# This file is the result of combining several RDB files, specifically # T0316.t06.dssp-ebghstl.rdb (weight 1.53986) # T0316.t06.stride-ebghtl.rdb (weight 1.24869) # T0316.t06.str2.rdb (weight 1.54758) # T0316.t06.alpha.rdb (weight 0.659012) # These files were combined by translating their predictions into EHL # predictions with tables generated by compare-real, and then combining # those predictions with weights proportional to their mutual information # with the EHL alphabet. The comments from the individual files follow. # # Comments from T0316.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0316 # Using neural net t06-IDGaaH13-3-13-7-13-9-13-11-ebghstl-dssp-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0316.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 12.7818 # # ============================================ # Comments from T0316.t06.stride-ebghtl.rdb # ============================================ # TARGET T0316 # Using neural net t06-IDGaaH13-3-13-7-13-9-13-11-ebghtl-stride-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0316.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 12.7818 # # ============================================ # Comments from T0316.t06.str2.rdb # ============================================ # TARGET T0316 # Using neural net t06-IDGaaH13-3-13-7-13-9-13-11-str2-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0316.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 12.7818 # # ============================================ # Comments from T0316.t06.alpha.rdb # ============================================ # TARGET T0316 # Using neural net t06-IDGaaH13-3-13-7-13-9-13-11-alpha-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0316.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 12.7818 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 D 0.0747 0.0557 0.8695 2 Y 0.4293 0.0496 0.5212 3 V 0.6526 0.0444 0.3030 4 A 0.6427 0.0386 0.3187 5 T 0.4967 0.0652 0.4381 6 G 0.3904 0.0707 0.5390 7 H 0.5641 0.0717 0.3642 8 Y 0.7514 0.0525 0.1961 9 A 0.8389 0.0278 0.1333 10 R 0.8603 0.0258 0.1139 11 V 0.8630 0.0188 0.1182 12 A 0.8310 0.0163 0.1527 13 R 0.7283 0.0251 0.2466 14 D 0.2713 0.0373 0.6914 15 E 0.0403 0.1190 0.8406 16 D 0.0485 0.0294 0.9221 17 G 0.0700 0.0308 0.8991 18 T 0.3920 0.0167 0.5913 19 V 0.8542 0.0054 0.1404 20 H 0.8725 0.0089 0.1186 21 M 0.8828 0.0111 0.1062 22 L 0.8376 0.0227 0.1397 23 R 0.7601 0.0268 0.2131 24 G 0.5832 0.0458 0.3709 25 V 0.4185 0.0598 0.5217 26 D 0.2180 0.0550 0.7270 27 N 0.0437 0.1055 0.8509 28 G 0.0363 0.0748 0.8890 29 K 0.0959 0.1087 0.7954 30 D 0.1760 0.1052 0.7187 31 Q 0.2495 0.4483 0.3022 32 T 0.3413 0.5084 0.1503 33 Y 0.3161 0.5827 0.1013 34 F 0.2717 0.6250 0.1034 35 L 0.2574 0.5641 0.1784 36 S 0.2070 0.4573 0.3357 37 Q 0.1507 0.3070 0.5423 38 L 0.1219 0.0780 0.8002 39 S 0.0709 0.0453 0.8838 40 Q 0.0049 0.9257 0.0694 41 E 0.0048 0.9388 0.0564 42 Q 0.0051 0.9358 0.0591 43 L 0.0065 0.9192 0.0744 44 Q 0.0099 0.8566 0.1335 45 K 0.0210 0.6974 0.2817 46 T 0.0708 0.5195 0.4097 47 M 0.1592 0.3007 0.5401 48 F 0.1576 0.0892 0.7532 49 P 0.1508 0.1071 0.7422 50 L 0.0777 0.3274 0.5949 51 G 0.0554 0.2674 0.6772 52 H 0.0584 0.2344 0.7072 53 L 0.0895 0.1176 0.7929 54 E 0.0709 0.0688 0.8603 55 K 0.0215 0.6648 0.3137 56 P 0.0051 0.9348 0.0601 57 E 0.0048 0.9495 0.0457 58 V 0.0048 0.9554 0.0398 59 R 0.0047 0.9600 0.0354 60 R 0.0047 0.9600 0.0354 61 L 0.0047 0.9603 0.0350 62 A 0.0047 0.9597 0.0356 63 E 0.0048 0.9511 0.0441 64 E 0.0054 0.9103 0.0843 65 A 0.0435 0.4603 0.4962 66 G 0.0411 0.0246 0.9344 67 L 0.0743 0.0168 0.9088 68 S 0.1373 0.0813 0.7814 69 T 0.2887 0.1710 0.5403 70 A 0.2387 0.1560 0.6053 71 K 0.2149 0.1158 0.6693 72 K 0.1590 0.1069 0.7341 73 K 0.1069 0.1892 0.7040 74 D 0.1090 0.1769 0.7141 75 S 0.2244 0.0986 0.6771 76 T 0.1983 0.0867 0.7149 77 G 0.3822 0.0455 0.5722 78 I 0.7186 0.0144 0.2670 79 C 0.8299 0.0124 0.1577 80 F 0.7956 0.0141 0.1904 81 I 0.5695 0.0257 0.4048 82 G 0.2189 0.0359 0.7452 83 E 0.0800 0.1539 0.7662 84 K 0.0647 0.2502 0.6850 85 N 0.1011 0.2512 0.6477 86 F 0.0134 0.8634 0.1233 87 K 0.0055 0.9316 0.0629 88 N 0.0052 0.9388 0.0560 89 F 0.0055 0.9400 0.0545 90 L 0.0073 0.9220 0.0707 91 S 0.0083 0.8751 0.1166 92 N 0.0109 0.7455 0.2436 93 Y 0.0328 0.5381 0.4291 94 L 0.0830 0.0753 0.8417 95 P 0.0721 0.0676 0.8602 96 A 0.1113 0.0631 0.8256 97 Q 0.1012 0.0244 0.8744 98 P 0.0746 0.0609 0.8645 99 G 0.1387 0.0385 0.8227 100 R 0.5158 0.0229 0.4613 101 M 0.8134 0.0077 0.1789 102 M 0.8312 0.0076 0.1612 103 T 0.7026 0.0074 0.2900 104 V 0.3383 0.0799 0.5818 105 D 0.0659 0.0315 0.9027 106 G 0.0814 0.0384 0.8802 107 R 0.3971 0.0287 0.5742 108 D 0.7813 0.0146 0.2040 109 M 0.6904 0.0497 0.2599 110 G 0.6278 0.0517 0.3206 111 E 0.5902 0.0634 0.3465 112 H 0.5092 0.0693 0.4215 113 A 0.3009 0.0847 0.6144 114 G 0.3010 0.0669 0.6321 115 L 0.5653 0.0712 0.3635 116 M 0.7456 0.0613 0.1931 117 Y 0.7639 0.0682 0.1679 118 Y 0.6956 0.0716 0.2328 119 T 0.5548 0.0844 0.3608 120 I 0.3368 0.2573 0.4059 121 G 0.2889 0.2210 0.4902 122 Q 0.2791 0.2570 0.4639 123 R 0.2252 0.2838 0.4910 124 G 0.1299 0.2154 0.6547 125 G 0.1379 0.1468 0.7154 126 L 0.2193 0.1116 0.6691 127 G 0.2386 0.0767 0.6846 128 I 0.2295 0.0956 0.6749 129 G 0.1570 0.0890 0.7540 130 G 0.1198 0.0902 0.7900 131 Q 0.1315 0.0915 0.7769 132 H 0.1117 0.0875 0.8008 133 G 0.0689 0.0690 0.8621 134 G 0.0628 0.0646 0.8726 135 D 0.0857 0.0660 0.8482 136 N 0.0977 0.0530 0.8493 137 A 0.1905 0.0203 0.7891 138 P 0.3541 0.0154 0.6306 139 W 0.7236 0.0147 0.2617 140 F 0.8902 0.0081 0.1017 141 V 0.8998 0.0082 0.0920 142 V 0.8073 0.0331 0.1596 143 G 0.5639 0.0285 0.4076 144 K 0.3763 0.0426 0.5812 145 D 0.2677 0.0313 0.7010 146 L 0.0755 0.2146 0.7099 147 S 0.0466 0.1700 0.7835 148 K 0.0382 0.0546 0.9072