# This file is the result of combining several RDB files, specifically # T0383.t06.dssp-ebghstl.rdb (weight 1.53986) # T0383.t06.stride-ebghtl.rdb (weight 1.24869) # T0383.t06.str2.rdb (weight 1.54758) # T0383.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 T0383.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.60968 # # ============================================ # Comments from T0383.t06.stride-ebghtl.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.60968 # # ============================================ # Comments from T0383.t06.str2.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.60968 # # ============================================ # Comments from T0383.t06.alpha.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.60968 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0843 0.0878 0.8279 2 N 0.2342 0.0993 0.6665 3 A 0.5197 0.0984 0.3819 4 M 0.6647 0.0610 0.2743 5 N 0.7160 0.0628 0.2212 6 L 0.6941 0.0687 0.2373 7 K 0.6277 0.0896 0.2827 8 R 0.5123 0.0984 0.3893 9 E 0.3236 0.1357 0.5407 10 Q 0.1949 0.5047 0.3004 11 E 0.2512 0.4989 0.2498 12 F 0.3087 0.4998 0.1915 13 V 0.3096 0.4903 0.2001 14 S 0.2533 0.4836 0.2632 15 Q 0.2693 0.4720 0.2587 16 Y 0.3142 0.3672 0.3186 17 H 0.3605 0.2238 0.4157 18 F 0.3680 0.1514 0.4806 19 D 0.2794 0.1294 0.5912 20 A 0.1073 0.3327 0.5600 21 R 0.0907 0.2549 0.6544 22 N 0.1221 0.1456 0.7323 23 F 0.0802 0.3166 0.6033 24 E 0.1655 0.3424 0.4921 25 W 0.1841 0.3984 0.4175 26 E 0.2135 0.3692 0.4173 27 N 0.1664 0.2764 0.5572 28 E 0.1107 0.2973 0.5920 29 N 0.0805 0.1260 0.7934 30 G 0.0759 0.0439 0.8802 31 A 0.1312 0.0150 0.8538 32 P 0.2099 0.0232 0.7669 33 E 0.4054 0.0780 0.5166 34 T 0.5958 0.0525 0.3517 35 K 0.7271 0.0280 0.2449 36 V 0.7325 0.0166 0.2509 37 D 0.7059 0.0165 0.2776 38 V 0.5150 0.0792 0.4057 39 N 0.3663 0.1170 0.5167 40 F 0.2725 0.2744 0.4531 41 Q 0.2972 0.3335 0.3693 42 L 0.3270 0.3727 0.3003 43 L 0.2605 0.3232 0.4163 44 Q 0.2233 0.3048 0.4719 45 H 0.1197 0.3535 0.5268 46 D 0.0924 0.2763 0.6313 47 Q 0.0644 0.4285 0.5072 48 E 0.0696 0.4065 0.5240 49 N 0.0704 0.2616 0.6680 50 Q 0.1189 0.1426 0.7385 51 V 0.3540 0.0748 0.5712 52 T 0.5381 0.0569 0.4050 53 S 0.8110 0.0225 0.1666 54 L 0.8957 0.0115 0.0927 55 I 0.9093 0.0079 0.0829 56 V 0.9174 0.0047 0.0780 57 I 0.9127 0.0039 0.0834 58 L 0.8792 0.0060 0.1148 59 S 0.8817 0.0063 0.1120 60 F 0.8976 0.0053 0.0971 61 M 0.8777 0.0079 0.1144 62 I 0.8831 0.0057 0.1112 63 V 0.7454 0.0171 0.2376 64 F 0.4729 0.0509 0.4761 65 D 0.1845 0.1125 0.7031 66 K 0.2497 0.0916 0.6587 67 F 0.7461 0.0188 0.2351 68 V 0.8786 0.0101 0.1113 69 I 0.8756 0.0109 0.1135 70 S 0.7051 0.0301 0.2648 71 G 0.6563 0.0338 0.3098 72 T 0.7451 0.0503 0.2046 73 I 0.8004 0.0486 0.1510 74 S 0.7368 0.0490 0.2142 75 Q 0.7921 0.0479 0.1600 76 V 0.8109 0.0617 0.1274 77 N 0.8185 0.0557 0.1258 78 H 0.8051 0.0588 0.1362 79 I 0.6271 0.1234 0.2495 80 D 0.3187 0.1296 0.5517 81 G 0.1242 0.1079 0.7679 82 R 0.3624 0.1058 0.5317 83 I 0.5329 0.0695 0.3975 84 V 0.2561 0.0821 0.6618 85 N 0.1119 0.0502 0.8379 86 E 0.0972 0.0316 0.8712 87 P 0.0318 0.4526 0.5157 88 S 0.0235 0.5151 0.4614 89 E 0.0341 0.5181 0.4478 90 L 0.1022 0.1386 0.7592 91 N 0.0662 0.0905 0.8433 92 Q 0.0061 0.9010 0.0930 93 E 0.0053 0.9296 0.0651 94 E 0.0059 0.9334 0.0607 95 V 0.0055 0.9443 0.0501 96 E 0.0052 0.9397 0.0551 97 T 0.0063 0.8859 0.1078 98 L 0.0059 0.7927 0.2014 99 A 0.0082 0.7937 0.1981 100 R 0.0053 0.8682 0.1265 101 P 0.0054 0.9076 0.0870 102 C 0.0052 0.9334 0.0614 103 L 0.0056 0.9425 0.0519 104 N 0.0059 0.9344 0.0597 105 M 0.0059 0.9201 0.0740 106 L 0.0078 0.9158 0.0764 107 N 0.0140 0.8791 0.1069 108 R 0.0230 0.8183 0.1588 109 L 0.0644 0.7172 0.2184 110 T 0.1775 0.5397 0.2828 111 Y 0.2516 0.4848 0.2636 112 E 0.2484 0.5513 0.2004 113 V 0.1882 0.6337 0.1781 114 T 0.1892 0.5989 0.2119 115 E 0.2417 0.6113 0.1471 116 I 0.2675 0.5776 0.1549 117 A 0.2987 0.4591 0.2421 118 L 0.3168 0.2440 0.4391 119 D 0.2233 0.1047 0.6720 120 L 0.0931 0.0713 0.8357 121 P 0.0622 0.0960 0.8419 122 G 0.1514 0.0756 0.7730 123 I 0.4093 0.0264 0.5643 124 N 0.5655 0.0184 0.4161 125 L 0.6089 0.0225 0.3685 126 E 0.5124 0.0278 0.4599 127 F 0.2590 0.0316 0.7093