# This file is the result of combining several RDB files, specifically # T0621.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0621.t2k.stride-ebghtl.rdb (weight 1.24869) # T0621.t2k.str.rdb (weight 1.53983) # 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 T0621.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0621 # Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0621.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 5 # # ============================================ # Comments from T0621.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0621 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0621.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 5 # # ============================================ # Comments from T0621.t2k.str.rdb # ============================================ # TARGET T0621 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str ) # The input amino acid frequencies were determined from # alignment T0621.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 5 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 N 0.0160 0.0049 0.9791 2 P 0.0605 0.0102 0.9293 3 N 0.0821 0.0146 0.9033 4 P 0.1860 0.0326 0.7814 5 I 0.5391 0.0300 0.4309 6 S 0.6684 0.0164 0.3153 7 I 0.5887 0.0078 0.4035 8 P 0.5268 0.0059 0.4674 9 I 0.4470 0.0078 0.5452 10 D 0.2474 0.0204 0.7323 11 L 0.0343 0.4669 0.4988 12 S 0.0149 0.4581 0.5271 13 Q 0.0122 0.4561 0.5317 14 A 0.0312 0.1930 0.7758 15 G 0.0818 0.0496 0.8686 16 S 0.2135 0.0415 0.7450 17 V 0.4661 0.0937 0.4402 18 V 0.5486 0.0969 0.3545 19 E 0.5873 0.0973 0.3154 20 K 0.6051 0.0852 0.3097 21 E 0.7280 0.0491 0.2229 22 V 0.7525 0.0255 0.2220 23 K 0.7130 0.0179 0.2691 24 I 0.4590 0.0340 0.5070 25 E 0.3297 0.0661 0.6042 26 E 0.1742 0.3338 0.4920 27 S 0.2047 0.2918 0.5035 28 W 0.3760 0.2581 0.3658 29 S 0.5006 0.1860 0.3134 30 Y 0.6838 0.1168 0.1994 31 H 0.7983 0.0736 0.1281 32 L 0.9056 0.0388 0.0556 33 I 0.9327 0.0257 0.0415 34 L 0.9171 0.0293 0.0536 35 Q 0.8888 0.0275 0.0837 36 F 0.8049 0.0417 0.1533 37 A 0.7356 0.0620 0.2024 38 V 0.6347 0.1424 0.2229 39 H 0.4714 0.2628 0.2659 40 D 0.3693 0.3456 0.2850 41 R 0.1925 0.4405 0.3670 42 K 0.1236 0.4801 0.3963 43 E 0.0660 0.4840 0.4501 44 D 0.0317 0.3114 0.6569 45 G 0.0233 0.2060 0.7708 46 G 0.0318 0.1893 0.7789 47 L 0.0442 0.3436 0.6122 48 D 0.0387 0.3607 0.6006 49 G 0.0518 0.5026 0.4456 50 K 0.1247 0.5649 0.3104 51 R 0.2100 0.5722 0.2177 52 V 0.2203 0.5911 0.1886 53 W 0.2365 0.5792 0.1843 54 K 0.2230 0.5693 0.2077 55 F 0.2325 0.5199 0.2477 56 L 0.2717 0.3184 0.4099 57 G 0.2420 0.1331 0.6250 58 F 0.1854 0.1087 0.7058 59 N 0.1770 0.0925 0.7305 60 S 0.2022 0.0678 0.7300 61 Y 0.3050 0.0444 0.6505 62 D 0.1761 0.0371 0.7868 63 P 0.0511 0.1342 0.8147 64 R 0.0264 0.1390 0.8346 65 D 0.0318 0.1084 0.8598 66 G 0.0585 0.0739 0.8676 67 K 0.2112 0.0669 0.7219 68 Q 0.4540 0.0571 0.4889 69 V 0.3776 0.0479 0.5745 70 G 0.2825 0.0421 0.6754 71 Y 0.3198 0.0969 0.5833 72 V 0.3114 0.1236 0.5650 73 D 0.2311 0.1908 0.5782 74 Y 0.0618 0.6493 0.2889 75 R 0.0354 0.7658 0.1987 76 L 0.0266 0.8116 0.1617 77 A 0.0350 0.7625 0.2024 78 K 0.0324 0.7420 0.2256 79 S 0.0258 0.7135 0.2607 80 E 0.0254 0.6781 0.2965 81 L 0.0326 0.5679 0.3994 82 G 0.0421 0.4494 0.5085 83 D 0.0691 0.4644 0.4665 84 L 0.0884 0.4074 0.5043 85 I 0.1185 0.2845 0.5969 86 D 0.0968 0.1844 0.7188 87 E 0.1226 0.1866 0.6907 88 T 0.2646 0.1304 0.6050 89 Y 0.4728 0.0753 0.4519 90 D 0.4042 0.0440 0.5519 91 C 0.3072 0.0453 0.6475 92 D 0.0737 0.0411 0.8852 93 G 0.1721 0.0307 0.7972 94 T 0.6909 0.0107 0.2984 95 V 0.8530 0.0042 0.1428 96 V 0.8218 0.0030 0.1753 97 P 0.8632 0.0028 0.1341 98 I 0.9102 0.0028 0.0870 99 K 0.9652 0.0024 0.0324 100 I 0.9737 0.0024 0.0239 101 T 0.9751 0.0024 0.0225 102 I 0.9656 0.0024 0.0320 103 H 0.9497 0.0024 0.0479 104 Q 0.9210 0.0025 0.0765 105 I 0.8428 0.0041 0.1531 106 N 0.4478 0.0125 0.5396 107 Q 0.1145 0.0393 0.8462 108 D 0.0257 0.0369 0.9373 109 N 0.0625 0.0269 0.9105 110 T 0.3172 0.0185 0.6643 111 K 0.7029 0.0113 0.2858 112 K 0.8855 0.0071 0.1075 113 L 0.9373 0.0063 0.0563 114 I 0.9198 0.0117 0.0686 115 A 0.8840 0.0264 0.0896 116 D 0.8326 0.0333 0.1341 117 N 0.8694 0.0201 0.1105 118 L 0.9262 0.0066 0.0672 119 Y 0.9301 0.0062 0.0636 120 M 0.8706 0.0099 0.1195 121 T 0.6046 0.0260 0.3694 122 K 0.1372 0.0558 0.8070 123 G 0.0562 0.0658 0.8780 124 N 0.0591 0.0693 0.8717 125 G 0.0599 0.0935 0.8467 126 S 0.0526 0.2642 0.6832 127 G 0.0692 0.3293 0.6015 128 A 0.0748 0.4716 0.4536 129 Y 0.0908 0.4735 0.4357 130 T 0.1102 0.5964 0.2933 131 R 0.1149 0.6163 0.2688 132 D 0.1783 0.5820 0.2397 133 I 0.2405 0.4898 0.2697 134 T 0.3213 0.3817 0.2970 135 T 0.4930 0.2518 0.2552 136 I 0.5924 0.0958 0.3118 137 S 0.5477 0.0489 0.4034 138 L 0.2203 0.1275 0.6522 139 D 0.0954 0.1349 0.7696 140 K 0.0620 0.0871 0.8510 141 G 0.1233 0.0347 0.8421 142 K 0.4466 0.0095 0.5439 143 Y 0.8753 0.0031 0.1216 144 I 0.9468 0.0025 0.0507 145 F 0.9560 0.0024 0.0416 146 R 0.9609 0.0025 0.0366 147 I 0.9337 0.0039 0.0624 148 E 0.7863 0.0082 0.2055 149 N 0.5489 0.0144 0.4367 150 I 0.0766 0.4132 0.5102 151 E 0.0357 0.4919 0.4724 152 A 0.0256 0.6031 0.3713 153 F 0.0272 0.5526 0.4201 154 S 0.0279 0.6593 0.3129 155 E 0.0193 0.6961 0.2847 156 M 0.0234 0.6997 0.2769 157 I 0.0171 0.5394 0.4434 158 G 0.0182 0.2244 0.7574 159 R 0.0486 0.0839 0.8675 160 K 0.1323 0.0123 0.8554 161 V 0.6211 0.0041 0.3748 162 D 0.9000 0.0026 0.0974 163 F 0.9709 0.0024 0.0267 164 T 0.9737 0.0024 0.0239 165 I 0.9590 0.0032 0.0379 166 Y 0.8923 0.0047 0.1030 167 I 0.7610 0.0118 0.2272 168 N 0.5226 0.0366 0.4408 169 K 0.3400 0.0504 0.6097 170 R 0.1709 0.0501 0.7790 171 D 0.0671 0.0306 0.9023 172 K 0.0143 0.0110 0.9747