constraint: constraint((T0342)K85.CB, (T0342)V110.CB) [> 4.2989 = 7.1647 < 9.3142] w=0.1629 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)E109.CB) [> 3.5355 = 5.8926 < 7.6603] w=0.1612 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)G81.CA) [> 3.6552 = 6.0920 < 7.9196] w=0.1608 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)Y125.CB) [> 4.6516 = 7.7526 < 10.0784] w=0.1605 to align # Constraint # added constraint: constraint((T0342)Q47.CB, (T0342)A113.CB) [> 3.4830 = 5.8050 < 7.5465] w=0.1605 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)I68.CB) [> 4.1716 = 6.9527 < 9.0386] w=0.1605 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)V110.CB) [> 4.1934 = 6.9890 < 9.0857] w=0.1573 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)A113.CB) [> 4.1839 = 6.9731 < 9.0651] w=0.1570 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)S124.CB) [> 4.2652 = 7.1087 < 9.2412] w=0.1569 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)A69.CB) [> 3.3154 = 5.5257 < 7.1834] w=0.1561 to align # Constraint # added constraint: constraint((T0342)W80.CB, (T0342)V112.CB) [> 4.2193 = 7.0322 < 9.1419] w=0.1559 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)Q73.CB) [> 2.7853 = 4.6422 < 6.0349] w=0.1558 to align # Constraint # added constraint: constraint((T0342)F72.CB, (T0342)T128.CB) [> 4.4027 = 7.3379 < 9.5392] w=0.1548 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)G146.CA) [> 3.8335 = 6.3891 < 8.3059] w=0.1541 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)A69.CB) [> 4.1816 = 6.9694 < 9.0602] w=0.1539 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)A39.CB) [> 4.0680 = 6.7800 < 8.8140] w=0.1520 to align # Constraint # added constraint: constraint((T0342)L27.CB, (T0342)F40.CB) [> 4.6306 = 7.7177 < 10.0330] w=0.1512 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)I179.CB) [> 4.5003 = 7.5006 < 9.7508] w=0.1502 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)Y139.CB) [> 4.2767 = 7.1279 < 9.2663] w=0.1500 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)I142.CB) [> 3.9381 = 6.5636 < 8.5327] w=0.1500 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)V107.CB) [> 4.1767 = 6.9612 < 9.0495] w=0.1495 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)M86.CB) [> 3.9370 = 6.5616 < 8.5301] w=0.1484 to align # Constraint # added constraint: constraint((T0342)Q73.CB, (T0342)V106.CB) [> 3.9294 = 6.5490 < 8.5137] w=0.1460 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)Q62.CB) [> 4.0442 = 6.7404 < 8.7625] w=0.1454 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)L51.CB) [> 3.9340 = 6.5567 < 8.5237] w=0.1429 to align # Constraint # added constraint: constraint((T0342)I31.CB, (T0342)I71.CB) [> 4.4913 = 7.4856 < 9.7312] w=0.1429 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)L46.CB) [> 4.4169 = 7.3615 < 9.5700] w=0.1410 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)Q62.CB) [> 3.1833 = 5.3056 < 6.8972] w=0.1394 to align # Constraint # added constraint: constraint((T0342)W80.CB, (T0342)T114.CB) [> 4.0588 = 6.7646 < 8.7940] w=0.1375 to align # Constraint # added constraint: constraint((T0342)A39.CB, (T0342)H65.CB) [> 3.8001 = 6.3335 < 8.2336] w=0.1374 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)K50.CB) [> 3.4513 = 5.7523 < 7.4779] w=0.1372 to align # Constraint # added constraint: constraint((T0342)I31.CB, (T0342)D52.CB) [> 3.8615 = 6.4358 < 8.3666] w=0.1368 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)H65.CB) [> 3.5014 = 5.8357 < 7.5864] w=0.1363 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)I31.CB) [> 4.2172 = 7.0287 < 9.1373] w=0.1340 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)G66.CA) [> 3.7216 = 6.2027 < 8.0635] w=0.1339 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)Q73.CB) [> 4.1472 = 6.9120 < 8.9856] w=0.1324 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)I180.CB) [> 3.2999 = 5.4998 < 7.1498] w=0.1311 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)I68.CB) [> 4.2537 = 7.0896 < 9.2165] w=0.1309 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)I68.CB) [> 3.4821 = 5.8035 < 7.5445] w=0.1309 to align # Constraint # added constraint: constraint((T0342)A39.CB, (T0342)T70.CB) [> 3.3328 = 5.5547 < 7.2212] w=0.1309 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)W64.CB) [> 3.6911 = 6.1519 < 7.9974] w=0.1301 to align # Constraint # added constraint: constraint((T0342)I31.CB, (T0342)F41.CB) [> 3.3353 = 5.5588 < 7.2265] w=0.1298 to align # Constraint # added constraint: constraint((T0342)W80.CB, (T0342)A113.CB) [> 2.5371 = 4.2284 < 5.4970] w=0.1295 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)T114.CB) [> 2.8631 = 4.7718 < 6.2034] w=0.1295 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)G66.CA) [> 4.2102 = 7.0170 < 9.1221] w=0.1294 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)G67.CA) [> 4.3242 = 7.2070 < 9.3691] w=0.1294 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)G67.CA) [> 3.8621 = 6.4369 < 8.3680] w=0.1294 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)S61.CB) [> 3.8336 = 6.3893 < 8.3061] w=0.1287 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)N35.CB) [> 4.6766 = 7.7943 < 10.1326] w=0.1284 to align # Constraint # added constraint: constraint((T0342)R34.CB, (T0342)S93.CB) [> 4.1833 = 6.9722 < 9.0638] w=0.1284 to align # Constraint # added constraint: constraint((T0342)R34.CB, (T0342)L94.CB) [> 3.5127 = 5.8546 < 7.6109] w=0.1284 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)T121.CB) [> 3.6089 = 6.0148 < 7.8192] w=0.1284 to align # Constraint # added constraint: constraint((T0342)N35.CB, (T0342)S93.CB) [> 3.5694 = 5.9490 < 7.7337] w=0.1284 to align # Constraint # added constraint: constraint((T0342)I163.CB, (T0342)I180.CB) [> 3.7987 = 6.3312 < 8.2306] w=0.1281 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)C122.CB) [> 4.4993 = 7.4989 < 9.7486] w=0.1280 to align # Constraint # added constraint: constraint((T0342)W80.CB, (T0342)K111.CB) [> 3.8514 = 6.4189 < 8.3446] w=0.1267 to align # Constraint # added constraint: constraint((T0342)G66.CA, (T0342)W84.CB) [> 3.6941 = 6.1568 < 8.0038] w=0.1260 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)I68.CB) [> 3.4967 = 5.8278 < 7.5761] w=0.1257 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)I71.CB) [> 4.1727 = 6.9546 < 9.0409] w=0.1255 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)M127.CB) [> 4.4268 = 7.3780 < 9.5914] w=0.1248 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)A44.CB) [> 3.5912 = 5.9853 < 7.7809] w=0.1248 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)A39.CB) [> 4.4729 = 7.4548 < 9.6913] w=0.1241 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)C42.CB) [> 4.0906 = 6.8176 < 8.8629] w=0.1231 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)V43.CB) [> 4.5182 = 7.5304 < 9.7895] w=0.1231 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)Y156.CB) [> 4.2519 = 7.0864 < 9.2124] w=0.1227 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)W84.CB) [> 4.0950 = 6.8250 < 8.8724] w=0.1216 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)L126.CB) [> 3.1340 = 5.2233 < 6.7903] w=0.1215 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)V110.CB) [> 3.1222 = 5.2036 < 6.7647] w=0.1207 to align # Constraint # added constraint: constraint((T0342)L94.CB, (T0342)V107.CB) [> 4.1783 = 6.9638 < 9.0529] w=0.1191 to align # Constraint # added constraint: constraint((T0342)W80.CB, (T0342)Y156.CB) [> 3.6574 = 6.0957 < 7.9244] w=0.1191 to align # Constraint # added constraint: constraint((T0342)L91.CB, (T0342)V107.CB) [> 3.2280 = 5.3800 < 6.9940] w=0.1188 to align # Constraint # added constraint: constraint((T0342)I108.CB, (T0342)T121.CB) [> 3.5903 = 5.9839 < 7.7790] w=0.1177 to align # Constraint # added constraint: constraint((T0342)S124.CB, (T0342)I143.CB) [> 3.7759 = 6.2932 < 8.1811] w=0.1169 to align # Constraint # added constraint: constraint((T0342)A39.CB, (T0342)W64.CB) [> 3.8375 = 6.3957 < 8.3145] w=0.1142 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)W64.CB) [> 3.2917 = 5.4862 < 7.1321] w=0.1142 to align # Constraint # added constraint: constraint((T0342)G58.CA, (T0342)I68.CB) [> 3.8982 = 6.4970 < 8.4461] w=0.1138 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)K85.CB) [> 3.5247 = 5.8744 < 7.6368] w=0.1132 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)Y125.CB) [> 4.2765 = 7.1275 < 9.2658] w=0.1132 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)T70.CB) [> 3.5501 = 5.9168 < 7.6919] w=0.1132 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)V43.CB) [> 3.9359 = 6.5598 < 8.5278] w=0.1131 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)A44.CB) [> 3.3991 = 5.6652 < 7.3647] w=0.1131 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)E119.CB) [> 3.5465 = 5.9109 < 7.6841] w=0.1124 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)G67.CA) [> 3.6593 = 6.0989 < 7.9285] w=0.1103 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)G66.CA) [> 4.3791 = 7.2986 < 9.4881] w=0.1085 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)I68.CB) [> 2.9803 = 4.9672 < 6.4573] w=0.1081 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)A69.CB) [> 4.2136 = 7.0226 < 9.1294] w=0.1081 to align # Constraint # added constraint: constraint((T0342)L160.CB, (T0342)I180.CB) [> 3.8510 = 6.4184 < 8.3440] w=0.1079 to align # Constraint # added constraint: constraint((T0342)E164.CB, (T0342)I176.CB) [> 3.8978 = 6.4963 < 8.4452] w=0.1079 to align # Constraint # added constraint: constraint((T0342)A38.CB, (T0342)N55.CB) [> 4.3073 = 7.1788 < 9.3324] w=0.1077 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)K141.CB) [> 3.3621 = 5.6034 < 7.2844] w=0.1066 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)V110.CB) [> 3.9156 = 6.5261 < 8.4839] w=0.1065 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)F41.CB) [> 3.9202 = 6.5337 < 8.4938] w=0.1062 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)I71.CB) [> 4.1087 = 6.8478 < 8.9022] w=0.1057 to align # Constraint # added constraint: constraint((T0342)K85.CB, (T0342)V106.CB) [> 3.5414 = 5.9023 < 7.6730] w=0.1056 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)Y125.CB) [> 3.7946 = 6.3243 < 8.2216] w=0.1055 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)H65.CB) [> 3.1692 = 5.2819 < 6.8665] w=0.1054 to align # Constraint # added constraint: constraint((T0342)R123.CB, (T0342)N150.CB) [> 3.1342 = 5.2238 < 6.7909] w=0.1053 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)G81.CA) [> 3.8262 = 6.3771 < 8.2902] w=0.1052 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)Q157.CB) [> 3.3263 = 5.5439 < 7.2071] w=0.1043 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)A69.CB) [> 3.7334 = 6.2224 < 8.0891] w=0.1039 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)V110.CB) [> 4.0061 = 6.6768 < 8.6798] w=0.1028 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)F53.CB) [> 3.7925 = 6.3208 < 8.2171] w=0.1022 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)F53.CB) [> 4.4009 = 7.3348 < 9.5352] w=0.1022 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)S173.CB) [> 3.3421 = 5.5702 < 7.2413] w=0.1021 to align # Constraint # added constraint: constraint((T0342)A147.CB, (T0342)Q157.CB) [> 3.6157 = 6.0262 < 7.8341] w=0.1017 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)I179.CB) [> 3.5374 = 5.8956 < 7.6643] w=0.1016 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)T63.CB) [> 3.7805 = 6.3008 < 8.1911] w=0.1014 to align # Constraint # added constraint: constraint((T0342)E98.CB, (T0342)E109.CB) [> 3.8786 = 6.4642 < 8.4035] w=0.1012 to align # Constraint # added constraint: constraint((T0342)L94.CB, (T0342)E109.CB) [> 2.8656 = 4.7760 < 6.2088] w=0.1012 to align # Constraint # added constraint: constraint((T0342)M104.CB, (T0342)Y125.CB) [> 3.6313 = 6.0522 < 7.8679] w=0.1001 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)L126.CB) [> 3.8431 = 6.4052 < 8.3267] w=0.1000 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)M145.CB) [> 3.9192 = 6.5319 < 8.4915] w=0.0996 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)E78.CB) [> 4.4748 = 7.4579 < 9.6953] w=0.0995 to align # Constraint # added constraint: constraint((T0342)K140.CB, (T0342)I176.CB) [> 4.1130 = 6.8549 < 8.9114] w=0.0993 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)H65.CB) [> 3.3022 = 5.5037 < 7.1549] w=0.0992 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)G66.CA) [> 3.9928 = 6.6546 < 8.6510] w=0.0992 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)R123.CB) [> 4.5988 = 7.6647 < 9.9641] w=0.0988 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)S124.CB) [> 3.9443 = 6.5738 < 8.5459] w=0.0988 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)Y125.CB) [> 4.0564 = 6.7607 < 8.7889] w=0.0988 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)S124.CB) [> 3.5835 = 5.9724 < 7.7642] w=0.0988 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)V107.CB) [> 3.9836 = 6.6393 < 8.6311] w=0.0988 to align # Constraint # added constraint: constraint((T0342)E164.CB, (T0342)S173.CB) [> 3.5778 = 5.9629 < 7.7518] w=0.0974 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)A44.CB) [> 4.1148 = 6.8580 < 8.9154] w=0.0970 to align # Constraint # added constraint: constraint((T0342)D95.CB, (T0342)V106.CB) [> 4.2785 = 7.1308 < 9.2700] w=0.0967 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)M127.CB) [> 4.4886 = 7.4810 < 9.7253] w=0.0963 to align # Constraint # added constraint: constraint((T0342)K59.CB, (T0342)T70.CB) [> 3.8004 = 6.3339 < 8.2341] w=0.0963 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)I120.CB) [> 4.7721 = 7.9535 < 10.3396] w=0.0963 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)I120.CB) [> 3.7010 = 6.1683 < 8.0188] w=0.0963 to align # Constraint # added constraint: constraint((T0342)V106.CB, (T0342)N129.CB) [> 4.5302 = 7.5503 < 9.8154] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)T114.CB) [> 4.2781 = 7.1301 < 9.2691] w=0.0963 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)T114.CB) [> 3.4287 = 5.7145 < 7.4289] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)K118.CB) [> 3.9973 = 6.6622 < 8.6608] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)G117.CA) [> 3.9394 = 6.5657 < 8.5354] w=0.0963 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)C122.CB) [> 3.3811 = 5.6352 < 7.3258] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)Y156.CB) [> 4.2753 = 7.1255 < 9.2631] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)G81.CA) [> 4.7901 = 7.9835 < 10.3786] w=0.0963 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)Q157.CB) [> 4.6302 = 7.7170 < 10.0322] w=0.0963 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)V82.CB) [> 3.9518 = 6.5864 < 8.5623] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)A69.CB) [> 4.4025 = 7.3375 < 9.5387] w=0.0963 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)E98.CB) [> 4.5981 = 7.6636 < 9.9626] w=0.0963 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)V82.CB) [> 3.3214 = 5.5357 < 7.1964] w=0.0963 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)Y125.CB) [> 4.7993 = 7.9989 < 10.3986] w=0.0963 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)Y125.CB) [> 4.2701 = 7.1169 < 9.2519] w=0.0963 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)I68.CB) [> 3.5890 = 5.9817 < 7.7763] w=0.0963 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)E98.CB) [> 4.7035 = 7.8393 < 10.1910] w=0.0963 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)V83.CB) [> 4.3416 = 7.2361 < 9.4069] w=0.0963 to align # Constraint # added constraint: constraint((T0342)G103.CA, (T0342)E131.CB) [> 3.5956 = 5.9927 < 7.7905] w=0.0962 to align # Constraint # added constraint: constraint((T0342)V100.CB, (T0342)I142.CB) [> 3.6353 = 6.0589 < 7.8766] w=0.0962 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)M127.CB) [> 3.5912 = 5.9853 < 7.7809] w=0.0947 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)M127.CB) [> 3.9640 = 6.6067 < 8.5888] w=0.0947 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)K161.CB) [> 3.8712 = 6.4520 < 8.3876] w=0.0945 to align # Constraint # added constraint: constraint((T0342)D95.CB, (T0342)Y105.CB) [> 3.4395 = 5.7324 < 7.4521] w=0.0935 to align # Constraint # added constraint: constraint((T0342)L94.CB, (T0342)Y105.CB) [> 3.7668 = 6.2780 < 8.1614] w=0.0935 to align # Constraint # added constraint: constraint((T0342)G58.CA, (T0342)A69.CB) [> 3.9568 = 6.5947 < 8.5731] w=0.0903 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)R123.CB) [> 4.1601 = 6.9335 < 9.0136] w=0.0903 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)S61.CB) [> 4.0399 = 6.7332 < 8.7531] w=0.0899 to align # Constraint # added constraint: constraint((T0342)S102.CB, (T0342)Y125.CB) [> 4.2737 = 7.1228 < 9.2597] w=0.0895 to align # Constraint # added constraint: constraint((T0342)S61.CB, (T0342)T70.CB) [> 2.8431 = 4.7385 < 6.1600] w=0.0875 to align # Constraint # added constraint: constraint((T0342)P36.CB, (T0342)H65.CB) [> 3.9655 = 6.6092 < 8.5919] w=0.0860 to align # Constraint # added constraint: constraint((T0342)P36.CB, (T0342)G66.CA) [> 3.8287 = 6.3812 < 8.2955] w=0.0860 to align # Constraint # added constraint: constraint((T0342)S37.CB, (T0342)H65.CB) [> 3.1904 = 5.3173 < 6.9125] w=0.0860 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)Y125.CB) [> 3.5187 = 5.8645 < 7.6239] w=0.0860 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)S124.CB) [> 4.4571 = 7.4285 < 9.6571] w=0.0860 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)Y125.CB) [> 4.2096 = 7.0160 < 9.1208] w=0.0860 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)S124.CB) [> 3.2819 = 5.4699 < 7.1108] w=0.0860 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)M127.CB) [> 3.0374 = 5.0623 < 6.5810] w=0.0860 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)M127.CB) [> 3.5879 = 5.9798 < 7.7738] w=0.0860 to align # Constraint # added constraint: constraint((T0342)A21.CB, (T0342)I71.CB) [> 4.7455 = 7.9092 < 10.2820] w=0.0853 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)T70.CB) [> 4.1937 = 6.9896 < 9.0865] w=0.0853 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)A69.CB) [> 3.2468 = 5.4113 < 7.0347] w=0.0853 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)I68.CB) [> 4.5652 = 7.6087 < 9.8913] w=0.0853 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)G67.CA) [> 4.4361 = 7.3935 < 9.6116] w=0.0853 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)I68.CB) [> 4.3327 = 7.2212 < 9.3876] w=0.0853 to align # Constraint # added constraint: constraint((T0342)N129.CB, (T0342)I143.CB) [> 3.5762 = 5.9603 < 7.7484] w=0.0853 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)R123.CB) [> 4.1201 = 6.8669 < 8.9269] w=0.0853 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)W80.CB) [> 3.0585 = 5.0975 < 6.6268] w=0.0853 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)Q73.CB) [> 4.2391 = 7.0652 < 9.1847] w=0.0853 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)T63.CB) [> 3.1966 = 5.3276 < 6.9259] w=0.0847 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)M127.CB) [> 3.5108 = 5.8513 < 7.6067] w=0.0846 to align # Constraint # added constraint: constraint((T0342)V107.CB, (T0342)C122.CB) [> 3.7894 = 6.3156 < 8.2103] w=0.0844 to align # Constraint # added constraint: constraint((T0342)N55.CB, (T0342)H65.CB) [> 3.2453 = 5.4088 < 7.0314] w=0.0835 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)Y156.CB) [> 3.5942 = 5.9903 < 7.7874] w=0.0832 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)S61.CB) [> 4.1360 = 6.8934 < 8.9614] w=0.0825 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)E109.CB) [> 3.9793 = 6.6322 < 8.6219] w=0.0825 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)H65.CB) [> 4.3731 = 7.2885 < 9.4751] w=0.0821 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)W64.CB) [> 3.3496 = 5.5827 < 7.2575] w=0.0816 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)E158.CB) [> 3.5979 = 5.9965 < 7.7954] w=0.0815 to align # Constraint # added constraint: constraint((T0342)P134.CB, (T0342)I143.CB) [> 4.2655 = 7.1091 < 9.2419] w=0.0813 to align # Constraint # added constraint: constraint((T0342)Y105.CB, (T0342)I143.CB) [> 4.6375 = 7.7292 < 10.0480] w=0.0813 to align # Constraint # added constraint: constraint((T0342)A162.CB, (T0342)E175.CB) [> 4.0263 = 6.7104 < 8.7236] w=0.0812 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)V110.CB) [> 3.5434 = 5.9056 < 7.6773] w=0.0806 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)V110.CB) [> 4.2463 = 7.0771 < 9.2002] w=0.0806 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)H65.CB) [> 3.4618 = 5.7697 < 7.5006] w=0.0797 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)V107.CB) [> 4.0030 = 6.6717 < 8.6732] w=0.0792 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)E109.CB) [> 3.0028 = 5.0047 < 6.5061] w=0.0792 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)V106.CB) [> 4.1228 = 6.8713 < 8.9327] w=0.0792 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)V107.CB) [> 4.0724 = 6.7873 < 8.8235] w=0.0792 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)V107.CB) [> 2.9325 = 4.8875 < 6.3537] w=0.0792 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)G66.CA) [> 4.0746 = 6.7910 < 8.8282] w=0.0790 to align # Constraint # added constraint: constraint((T0342)L126.CB, (T0342)K140.CB) [> 3.9024 = 6.5040 < 8.4552] w=0.0787 to align # Constraint # added constraint: constraint((T0342)K161.CB, (T0342)E177.CB) [> 4.3518 = 7.2530 < 9.4289] w=0.0787 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)W64.CB) [> 3.7176 = 6.1960 < 8.0548] w=0.0786 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)Q97.CB) [> 4.0878 = 6.8130 < 8.8570] w=0.0784 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)T63.CB) [> 4.3110 = 7.1850 < 9.3406] w=0.0775 to align # Constraint # added constraint: constraint((T0342)S56.CB, (T0342)G66.CA) [> 3.5728 = 5.9547 < 7.7411] w=0.0774 to align # Constraint # added constraint: constraint((T0342)I143.CB, (T0342)I176.CB) [> 3.8002 = 6.3336 < 8.2337] w=0.0774 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)C122.CB) [> 3.3830 = 5.6383 < 7.3298] w=0.0774 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)E109.CB) [> 4.6266 = 7.7110 < 10.0243] w=0.0772 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)V110.CB) [> 3.0399 = 5.0665 < 6.5865] w=0.0767 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)V83.CB) [> 3.3042 = 5.5070 < 7.1590] w=0.0765 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)V82.CB) [> 4.0915 = 6.8191 < 8.8648] w=0.0765 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)G66.CA) [> 3.7458 = 6.2429 < 8.1158] w=0.0763 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)V83.CB) [> 3.4293 = 5.7155 < 7.4302] w=0.0763 to align # Constraint # added constraint: constraint((T0342)A162.CB, (T0342)I180.CB) [> 4.2280 = 7.0466 < 9.1607] w=0.0758 to align # Constraint # added constraint: constraint((T0342)E177.CB, (T0342)L188.CB) [> 4.1253 = 6.8755 < 8.9381] w=0.0758 to align # Constraint # added constraint: constraint((T0342)M127.CB, (T0342)I180.CB) [> 3.8187 = 6.3645 < 8.2739] w=0.0755 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)G67.CA) [> 3.3943 = 5.6572 < 7.3543] w=0.0752 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)A69.CB) [> 4.2438 = 7.0731 < 9.1950] w=0.0752 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)F53.CB) [> 4.3827 = 7.3044 < 9.4958] w=0.0746 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)V172.CB) [> 2.7712 = 4.6186 < 6.0042] w=0.0743 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)W84.CB) [> 3.5862 = 5.9770 < 7.7701] w=0.0742 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)A69.CB) [> 4.2940 = 7.1567 < 9.3036] w=0.0740 to align # Constraint # added constraint: constraint((T0342)D8.CB, (T0342)N35.CB) [> 3.9610 = 6.6017 < 8.5822] w=0.0735 to align # Constraint # added constraint: constraint((T0342)Q97.CB, (T0342)I163.CB) [> 3.8617 = 6.4362 < 8.3671] w=0.0734 to align # Constraint # added constraint: constraint((T0342)V112.CB, (T0342)I180.CB) [> 3.9964 = 6.6607 < 8.6589] w=0.0734 to align # Constraint # added constraint: constraint((T0342)V100.CB, (T0342)T121.CB) [> 4.4440 = 7.4066 < 9.6286] w=0.0734 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)V83.CB) [> 4.3214 = 7.2024 < 9.3631] w=0.0734 to align # Constraint # added constraint: constraint((T0342)K140.CB, (T0342)I179.CB) [> 3.2013 = 5.3355 < 6.9361] w=0.0731 to align # Constraint # added constraint: constraint((T0342)K140.CB, (T0342)Q157.CB) [> 3.5990 = 5.9983 < 7.7977] w=0.0721 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)L160.CB) [> 4.4539 = 7.4233 < 9.6502] w=0.0717 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)W84.CB) [> 3.6671 = 6.1118 < 7.9454] w=0.0700 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)V82.CB) [> 3.3616 = 5.6026 < 7.2834] w=0.0700 to align # Constraint # added constraint: constraint((T0342)Y125.CB, (T0342)V172.CB) [> 3.7815 = 6.3025 < 8.1933] w=0.0691 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)L46.CB) [> 2.7482 = 4.5803 < 5.9544] w=0.0684 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)A44.CB) [> 4.6360 = 7.7267 < 10.0447] w=0.0684 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)E109.CB) [> 4.7449 = 7.9081 < 10.2806] w=0.0684 to align # Constraint # added constraint: constraint((T0342)Q97.CB, (T0342)V107.CB) [> 3.9029 = 6.5048 < 8.4563] w=0.0684 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)N166.CB) [> 3.9504 = 6.5839 < 8.5591] w=0.0684 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)L126.CB) [> 3.3699 = 5.6165 < 7.3014] w=0.0683 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)S124.CB) [> 3.9208 = 6.5347 < 8.4951] w=0.0683 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)Y125.CB) [> 3.2096 = 5.3494 < 6.9542] w=0.0683 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)L126.CB) [> 3.6514 = 6.0857 < 7.9114] w=0.0683 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)D48.CB) [> 3.4193 = 5.6988 < 7.4084] w=0.0681 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)L126.CB) [> 4.7066 = 7.8443 < 10.1975] w=0.0670 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)E78.CB) [> 4.6964 = 7.8274 < 10.1756] w=0.0670 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)G146.CA) [> 4.0679 = 6.7799 < 8.8138] w=0.0670 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)W64.CB) [> 4.2705 = 7.1176 < 9.2528] w=0.0642 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)S136.CB) [> 4.2537 = 7.0895 < 9.2163] w=0.0642 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)L126.CB) [> 3.4425 = 5.7375 < 7.4587] w=0.0638 to align # Constraint # added constraint: constraint((T0342)K159.CB, (T0342)I179.CB) [> 3.4270 = 5.7116 < 7.4251] w=0.0608 to align # Constraint # added constraint: constraint((T0342)T60.CB, (T0342)T70.CB) [> 4.4855 = 7.4758 < 9.7185] w=0.0599 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)C122.CB) [> 3.4059 = 5.6765 < 7.3795] w=0.0581 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)L126.CB) [> 2.8444 = 4.7407 < 6.1629] w=0.0581 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)L126.CB) [> 4.4754 = 7.4590 < 9.6967] w=0.0581 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)V79.CB) [> 3.5394 = 5.8990 < 7.6687] w=0.0571 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)S61.CB) [> 3.4666 = 5.7776 < 7.5109] w=0.0570 to align # Constraint # added constraint: constraint((T0342)L27.CB, (T0342)I71.CB) [> 3.3227 = 5.5378 < 7.1992] w=0.0569 to align # Constraint # added constraint: constraint((T0342)L33.CB, (T0342)A147.CB) [> 4.7516 = 7.9193 < 10.2951] w=0.0569 to align # Constraint # added constraint: constraint((T0342)L33.CB, (T0342)N150.CB) [> 3.6663 = 6.1104 < 7.9436] w=0.0569 to align # Constraint # added constraint: constraint((T0342)L160.CB, (T0342)S173.CB) [> 3.6374 = 6.0624 < 7.8811] w=0.0569 to align # Constraint # added constraint: constraint((T0342)G5.CA, (T0342)F40.CB) [> 3.2167 = 5.3612 < 6.9696] w=0.0557 to align # Constraint # added constraint: constraint((T0342)G5.CA, (T0342)F41.CB) [> 3.4130 = 5.6884 < 7.3949] w=0.0557 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)F40.CB) [> 3.8277 = 6.3795 < 8.2934] w=0.0557 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)F41.CB) [> 4.2142 = 7.0237 < 9.1308] w=0.0557 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)F41.CB) [> 2.9290 = 4.8816 < 6.3461] w=0.0556 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)F41.CB) [> 4.0286 = 6.7143 < 8.7286] w=0.0556 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)C122.CB) [> 4.2943 = 7.1572 < 9.3043] w=0.0554 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)Y156.CB) [> 4.4126 = 7.3543 < 9.5606] w=0.0554 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)I68.CB) [> 3.2044 = 5.3406 < 6.9428] w=0.0551 to align # Constraint # added constraint: constraint((T0342)V83.CB, (T0342)Y125.CB) [> 4.3943 = 7.3239 < 9.5211] w=0.0545 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)M127.CB) [> 3.5137 = 5.8561 < 7.6130] w=0.0545 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)S56.CB) [> 3.6370 = 6.0616 < 7.8801] w=0.0544 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)L126.CB) [> 3.5007 = 5.8346 < 7.5849] w=0.0543 to align # Constraint # added constraint: constraint((T0342)L160.CB, (T0342)V172.CB) [> 3.5482 = 5.9137 < 7.6878] w=0.0541 to align # Constraint # added constraint: constraint((T0342)S24.CB, (T0342)P36.CB) [> 3.7654 = 6.2756 < 8.1583] w=0.0541 to align # Constraint # added constraint: constraint((T0342)E14.CB, (T0342)P36.CB) [> 4.3607 = 7.2679 < 9.4482] w=0.0539 to align # Constraint # added constraint: constraint((T0342)G66.CA, (T0342)V83.CB) [> 3.7883 = 6.3138 < 8.2079] w=0.0538 to align # Constraint # added constraint: constraint((T0342)G66.CA, (T0342)V82.CB) [> 4.1984 = 6.9973 < 9.0965] w=0.0538 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)D52.CB) [> 3.6678 = 6.1130 < 7.9469] w=0.0537 to align # Constraint # added constraint: constraint((T0342)C122.CB, (T0342)G146.CA) [> 3.9754 = 6.6256 < 8.6133] w=0.0535 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)L152.CB) [> 3.9583 = 6.5972 < 8.5764] w=0.0528 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)E109.CB) [> 4.2594 = 7.0989 < 9.2286] w=0.0527 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)S102.CB) [> 3.5695 = 5.9492 < 7.7340] w=0.0526 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)A147.CB) [> 3.6383 = 6.0638 < 7.8830] w=0.0523 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)G146.CA) [> 3.4811 = 5.8018 < 7.5423] w=0.0523 to align # Constraint # added constraint: constraint((T0342)G23.CA, (T0342)A44.CB) [> 4.5699 = 7.6165 < 9.9015] w=0.0523 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)A147.CB) [> 4.6785 = 7.7976 < 10.1368] w=0.0523 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)G146.CA) [> 2.8837 = 4.8061 < 6.2479] w=0.0523 to align # Constraint # added constraint: constraint((T0342)Q57.CB, (T0342)I71.CB) [> 3.0467 = 5.0778 < 6.6012] w=0.0516 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)W84.CB) [> 4.6224 = 7.7040 < 10.0152] w=0.0514 to align # Constraint # added constraint: constraint((T0342)L152.CB, (T0342)S173.CB) [> 3.6358 = 6.0597 < 7.8776] w=0.0514 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)V110.CB) [> 3.5558 = 5.9263 < 7.7042] w=0.0514 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)W84.CB) [> 4.1754 = 6.9591 < 9.0468] w=0.0514 to align # Constraint # added constraint: constraint((T0342)V9.CB, (T0342)F41.CB) [> 4.2139 = 7.0232 < 9.1302] w=0.0512 to align # Constraint # added constraint: constraint((T0342)T10.CB, (T0342)A38.CB) [> 4.7140 = 7.8567 < 10.2138] w=0.0512 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)G67.CA) [> 4.7017 = 7.8361 < 10.1869] w=0.0512 to align # Constraint # added constraint: constraint((T0342)C144.CB, (T0342)I176.CB) [> 4.4394 = 7.3989 < 9.6186] w=0.0512 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)V83.CB) [> 4.4067 = 7.3444 < 9.5477] w=0.0510 to align # Constraint # added constraint: constraint((T0342)G146.CA, (T0342)I163.CB) [> 3.5756 = 5.9594 < 7.7471] w=0.0506 to align # Constraint # added constraint: constraint((T0342)L33.CB, (T0342)C42.CB) [> 3.2802 = 5.4671 < 7.1072] w=0.0505 to align # Constraint # added constraint: constraint((T0342)S136.CB, (T0342)L154.CB) [> 3.9243 = 6.5405 < 8.5026] w=0.0505 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)T70.CB) [> 3.4053 = 5.6755 < 7.3782] w=0.0504 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)G81.CA) [> 3.8912 = 6.4854 < 8.4310] w=0.0502 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)G67.CA) [> 3.6983 = 6.1638 < 8.0130] w=0.0499 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)D52.CB) [> 3.7645 = 6.2741 < 8.1564] w=0.0485 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)D52.CB) [> 3.7150 = 6.1917 < 8.0492] w=0.0485 to align # Constraint # added constraint: constraint((T0342)V100.CB, (T0342)M127.CB) [> 3.3220 = 5.5367 < 7.1977] w=0.0480 to align # Constraint # added constraint: constraint((T0342)S124.CB, (T0342)Q157.CB) [> 4.0962 = 6.8270 < 8.8751] w=0.0469 to align # Constraint # added constraint: constraint((T0342)L26.CB, (T0342)K50.CB) [> 3.5534 = 5.9224 < 7.6991] w=0.0458 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)L18.CB) [> 4.4797 = 7.4661 < 9.7059] w=0.0456 to align # Constraint # added constraint: constraint((T0342)C122.CB, (T0342)Y168.CB) [> 4.7115 = 7.8525 < 10.2082] w=0.0456 to align # Constraint # added constraint: constraint((T0342)I71.CB, (T0342)L160.CB) [> 4.7764 = 7.9607 < 10.3489] w=0.0455 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)D48.CB) [> 3.0146 = 5.0243 < 6.5316] w=0.0447 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)C122.CB) [> 4.0703 = 6.7839 < 8.8190] w=0.0447 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)W84.CB) [> 2.3680 = 3.9467 < 5.1307] w=0.0447 to align # Constraint # added constraint: constraint((T0342)L18.CB, (T0342)V43.CB) [> 4.4982 = 7.4970 < 9.7461] w=0.0447 to align # Constraint # added constraint: constraint((T0342)S61.CB, (T0342)W84.CB) [> 3.8941 = 6.4902 < 8.4373] w=0.0447 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)L126.CB) [> 3.8819 = 6.4699 < 8.4108] w=0.0447 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)G81.CA) [> 4.2196 = 7.0327 < 9.1425] w=0.0447 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)W84.CB) [> 3.6988 = 6.1647 < 8.0141] w=0.0447 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)V107.CB) [> 4.4241 = 7.3735 < 9.5856] w=0.0328 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)E109.CB) [> 3.8243 = 6.3738 < 8.2859] w=0.0326 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)E109.CB) [> 2.6089 = 4.3481 < 5.6526] w=0.0326 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)E109.CB) [> 4.0475 = 6.7459 < 8.7696] w=0.0326 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)N166.CB) [> 3.8705 = 6.4509 < 8.3862] w=0.0321 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)N166.CB) [> 4.2544 = 7.0907 < 9.2179] w=0.0321 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)R123.CB) [> 4.5488 = 7.5813 < 9.8556] w=0.0321 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)R123.CB) [> 4.3135 = 7.1891 < 9.3458] w=0.0321 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)L126.CB) [> 4.5278 = 7.5463 < 9.8102] w=0.0321 to align # Constraint # added constraint: constraint((T0342)S61.CB, (T0342)M127.CB) [> 4.7215 = 7.8692 < 10.2300] w=0.0321 to align # Constraint # added constraint: constraint((T0342)T60.CB, (T0342)Y130.CB) [> 4.7824 = 7.9707 < 10.3619] w=0.0321 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)M127.CB) [> 4.7210 = 7.8683 < 10.2287] w=0.0321 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)E109.CB) [> 2.8276 = 4.7127 < 6.1265] w=0.0320 to align # Constraint # added constraint: constraint((T0342)L126.CB, (T0342)A147.CB) [> 3.7318 = 6.2197 < 8.0857] w=0.0319 to align # Constraint # added constraint: constraint((T0342)V79.CB, (T0342)V107.CB) [> 3.5883 = 5.9804 < 7.7745] w=0.0317 to align # Constraint # added constraint: constraint((T0342)V82.CB, (T0342)Y125.CB) [> 3.3055 = 5.5092 < 7.1619] w=0.0317 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)R123.CB) [> 3.2296 = 5.3826 < 6.9974] w=0.0317 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)V79.CB) [> 4.3309 = 7.2181 < 9.3836] w=0.0310 to align # Constraint # added constraint: constraint((T0342)M145.CB, (T0342)Y168.CB) [> 3.2068 = 5.3447 < 6.9481] w=0.0287 to align # Constraint # added constraint: constraint((T0342)K148.CB, (T0342)Y168.CB) [> 2.6616 = 4.4361 < 5.7669] w=0.0287 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)E109.CB) [> 4.4461 = 7.4102 < 9.6333] w=0.0285 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)E109.CB) [> 4.5261 = 7.5435 < 9.8065] w=0.0285 to align # Constraint # added constraint: constraint((T0342)V9.CB, (T0342)P36.CB) [> 4.2698 = 7.1163 < 9.2512] w=0.0278 to align # Constraint # added constraint: constraint((T0342)V9.CB, (T0342)N35.CB) [> 2.0777 = 3.4629 < 4.5017] w=0.0278 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)V110.CB) [> 4.3978 = 7.3297 < 9.5286] w=0.0278 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)E109.CB) [> 4.2973 = 7.1621 < 9.3107] w=0.0278 to align # Constraint # added constraint: constraint((T0342)G5.CA, (T0342)Y19.CB) [> 4.6152 = 7.6920 < 9.9997] w=0.0278 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)Y19.CB) [> 3.1207 = 5.2012 < 6.7616] w=0.0278 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)S37.CB) [> 4.5998 = 7.6663 < 9.9663] w=0.0278 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)I68.CB) [> 3.5443 = 5.9071 < 7.6793] w=0.0278 to align # Constraint # added constraint: constraint((T0342)C6.CB, (T0342)T70.CB) [> 4.3688 = 7.2813 < 9.4657] w=0.0278 to align # Constraint # added constraint: constraint((T0342)K7.CB, (T0342)F17.CB) [> 3.0219 = 5.0365 < 6.5474] w=0.0278 to align # Constraint # added constraint: constraint((T0342)D8.CB, (T0342)F17.CB) [> 2.0799 = 3.4665 < 4.5064] w=0.0278 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)C122.CB) [> 4.5132 = 7.5220 < 9.7786] w=0.0278 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)R123.CB) [> 2.5962 = 4.3270 < 5.6252] w=0.0278 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)C122.CB) [> 3.4203 = 5.7005 < 7.4106] w=0.0278 to align # Constraint # added constraint: constraint((T0342)G81.CA, (T0342)R123.CB) [> 3.7620 = 6.2700 < 8.1511] w=0.0278 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)E109.CB) [> 2.5133 = 4.1887 < 5.4454] w=0.0278 to align # Constraint # added constraint: constraint((T0342)T60.CB, (T0342)G81.CA) [> 3.2648 = 5.4413 < 7.0737] w=0.0278 to align # Constraint # added constraint: constraint((T0342)A69.CB, (T0342)R123.CB) [> 4.3241 = 7.2068 < 9.3688] w=0.0278 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)Y125.CB) [> 3.1017 = 5.1695 < 6.7204] w=0.0278 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)S124.CB) [> 4.4935 = 7.4892 < 9.7360] w=0.0278 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)S124.CB) [> 4.4034 = 7.3390 < 9.5407] w=0.0278 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V79.CB) [> 3.3394 = 5.5656 < 7.2353] w=0.0278 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)V79.CB) [> 4.2494 = 7.0823 < 9.2069] w=0.0278 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)T63.CB) [> 3.1069 = 5.1782 < 6.7317] w=0.0278 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)T60.CB) [> 3.6253 = 6.0422 < 7.8548] w=0.0278 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)F41.CB) [> 4.4522 = 7.4203 < 9.6464] w=0.0278 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)C42.CB) [> 3.2351 = 5.3918 < 7.0093] w=0.0278 to align # Constraint # added constraint: constraint((T0342)Y22.CB, (T0342)V43.CB) [> 4.1776 = 6.9626 < 9.0514] w=0.0278 to align # Constraint # added constraint: constraint((T0342)N25.CB, (T0342)F41.CB) [> 4.0851 = 6.8084 < 8.8510] w=0.0278 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)M127.CB) [> 3.3076 = 5.5127 < 7.1665] w=0.0276 to align # Constraint # added constraint: constraint((T0342)F41.CB, (T0342)L126.CB) [> 4.7063 = 7.8438 < 10.1969] w=0.0276 to align # Constraint # added constraint: constraint((T0342)T60.CB, (T0342)I71.CB) [> 4.6327 = 7.7211 < 10.0375] w=0.0276 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)V110.CB) [> 3.8750 = 6.4583 < 8.3958] w=0.0276 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)C122.CB) [> 3.7241 = 6.2069 < 8.0689] w=0.0271 to align # Constraint # added constraint: constraint((T0342)E109.CB, (T0342)L154.CB) [> 3.6626 = 6.1043 < 7.9355] w=0.0264 to align # Constraint # added constraint: constraint((T0342)V110.CB, (T0342)M127.CB) [> 4.6766 = 7.7944 < 10.1327] w=0.0264 to align # Constraint # added constraint: constraint((T0342)I68.CB, (T0342)V110.CB) [> 4.7696 = 7.9494 < 10.3342] w=0.0261 to align # Constraint # added constraint: constraint((T0342)C42.CB, (T0342)V110.CB) [> 4.1102 = 6.8503 < 8.9054] w=0.0253 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)V110.CB) [> 4.1789 = 6.9648 < 9.0543] w=0.0253 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V110.CB) [> 3.3222 = 5.5369 < 7.1980] w=0.0253 to align # Constraint # added constraint: constraint((T0342)L46.CB, (T0342)E109.CB) [> 4.6724 = 7.7874 < 10.1236] w=0.0253 to align # Constraint # added constraint: constraint((T0342)G67.CA, (T0342)G81.CA) [> 4.5467 = 7.5778 < 9.8511] w=0.0253 to align # Constraint # added constraint: constraint((T0342)D48.CB, (T0342)V79.CB) [> 1.6181 = 2.6968 < 3.5058] w=0.0253 to align # Constraint # added constraint: constraint((T0342)T10.CB, (T0342)S124.CB) [> 3.8130 = 6.3550 < 8.2614] w=0.0240 to align # Constraint # added constraint: constraint((T0342)W84.CB, (T0342)M127.CB) [> 4.5177 = 7.5295 < 9.7883] w=0.0228 to align # Constraint # added constraint: constraint((T0342)L51.CB, (T0342)W84.CB) [> 2.3203 = 3.8671 < 5.0273] w=0.0223 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)V83.CB) [> 3.6597 = 6.0995 < 7.9293] w=0.0223 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)C122.CB) [> 4.2161 = 7.0268 < 9.1348] w=0.0223 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)R123.CB) [> 4.6833 = 7.8055 < 10.1471] w=0.0223 to align # Constraint # added constraint: constraint((T0342)D52.CB, (T0342)S124.CB) [> 2.5160 = 4.1933 < 5.4513] w=0.0223 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)V82.CB) [> 2.6243 = 4.3738 < 5.6859] w=0.0223 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)V83.CB) [> 4.1152 = 6.8586 < 8.9162] w=0.0223 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)W84.CB) [> 3.7390 = 6.2316 < 8.1011] w=0.0223 to align # Constraint # added constraint: constraint((T0342)F53.CB, (T0342)S124.CB) [> 3.5607 = 5.9345 < 7.7149] w=0.0223 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)L51.CB) [> 4.4760 = 7.4600 < 9.6980] w=0.0223 to align # Constraint # added constraint: constraint((T0342)Y19.CB, (T0342)D52.CB) [> 3.9564 = 6.5939 < 8.5721] w=0.0223 to align # Constraint # added constraint: constraint((T0342)F20.CB, (T0342)L51.CB) [> 2.6602 = 4.4337 < 5.7638] w=0.0223 to align # Constraint # added constraint: constraint((T0342)A44.CB, (T0342)V107.CB) [> 4.2958 = 7.1597 < 9.3076] w=0.0064 to align # Constraint # added constraint: constraint((T0342)T70.CB, (T0342)V107.CB) [> 3.3334 = 5.5557 < 7.2224] w=0.0064 to align # Constraint # added constraint: constraint((T0342)V43.CB, (T0342)V107.CB) [> 3.3812 = 5.6353 < 7.3260] w=0.0032 to align # Constraint # added constraint: constraint((T0342)K50.CB, (T0342)E109.CB) [> 3.6242 = 6.0403 < 7.8523] w=0.0032 to align # SetCost created cost = # ( 1.0000 * align ) # command:# Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/constraints_v3/T0342/ # command:# reading script from file servers-clean.under # Prefix for input files set to /projects/compbio/experiments/protein-predict/casp7/T0342/decoys/ # ReadConformPDB reading from PDB file chimera-19-1.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-22-2.pdb.gz looking for model 1 # Found a chain break before 145 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-22-shifted.pdb.gz looking for model 1 # Found a chain break before 169 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-23-shifted4-2.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-35-2-2.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-35-2.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file chimera-39-1.pdb.gz looking for model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-1v30-24-shifted.pdb.gz looking for chain 'A' model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-1v30-24-shifted # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-1v30-24-shifted3.pdb.gz looking for chain 'A' model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-1v30-24-shifted3 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-1v30-24-shifted4-repack.pdb.gz looking for chain 'A' model 1 # Found a chain break before 154 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-1v30-24-shifted4-repack # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-1v30-24-shifted4.pdb.gz looking for chain 'A' model 1 # Found a chain break before 164 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-1v30-24-shifted4 # ReadConformPDB reading from PDB file ../dimer/decoys/dimer-1v30-chimera-22-2.pdb.gz looking for chain 'A' model 1 # Found a chain break before 145 # copying to AlignedFragments data structure # naming current conformation dimer//dimer-1v30-chimera-22-2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS1.pdb.gz looking for model 1 # Found a chain break before 164 # 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 # Found a chain break before 169 # 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 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_POPULUS_TS3 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_POPULUS_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_POPULUS_TS5.pdb.gz looking for model 1 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_POPULUS_TS5 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_RECOM_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_RECOM_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS1 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS2 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 # Found a chain break before 183 # copying to AlignedFragments data structure # naming current conformation 3D-JIGSAW_TS4 # ReadConformPDB reading from PDB file servers/3D-JIGSAW_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation 3D-JIGSAW_TS5 # ReadConformPDB reading from PDB file servers/3Dpro_TS1.pdb.gz looking for model 1 # Found a chain break before 169 # 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 147 # 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 117 # 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 135 # 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 120 # 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 186 # 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 186 # 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 174 # 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 176 # 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 186 # 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 161 # 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 72 # 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 160 # 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 123 # 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 101 # copying to AlignedFragments data structure # naming current conformation Bilab-ENABLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS1 # ReadConformPDB reading from PDB file servers/CIRCLE_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS3 # ReadConformPDB reading from PDB file servers/CIRCLE_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS4 # ReadConformPDB reading from PDB file servers/CIRCLE_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CIRCLE_TS5 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS1 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS2 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS3 # ReadConformPDB reading from PDB file servers/CaspIta-FOX_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation CaspIta-FOX_TS4 # ReadConformPDB reading from PDB file servers/Distill_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 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 T0342 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation Distill_TS5 # ReadConformPDB reading from PDB file servers/FAMSD_TS1.pdb.gz looking for model 1 # Found a chain break before 172 # copying to AlignedFragments data structure # naming current conformation FAMSD_TS1 # ReadConformPDB reading from PDB file servers/FAMSD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMSD_TS2 # ReadConformPDB reading from PDB file servers/FAMSD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMSD_TS3 # ReadConformPDB reading from PDB file servers/FAMSD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMSD_TS4 # ReadConformPDB reading from PDB file servers/FAMSD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMSD_TS5 # ReadConformPDB reading from PDB file servers/FAMS_TS1.pdb.gz looking for model 1 # Found a chain break before 176 # 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 187 # copying to AlignedFragments data structure # naming current conformation FAMS_TS2 # ReadConformPDB reading from PDB file servers/FAMS_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMS_TS3 # ReadConformPDB reading from PDB file servers/FAMS_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMS_TS4 # ReadConformPDB reading from PDB file servers/FAMS_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FAMS_TS5 # ReadConformPDB reading from PDB file servers/FOLDpro_TS1.pdb.gz looking for model 1 # Found a chain break before 186 # 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 186 # 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 152 # 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 130 # 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 158 # 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation FORTE1_AL2 # ReadConformPDB reading from PDB file servers/FORTE1_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation FORTE1_AL4 # ReadConformPDB reading from PDB file servers/FORTE1_AL5.pdb.gz looking for model 1 Skipped atom 298, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 300, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 302, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 304, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 362, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 364, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 366, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz Skipped atom 368, because occupancy 1.000 <= existing 1.000 in servers/FORTE1_AL5.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FORTE1_AL5 # ReadConformPDB reading from PDB file servers/FORTE2_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation FORTE2_AL2 # ReadConformPDB reading from PDB file servers/FORTE2_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation FORTE2_AL4 # ReadConformPDB reading from PDB file servers/FORTE2_AL5.pdb.gz looking for model 1 Skipped atom 298, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 300, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 302, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 304, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 362, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 364, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 366, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz Skipped atom 368, because occupancy 1.000 <= existing 1.000 in servers/FORTE2_AL5.pdb.gz # WARNING: incomplete conformation T0342 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 187 # 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 187 # 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 82 # 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 132 # 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 135 # copying to AlignedFragments data structure # naming current conformation FPSOLVER-SERVER_TS5 # ReadConformPDB reading from PDB file servers/FUGMOD_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS1 # ReadConformPDB reading from PDB file servers/FUGMOD_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS2 # ReadConformPDB reading from PDB file servers/FUGMOD_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation FUGMOD_TS3 # ReadConformPDB reading from PDB file servers/FUGMOD_TS4.pdb.gz looking for model 1 # Found a chain break before 147 # 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 166 # 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 T0342 can't currently be optimized by undertaker # naming current conformation FUGUE_AL1 # ReadConformPDB reading from PDB file servers/FUGUE_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 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 T0342 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 T0342 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 170 # 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 185 # 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 168 # 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 187 # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS4 # ReadConformPDB reading from PDB file servers/FUNCTION_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation FUNCTION_TS5 # ReadConformPDB reading from PDB file servers/Frankenstein_TS1.pdb.gz looking for model 1 # Found a chain break before 165 # copying to AlignedFragments data structure # naming current conformation Frankenstein_TS1 # ReadConformPDB reading from PDB file servers/Frankenstein_TS2.pdb.gz looking for model 1 # naming current conformation Frankenstein_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS1 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS2 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS3 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS4 # ReadConformPDB reading from PDB file servers/GeneSilicoMetaServer_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation GeneSilicoMetaServer_TS5 # ReadConformPDB reading from PDB file servers/HHpred1_TS1.pdb.gz looking for model 1 # Found a chain break before 63 # 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 63 # 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 16 # 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 T0342 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS1 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation Huber-Torda-Server_TS2 # ReadConformPDB reading from PDB file servers/Huber-Torda-Server_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 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 T0342 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation LOOPP_TS2 # ReadConformPDB reading from PDB file servers/LOOPP_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation LOOPP_TS3 # ReadConformPDB reading from PDB file servers/LOOPP_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation LOOPP_TS4 # ReadConformPDB reading from PDB file servers/LOOPP_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation LOOPP_TS5 # ReadConformPDB reading from PDB file servers/MIG_FROST_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation MIG_FROST_AL1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS1.pdb.gz looking for model 1 # Found a chain break before 152 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS1 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS2.pdb.gz looking for model 1 # Found a chain break before 152 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS2 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS3.pdb.gz looking for model 1 # Found a chain break before 17 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS3 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS4.pdb.gz looking for model 1 # Found a chain break before 119 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS4 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server2_TS5.pdb.gz looking for model 1 # Found a chain break before 95 # copying to AlignedFragments data structure # naming current conformation Ma-OPUS-server2_TS5 # ReadConformPDB reading from PDB file servers/Ma-OPUS-server_TS1.pdb.gz looking for model 1 # Found a chain break before 104 # 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 124 # 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 155 # 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 151 # 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 17 # 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 186 # 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 187 # 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 186 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS3 # ReadConformPDB reading from PDB file servers/MetaTasser_TS4.pdb.gz looking for model 1 # Found a chain break before 187 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS4 # ReadConformPDB reading from PDB file servers/MetaTasser_TS5.pdb.gz looking for model 1 # Found a chain break before 184 # copying to AlignedFragments data structure # naming current conformation MetaTasser_TS5 # ReadConformPDB reading from PDB file servers/NN_PUT_lab_TS1.pdb.gz looking for model 1 WARNING: atom 1 has residue number 9 < previous residue 188 in servers/NN_PUT_lab_TS1.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation NN_PUT_lab_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS1.pdb.gz looking for model 1 # Found a chain break before 67 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS1 # ReadConformPDB reading from PDB file servers/POMYSL_TS2.pdb.gz looking for model 1 # Found a chain break before 170 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS2 # ReadConformPDB reading from PDB file servers/POMYSL_TS3.pdb.gz looking for model 1 # Found a chain break before 165 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS3 # ReadConformPDB reading from PDB file servers/POMYSL_TS4.pdb.gz looking for model 1 WARNING: atom 1 has residue number 2 < previous residue 188 in servers/POMYSL_TS4.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation POMYSL_TS4 # ReadConformPDB reading from PDB file servers/POMYSL_TS5.pdb.gz looking for model 1 # Found a chain break before 159 # copying to AlignedFragments data structure # naming current conformation POMYSL_TS5 # ReadConformPDB reading from PDB file servers/PROTINFO-AB_TS1.pdb.gz looking for model 1 # 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 # Found a chain break before 156 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS1 # ReadConformPDB reading from PDB file servers/PROTINFO_TS2.pdb.gz looking for model 1 # Found a chain break before 153 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS2 # ReadConformPDB reading from PDB file servers/PROTINFO_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS3 # ReadConformPDB reading from PDB file servers/PROTINFO_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation PROTINFO_TS4 # ReadConformPDB reading from PDB file servers/PROTINFO_TS5.pdb.gz looking for model 1 # Found a chain break before 136 # copying to AlignedFragments data structure # naming current conformation PROTINFO_TS5 # ReadConformPDB reading from PDB file servers/Pcons6_TS1.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS1 # ReadConformPDB reading from PDB file servers/Pcons6_TS2.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS2 # ReadConformPDB reading from PDB file servers/Pcons6_TS3.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS3 # ReadConformPDB reading from PDB file servers/Pcons6_TS4.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS4 # ReadConformPDB reading from PDB file servers/Pcons6_TS5.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pcons6_TS5 # ReadConformPDB reading from PDB file servers/Phyre-1_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation Phyre-1_TS1 # ReadConformPDB reading from PDB file servers/Phyre-2_TS1.pdb.gz looking for model 1 # Found a chain break before 181 # 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 164 # 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 # Found a chain break before 155 # 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 168 # 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 155 # 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 47 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS1 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS2.pdb.gz looking for model 1 # Found a chain break before 185 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS2 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS3.pdb.gz looking for model 1 # Found a chain break before 185 # 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 185 # copying to AlignedFragments data structure # naming current conformation Pmodeller6_TS4 # ReadConformPDB reading from PDB file servers/Pmodeller6_TS5.pdb.gz looking for model 1 # Found a chain break before 185 # 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 113 # 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 # naming current conformation RAPTOR-ACE_TS2 # ReadConformPDB reading from PDB file servers/RAPTOR-ACE_TS3.pdb.gz looking for model 1 # 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 103 # 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 121 # 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 136 # 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 164 # 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 181 # 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 185 # 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 184 # 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 65 # 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 134 # 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 134 # 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 113 # 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 36 # 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 155 # 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 145 # 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 155 # 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 157 # 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 47 # copying to AlignedFragments data structure # naming current conformation ROBETTA_TS5 # ReadConformPDB reading from PDB file servers/ROKKY_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS1 # ReadConformPDB reading from PDB file servers/ROKKY_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS2 # ReadConformPDB reading from PDB file servers/ROKKY_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS3 # ReadConformPDB reading from PDB file servers/ROKKY_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation ROKKY_TS4 # ReadConformPDB reading from PDB file servers/ROKKY_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL2 # ReadConformPDB reading from PDB file servers/SAM-T02_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation SAM-T02_AL4 # ReadConformPDB reading from PDB file servers/SAM-T99_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL2 # ReadConformPDB reading from PDB file servers/SAM-T99_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL3 # ReadConformPDB reading from PDB file servers/SAM-T99_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation SAM-T99_AL4 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS1.pdb.gz looking for model 1 # Found a chain break before 182 # 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS3 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation SAM_T06_server_TS4 # ReadConformPDB reading from PDB file servers/SAM_T06_server_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 103 # 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 139 # 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 30 # copying to AlignedFragments data structure # naming current conformation SP3_TS3 # ReadConformPDB reading from PDB file servers/SP3_TS4.pdb.gz looking for model 1 # naming current conformation SP3_TS4 # ReadConformPDB reading from PDB file servers/SP3_TS5.pdb.gz looking for model 1 # naming current conformation SP3_TS5 # ReadConformPDB reading from PDB file servers/SP4_TS1.pdb.gz looking for model 1 # Found a chain break before 105 # 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 103 # 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 22 # 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 165 # 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 132 # 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 103 # 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 34 # 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 22 # 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 36 # 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 162 # 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 T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS3 # ReadConformPDB reading from PDB file servers/UNI-EID_bnmx_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_bnmx_TS4 # ReadConformPDB reading from PDB file servers/UNI-EID_expm_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_expm_TS1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL1 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL3 # ReadConformPDB reading from PDB file servers/UNI-EID_sfst_AL4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation UNI-EID_sfst_AL4 # ReadConformPDB reading from PDB file servers/Zhang-Server_TS1.pdb.gz looking for model 1 # Found a chain break before 183 # 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 180 # 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 186 # 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 186 # 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 142 # 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 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation beautshot_TS1 # ReadConformPDB reading from PDB file servers/beautshotbase_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation beautshotbase_TS1 # ReadConformPDB reading from PDB file servers/forecast-s_AL1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation forecast-s_AL1 # ReadConformPDB reading from PDB file servers/forecast-s_AL2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation forecast-s_AL2 # ReadConformPDB reading from PDB file servers/forecast-s_AL3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 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 T0342 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 T0342 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 T0342 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 T0342 can't currently be optimized by undertaker # naming current conformation gtg_AL3 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS1.pdb.gz looking for model 1 # Found a chain break before 85 # 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 138 # 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 161 # 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 62 # copying to AlignedFragments data structure # naming current conformation karypis.srv.2_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv.2_TS5.pdb.gz looking for model 1 # naming current conformation karypis.srv.2_TS5 # ReadConformPDB reading from PDB file servers/karypis.srv_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS2 # ReadConformPDB reading from PDB file servers/karypis.srv_TS3.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS3 # ReadConformPDB reading from PDB file servers/karypis.srv_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS4 # ReadConformPDB reading from PDB file servers/karypis.srv_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation karypis.srv_TS5 # ReadConformPDB reading from PDB file servers/keasar-server_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation keasar-server_TS1 # ReadConformPDB reading from PDB file servers/keasar-server_TS2.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # 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 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # 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 44 # 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 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation keasar-server_TS5 # ReadConformPDB reading from PDB file servers/mGen-3D_TS1.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation mGen-3D_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS1.pdb.gz looking for model 1 WARNING: atom 1 has residue number 9 < previous residue 188 in servers/nFOLD_TS1.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation nFOLD_TS1 # ReadConformPDB reading from PDB file servers/nFOLD_TS2.pdb.gz looking for model 1 WARNING: atom 1 has residue number 14 < previous residue 188 in servers/nFOLD_TS2.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation nFOLD_TS2 # ReadConformPDB reading from PDB file servers/nFOLD_TS3.pdb.gz looking for model 1 WARNING: atom 1 has residue number 1 < previous residue 151 in servers/nFOLD_TS3.pdb.gz WARNING: atom 1 has residue number 9 < previous residue 188 in servers/nFOLD_TS3.pdb.gz # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation nFOLD_TS3 # ReadConformPDB reading from PDB file servers/nFOLD_TS4.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # copying to AlignedFragments data structure # naming current conformation nFOLD_TS4 # ReadConformPDB reading from PDB file servers/nFOLD_TS5.pdb.gz looking for model 1 # WARNING: incomplete conformation T0342 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 T0342 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 # WARNING: incomplete conformation T0342 can't currently be optimized by undertaker # naming current conformation shub_TS1 # command:Using radius: 8.0000 Using models AND alignments for constraints model score 0.2594 model score 0.2548 model score 0.2452 model score 0.2718 model score 0.2158 model score 0.2150 model score 0.2395 model score 0.2893 model score 0.2777 model score 0.2679 model score 0.2749 model score 0.2548 model score 1.6244 model score 0.8342 model score 1.4142 model score 1.0022 model score 1.5833 model score 0.3616 model score 0.3571 model score 0.3572 model score 1.9240 model score 1.7377 model score 2.0656 model score 1.9931 model score 0.2777 model score 0.7703 model score 0.2230 model score 0.4953 model score 0.6727 model score 0.9466 model score 0.9829 model score 1.0514 model score 0.9663 model score 0.9276 model score 0.2445 model score 0.6232 model score 2.0441 model score 0.4732 model score 0.2791 model score 0.3164 model score 0.2425 model score 0.2516 model score 0.2433 model score 0.2527 model score 0.2882 model score 1.1891 model score 1.3664 model score 1.4217 model score 1.2761 model score 1.2744 model score 1.2757 model score 1.2760 model score 1.2757 model score 0.2577 model score 0.2474 model score 0.3309 model score 0.2499 model score 0.3447 model score 0.2696 model score 0.3820 model score 0.2516 model score 0.2425 model score 0.2474 model score 0.2301 model score 0.4474 model score 0.3685 model score 0.7163 model score 0.8585 model score 1.2749 model score 1.2735 model score 1.2737 model score 1.2737 model score 1.2788 model score 1.2749 model score 1.2735 model score 1.2737 model score 1.2737 model score 1.2788 model score 2.3000 model score 2.4414 model score 2.3112 model score 2.2244 model score 2.4431 model score 0.2492 model score 0.5537 model score 0.8042 model score 2.1378 model score 1.9496 model score 1.2749 model score 1.2736 model score 1.2735 model score 1.2783 model score 1.2782 model score 0.2833 model score 0.3507 model score 0.4025 model score 0.3820 model score 1.8913 model score 1.8081 model score 2.4415 model score 0.2517 model score 0.2426 model score 0.2734 model score 0.2110 model score 0.5315 model score 0.2846 model score 0.2846 model score 0.2625 model score 1.3398 model score 1.8546 model score 1.5768 model score 1.4562 model score 1.4611 model score 0.3120 model score 0.5239 model score 1.1448 model score 0.9732 model score 1.1582 model score 1.2745 model score 1.2787 model score 1.2505 model score 0.5587 model score 1.6532 model score 1.8377 model score 1.6647 model score 1.7206 model score 1.9141 model score 1.3501 model score 0.5587 model score 0.2397 model score 0.2333 model score 0.2324 model score 0.2287 model score 0.2491 model score 0.2579 model score 2.1536 model score 2.3489 model score 1.6508 model score 1.5354 model score 1.9900 model score 0.3086 model score 0.3119 model score 0.3111 model score 0.3114 model score 0.3098 model score 0.3112 model score 0.3235 model score 0.5576 model score 0.6949 model score 0.3184 model score 0.2889 model score 0.2994 model score 0.2932 model score 0.5034 model score 0.4554 model score 0.4329 model score 0.3133 model score 0.3199 model score 0.3178 model score 0.3132 model score 0.3103 model score 0.2730 model score 0.3853 model score 0.2889 model score 0.2685 model score 0.4732 model score 0.2795 model score 0.2672 model score 0.3454 model score 0.3014 model score 0.6025 model score 0.3449 model score 0.2793 model score 0.9626 model score 0.4864 model score 0.5338 model score 0.3169 model score 0.2572 model score 0.9780 model score 0.4743 model score 0.5185 model score 0.2698 model score 0.3651 model score 0.3410 model score 0.3688 model score 0.2730 model score 0.5131 model score 0.4825 model score 0.4842 model score 0.5260 model score 0.4999 model score 1.2749 model score 1.2770 model score 1.2736 model score 1.2737 model score 1.2749 model score 1.2735 model score 1.2737 model score 1.2737 model score 0.2584 model score 0.1999 model score 0.2307 model score 0.2899 model score 0.5009 model score 0.3014 model score 0.8432 model score 0.5672 model score 0.4038 model score 1.3304 model score 0.3941 model score 0.3196 model score 0.3150 model score 0.4348 model score 1.2366 model score 0.2957 model score 0.3857 model score 0.3245 model score 0.3767 model score 1.2168 model score 1.2749 model score 1.2737 model score 1.2737 model score 1.2737 model score 0.2030 model score 1.2749 model score 1.2737 model score 1.2737 model score 1.2737 model score 0.2161 model score 0.2202 model score 0.1985 model score 0.2178 model score 0.2302 model score 0.2518 model score 0.2326 model score 1.2771 model score 1.2771 model score 1.2773 model score 1.2771 model score 1.2771 model score 1.2737 model score 1.2737 model score 1.2735 model score 2.0879 model score 1.9834 model score 1.1030 model score 1.7493 model score 1.9392 model score 1.5365 model score 1.0604 model score 1.0969 model score 1.0220 model score 1.4681 model score 0.2924 model score 0.3235 model score 0.8645 model score 0.2809 model score 1.0130 model score 0.2345 model score 0.2579 model score 0.7581 model score 0.5522 model score 2.5369 model score 1.9700 model score 0.8156 model score 0.2816 USE_META, weight: 0.9766 cost: 0.2594 min: 0.1985 max: 2.5369 USE_META, weight: 0.9783 cost: 0.2548 min: 0.1985 max: 2.5369 USE_META, weight: 0.9820 cost: 0.2452 min: 0.1985 max: 2.5369 USE_META, weight: 0.9718 cost: 0.2718 min: 0.1985 max: 2.5369 USE_META, weight: 0.9933 cost: 0.2158 min: 0.1985 max: 2.5369 USE_META, weight: 0.9936 cost: 0.2150 min: 0.1985 max: 2.5369 USE_META, weight: 0.9842 cost: 0.2395 min: 0.1985 max: 2.5369 USE_META, weight: 0.9650 cost: 0.2893 min: 0.1985 max: 2.5369 USE_META, weight: 0.9695 cost: 0.2777 min: 0.1985 max: 2.5369 USE_META, weight: 0.9733 cost: 0.2679 min: 0.1985 max: 2.5369 USE_META, weight: 0.9706 cost: 0.2749 min: 0.1985 max: 2.5369 USE_META, weight: 0.9783 cost: 0.2548 min: 0.1985 max: 2.5369 USE_META, weight: 0.4512 cost: 1.6244 min: 0.1985 max: 2.5369 USE_META, weight: 0.7553 cost: 0.8342 min: 0.1985 max: 2.5369 USE_META, weight: 0.5321 cost: 1.4142 min: 0.1985 max: 2.5369 USE_META, weight: 0.6907 cost: 1.0022 min: 0.1985 max: 2.5369 USE_META, weight: 0.4670 cost: 1.5833 min: 0.1985 max: 2.5369 USE_META, weight: 0.9372 cost: 0.3616 min: 0.1985 max: 2.5369 USE_META, weight: 0.9390 cost: 0.3571 min: 0.1985 max: 2.5369 USE_META, weight: 0.9389 cost: 0.3572 min: 0.1985 max: 2.5369 USE_META, weight: 0.3359 cost: 1.9240 min: 0.1985 max: 2.5369 USE_META, weight: 0.4076 cost: 1.7377 min: 0.1985 max: 2.5369 USE_META, weight: 0.2814 cost: 2.0656 min: 0.1985 max: 2.5369 USE_META, weight: 0.3093 cost: 1.9931 min: 0.1985 max: 2.5369 USE_META, weight: 0.9695 cost: 0.2777 min: 0.1985 max: 2.5369 USE_META, weight: 0.7799 cost: 0.7703 min: 0.1985 max: 2.5369 USE_META, weight: 0.9906 cost: 0.2230 min: 0.1985 max: 2.5369 USE_META, weight: 0.8858 cost: 0.4953 min: 0.1985 max: 2.5369 USE_META, weight: 0.8175 cost: 0.6727 min: 0.1985 max: 2.5369 USE_META, weight: 0.7121 cost: 0.9466 min: 0.1985 max: 2.5369 USE_META, weight: 0.6981 cost: 0.9829 min: 0.1985 max: 2.5369 USE_META, weight: 0.6717 cost: 1.0514 min: 0.1985 max: 2.5369 USE_META, weight: 0.7045 cost: 0.9663 min: 0.1985 max: 2.5369 USE_META, weight: 0.7194 cost: 0.9276 min: 0.1985 max: 2.5369 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USE_META, weight: 0.9861 cost: 0.2345 min: 0.1985 max: 2.5369 USE_META, weight: 0.9771 cost: 0.2579 min: 0.1985 max: 2.5369 USE_META, weight: 0.7846 cost: 0.7581 min: 0.1985 max: 2.5369 USE_META, weight: 0.8638 cost: 0.5522 min: 0.1985 max: 2.5369 USE_META, weight: 0.1000 cost: 2.5369 min: 0.1985 max: 2.5369 USE_META, weight: 0.3182 cost: 1.9700 min: 0.1985 max: 2.5369 USE_META, weight: 0.7625 cost: 0.8156 min: 0.1985 max: 2.5369 USE_META, weight: 0.9680 cost: 0.2816 min: 0.1985 max: 2.5369 USE_EVALUE, weight: 0.8674 eval: 7.6175 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8674 eval: 7.6175 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8674 eval: 7.6175 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7872 eval: 12.2270 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7872 eval: 12.2270 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7872 eval: 12.2270 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8930 eval: 6.1490 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8930 eval: 6.1490 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8930 eval: 6.1490 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7105 eval: 16.6280 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7105 eval: 16.6280 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7105 eval: 16.6280 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.9885 eval: 0.6580 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.9885 eval: 0.6580 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.6961 eval: 17.4590 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.6961 eval: 17.4590 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.6961 eval: 17.4590 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7089 eval: 16.7210 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7089 eval: 16.7210 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7089 eval: 16.7210 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8227 eval: 10.1840 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8227 eval: 10.1840 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8227 eval: 10.1840 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7486 eval: 14.4420 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7486 eval: 14.4420 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7486 eval: 14.4420 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8440 eval: 8.9625 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8440 eval: 8.9625 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8440 eval: 8.9625 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7300 eval: 15.5120 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7300 eval: 15.5120 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7300 eval: 15.5120 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7980 eval: 11.6020 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7980 eval: 11.6020 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.7980 eval: 11.6020 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8006 eval: 11.4530 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8006 eval: 11.4530 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8006 eval: 11.4530 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8582 eval: 8.1455 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8582 eval: 8.1455 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8582 eval: 8.1455 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8659 eval: 7.7035 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8659 eval: 7.7035 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8659 eval: 7.7035 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8859 eval: 6.5557 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8859 eval: 6.5557 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8859 eval: 6.5557 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 1.0000 eval: 0.0000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.1000 eval: 51.7000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.1000 eval: 51.7000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.1000 eval: 51.7000 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8143 eval: 10.6670 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8143 eval: 10.6670 min: 0.0000 max: 51.7000 USE_EVALUE, weight: 0.8143 eval: 10.6670 min: 0.0000 max: 51.7000 Number of contacts in models: 266 Number of contacts in alignments: 62 NUMB_ALIGNS: 62 Adding 11188 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: -341.5160, CN propb: -341.5160 weights: 0.2358 constraints: 776 # command:Found ConstraintSet # PrintContacts align.constraints_meta03 Number of constraints in align3.constraints 776 # command:Found ConstraintSet # PrintContacts align_bonus.constraints_meta03 Number of constraints in align3.constraints.bonus 776 # command:Found ConstraintSet # PrintContacts rejected.constraints_meta03 Number of constraints in rejected3.constraints 10412 # command:Found ConstraintSet # PrintContacts rejected_bonus.constraints_meta03 Number of constraints in rejected3.constraints.bonus 10412 # 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 11188 # command: