# This file is the result of combining several RDB files, specifically # T0374.t06.dssp-ebghstl.rdb (weight 1.53986) # T0374.t06.stride-ebghtl.rdb (weight 1.24869) # T0374.t06.str2.rdb (weight 1.54758) # T0374.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 T0374.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0374 # 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 T0374.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 8826 # # ============================================ # Comments from T0374.t06.stride-ebghtl.rdb # ============================================ # TARGET T0374 # 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 T0374.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 8826 # # ============================================ # Comments from T0374.t06.str2.rdb # ============================================ # TARGET T0374 # 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 T0374.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 8826 # # ============================================ # Comments from T0374.t06.alpha.rdb # ============================================ # TARGET T0374 # 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 T0374.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 8826 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0818 0.0113 0.9069 2 Q 0.4070 0.0106 0.5824 3 L 0.7384 0.0065 0.2551 4 S 0.8594 0.0052 0.1354 5 H 0.8454 0.0054 0.1492 6 R 0.7380 0.0077 0.2543 7 P 0.4692 0.0104 0.5204 8 A 0.1849 0.0204 0.7947 9 E 0.1274 0.0163 0.8563 10 T 0.0155 0.6009 0.3836 11 G 0.0161 0.5340 0.4500 12 D 0.0257 0.5573 0.4170 13 L 0.0077 0.8939 0.0985 14 E 0.0060 0.9009 0.0932 15 T 0.0077 0.8974 0.0948 16 V 0.0197 0.8451 0.1352 17 A 0.0240 0.6855 0.2906 18 G 0.0336 0.4416 0.5249 19 F 0.0510 0.1931 0.7559 20 P 0.0561 0.2486 0.6953 21 Q 0.0522 0.3052 0.6426 22 D 0.0857 0.3089 0.6054 23 R 0.0315 0.6494 0.3192 24 D 0.0424 0.6680 0.2897 25 E 0.0589 0.6923 0.2488 26 L 0.0913 0.6187 0.2899 27 F 0.1400 0.4697 0.3903 28 Y 0.1488 0.3098 0.5414 29 C 0.1259 0.1867 0.6874 30 Y 0.0966 0.0946 0.8089 31 P 0.0594 0.2201 0.7205 32 K 0.0428 0.3505 0.6067 33 A 0.0581 0.3437 0.5982 34 I 0.0745 0.2699 0.6556 35 W 0.0558 0.2517 0.6925 36 P 0.0228 0.6366 0.3406 37 F 0.0287 0.7148 0.2565 38 S 0.0190 0.8080 0.1730 39 V 0.0048 0.9498 0.0454 40 A 0.0047 0.9567 0.0386 41 Q 0.0047 0.9577 0.0377 42 L 0.0050 0.9537 0.0413 43 A 0.0050 0.9500 0.0450 44 A 0.0059 0.9145 0.0796 45 A 0.0078 0.8526 0.1396 46 I 0.0248 0.7365 0.2387 47 A 0.0321 0.5226 0.4453 48 E 0.0299 0.3410 0.6291 49 R 0.0491 0.1614 0.7895 50 R 0.1152 0.0541 0.8307 51 G 0.3507 0.0199 0.6294 52 S 0.8039 0.0047 0.1914 53 T 0.9167 0.0035 0.0798 54 V 0.9283 0.0033 0.0685 55 A 0.9238 0.0039 0.0723 56 V 0.9106 0.0043 0.0851 57 H 0.7492 0.0127 0.2381 58 D 0.0533 0.0174 0.9293 59 G 0.0393 0.0327 0.9279 60 Q 0.7558 0.0080 0.2362 61 V 0.9147 0.0030 0.0823 62 L 0.8707 0.0148 0.1144 63 G 0.9140 0.0048 0.0812 64 F 0.9287 0.0032 0.0681 65 A 0.9183 0.0039 0.0778 66 N 0.9159 0.0037 0.0804 67 F 0.9018 0.0073 0.0909 68 Y 0.8676 0.0098 0.1226 69 Q 0.8096 0.0153 0.1751 70 W 0.4826 0.0361 0.4813 71 Q 0.2797 0.0559 0.6643 72 H 0.1169 0.0563 0.8268 73 G 0.0857 0.0418 0.8725 74 D 0.2345 0.0574 0.7081 75 F 0.7987 0.0220 0.1793 76 C 0.8906 0.0063 0.1030 77 A 0.9150 0.0051 0.0799 78 L 0.8841 0.0088 0.1071 79 G 0.6620 0.0374 0.3006 80 N 0.6580 0.0358 0.3062 81 M 0.8520 0.0205 0.1275 82 M 0.8820 0.0116 0.1064 83 V 0.7743 0.0167 0.2090 84 A 0.2442 0.0264 0.7294 85 P 0.0123 0.7401 0.2476 86 A 0.0090 0.7139 0.2771 87 A 0.0161 0.7407 0.2432 88 R 0.0304 0.4154 0.5543 89 G 0.0265 0.1801 0.7935 90 L 0.0509 0.2093 0.7398 91 G 0.0605 0.4592 0.4802 92 V 0.0095 0.8945 0.0960 93 A 0.0049 0.9533 0.0418 94 R 0.0047 0.9602 0.0351 95 Y 0.0047 0.9598 0.0356 96 L 0.0047 0.9600 0.0354 97 I 0.0047 0.9610 0.0344 98 G 0.0046 0.9612 0.0342 99 V 0.0047 0.9598 0.0355 100 M 0.0047 0.9586 0.0367 101 E 0.0047 0.9594 0.0360 102 N 0.0047 0.9573 0.0380 103 L 0.0047 0.9537 0.0415 104 A 0.0048 0.9431 0.0521 105 R 0.0050 0.9215 0.0735 106 E 0.0066 0.8584 0.1350 107 Q 0.0124 0.6963 0.2913 108 Y 0.0564 0.2697 0.6739 109 K 0.0502 0.0438 0.9060 110 A 0.1272 0.0135 0.8593 111 R 0.2620 0.0421 0.6959 112 L 0.8651 0.0048 0.1301 113 M 0.9116 0.0035 0.0849 114 K 0.9286 0.0033 0.0681 115 I 0.9217 0.0036 0.0748 116 S 0.8750 0.0046 0.1204 117 C 0.7312 0.0146 0.2542 118 F 0.3268 0.0360 0.6373 119 N 0.1321 0.1672 0.7007 120 A 0.0587 0.2188 0.7225 121 N 0.0642 0.2767 0.6590 122 A 0.0068 0.8820 0.1111 123 A 0.0058 0.9207 0.0735 124 G 0.0062 0.9361 0.0577 125 L 0.0050 0.9520 0.0430 126 L 0.0059 0.9523 0.0418 127 L 0.0052 0.9549 0.0399 128 Y 0.0052 0.9553 0.0395 129 T 0.0055 0.9486 0.0459 130 Q 0.0060 0.9167 0.0773 131 L 0.0399 0.4604 0.4997 132 G 0.0375 0.0328 0.9298 133 Y 0.1000 0.0127 0.8873 134 Q 0.4160 0.0150 0.5691 135 P 0.6044 0.0337 0.3619 136 R 0.6546 0.0662 0.2792 137 A 0.6927 0.0613 0.2460 138 I 0.7401 0.0508 0.2090 139 A 0.6590 0.0643 0.2766 140 E 0.5811 0.1046 0.3143 141 R 0.5094 0.0967 0.3939 142 H 0.4457 0.0516 0.5028 143 D 0.1146 0.0258 0.8596 144 P 0.0183 0.1391 0.8427 145 D 0.0483 0.0402 0.9116 146 G 0.0512 0.0450 0.9037 147 R 0.2900 0.0212 0.6887 148 R 0.7943 0.0076 0.1981 149 V 0.7741 0.0117 0.2142 150 A 0.8145 0.0151 0.1704 151 L 0.8574 0.0132 0.1294 152 I 0.8951 0.0112 0.0937 153 Q 0.8953 0.0114 0.0933 154 M 0.8077 0.0164 0.1759 155 D 0.6109 0.0283 0.3608 156 K 0.3546 0.0248 0.6206 157 P 0.2306 0.0268 0.7426 158 L 0.1345 0.0393 0.8262 159 E 0.0591 0.0183 0.9226 160 P 0.0330 0.0533 0.9137