# This file is the result of combining several RDB files, specifically # T0369.t06.dssp-ebghstl.rdb (weight 1.53986) # T0369.t06.stride-ebghtl.rdb (weight 1.24869) # T0369.t06.str2.rdb (weight 1.54758) # T0369.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 T0369.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0369 # 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 T0369.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 142 # # ============================================ # Comments from T0369.t06.stride-ebghtl.rdb # ============================================ # TARGET T0369 # 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 T0369.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 142 # # ============================================ # Comments from T0369.t06.str2.rdb # ============================================ # TARGET T0369 # 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 T0369.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 142 # # ============================================ # Comments from T0369.t06.alpha.rdb # ============================================ # TARGET T0369 # 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 T0369.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 142 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0424 0.0613 0.8963 2 T 0.0557 0.1885 0.7558 3 D 0.0672 0.3380 0.5948 4 W 0.0068 0.8802 0.1130 5 Q 0.0055 0.9312 0.0634 6 Q 0.0049 0.9442 0.0510 7 A 0.0048 0.9490 0.0462 8 L 0.0048 0.9494 0.0458 9 D 0.0049 0.9448 0.0503 10 R 0.0053 0.9282 0.0666 11 H 0.0060 0.9029 0.0911 12 V 0.0208 0.8623 0.1170 13 G 0.0096 0.8624 0.1280 14 V 0.0129 0.8742 0.1129 15 G 0.0121 0.8768 0.1111 16 V 0.0104 0.9048 0.0848 17 R 0.0079 0.9023 0.0898 18 T 0.0088 0.9022 0.0891 19 T 0.0053 0.9449 0.0498 20 R 0.0047 0.9555 0.0398 21 D 0.0050 0.9563 0.0387 22 L 0.0049 0.9510 0.0441 23 I 0.0050 0.9325 0.0625 24 R 0.0058 0.8047 0.1894 25 L 0.0117 0.4702 0.5181 26 I 0.0647 0.0487 0.8866 27 Q 0.0546 0.0109 0.9345 28 P 0.0068 0.7794 0.2138 29 E 0.0060 0.8070 0.1870 30 D 0.0086 0.8127 0.1786 31 W 0.0272 0.6335 0.3393 32 D 0.0382 0.4022 0.5597 33 K 0.0647 0.2607 0.6745 34 R 0.0871 0.0489 0.8640 35 P 0.0965 0.0596 0.8440 36 I 0.0934 0.0770 0.8296 37 S 0.0459 0.1503 0.8038 38 G 0.0325 0.1071 0.8604 39 K 0.0998 0.1232 0.7769 40 R 0.1384 0.1137 0.7479 41 S 0.1486 0.2136 0.6378 42 V 0.0048 0.9500 0.0452 43 Y 0.0047 0.9600 0.0353 44 E 0.0047 0.9594 0.0359 45 V 0.0047 0.9594 0.0359 46 A 0.0047 0.9590 0.0364 47 V 0.0047 0.9585 0.0368 48 H 0.0047 0.9579 0.0374 49 L 0.0047 0.9571 0.0381 50 A 0.0048 0.9550 0.0402 51 V 0.0053 0.9494 0.0453 52 L 0.0060 0.9377 0.0563 53 L 0.0100 0.9143 0.0758 54 E 0.0112 0.9113 0.0775 55 A 0.0190 0.8970 0.0840 56 D 0.0222 0.8866 0.0912 57 L 0.0440 0.8437 0.1123 58 R 0.0662 0.7834 0.1504 59 I 0.0665 0.7529 0.1806 60 A 0.0798 0.6349 0.2853 61 T 0.0612 0.3182 0.6206 62 G 0.0387 0.0854 0.8759 63 A 0.0945 0.0583 0.8473 64 T 0.1226 0.0691 0.8084 65 A 0.0470 0.5381 0.4149 66 D 0.0287 0.6801 0.2912 67 E 0.0199 0.8063 0.1739 68 M 0.0354 0.7596 0.2049 69 A 0.0474 0.7007 0.2519 70 Q 0.0514 0.5898 0.3587 71 F 0.0583 0.3371 0.6046 72 Y 0.0894 0.1528 0.7578 73 A 0.1015 0.1086 0.7899 74 V 0.1013 0.0439 0.8548 75 P 0.1006 0.0464 0.8530 76 V 0.1385 0.0484 0.8131 77 L 0.0821 0.0318 0.8860 78 P 0.0058 0.9272 0.0670 79 E 0.0048 0.9513 0.0439 80 Q 0.0049 0.9517 0.0435 81 L 0.0048 0.9545 0.0407 82 V 0.0047 0.9565 0.0388 83 D 0.0048 0.9543 0.0409 84 R 0.0048 0.9519 0.0433 85 L 0.0048 0.9510 0.0442 86 D 0.0049 0.9493 0.0458 87 Q 0.0049 0.9385 0.0565 88 S 0.0049 0.9386 0.0565 89 W 0.0048 0.9497 0.0455 90 Q 0.0048 0.9467 0.0485 91 Y 0.0049 0.9401 0.0549 92 Y 0.0062 0.9088 0.0850 93 Q 0.0079 0.8399 0.1522 94 D 0.0127 0.7097 0.2776 95 R 0.0276 0.5825 0.3899 96 L 0.0407 0.4339 0.5254 97 M 0.0125 0.7885 0.1990 98 A 0.0106 0.7872 0.2023 99 D 0.0162 0.7359 0.2479 100 F 0.0267 0.6697 0.3036 101 S 0.0453 0.5479 0.4068 102 T 0.0996 0.4463 0.4541 103 E 0.1545 0.3635 0.4820 104 T 0.2593 0.1649 0.5758 105 T 0.1951 0.1147 0.6902 106 Y 0.1733 0.1473 0.6793 107 W 0.1181 0.1204 0.7615 108 G 0.0792 0.0661 0.8546 109 V 0.1374 0.0582 0.8044 110 T 0.1398 0.0566 0.8035 111 D 0.0997 0.0969 0.8034 112 S 0.0863 0.2098 0.7039 113 T 0.0113 0.8833 0.1054 114 T 0.0066 0.9371 0.0563 115 G 0.0066 0.9475 0.0459 116 W 0.0072 0.9539 0.0389 117 L 0.0060 0.9568 0.0372 118 L 0.0054 0.9576 0.0370 119 E 0.0060 0.9539 0.0401 120 A 0.0063 0.9464 0.0473 121 A 0.0078 0.9282 0.0639 122 V 0.0080 0.8908 0.1012 123 H 0.0088 0.8510 0.1401 124 L 0.0084 0.8652 0.1263 125 Y 0.0129 0.8474 0.1397 126 H 0.0171 0.8302 0.1528 127 H 0.0134 0.8637 0.1230 128 R 0.0056 0.9233 0.0711 129 S 0.0051 0.9466 0.0483 130 Q 0.0048 0.9560 0.0392 131 L 0.0047 0.9605 0.0348 132 L 0.0047 0.9607 0.0346 133 D 0.0047 0.9610 0.0344 134 Y 0.0047 0.9607 0.0346 135 L 0.0047 0.9592 0.0361 136 N 0.0050 0.9510 0.0440 137 L 0.0066 0.9152 0.0782 138 L 0.0443 0.4809 0.4748 139 G 0.0359 0.0266 0.9375 140 Y 0.0732 0.0135 0.9133 141 D 0.1921 0.0149 0.7931 142 I 0.2121 0.0296 0.7582 143 K 0.1644 0.0512 0.7844 144 L 0.1081 0.3683 0.5237 145 D 0.1008 0.3959 0.5033 146 L 0.1004 0.3772 0.5224 147 F 0.1222 0.1245 0.7533 148 E 0.0472 0.0490 0.9038