# This file is the result of combining several RDB files, specifically # T0582.t04.dssp-ebghstl.rdb (weight 1.53986) # T0582.t04.stride-ebghtl.rdb (weight 1.24869) # T0582.t04.str2.rdb (weight 1.54758) # T0582.t04.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 T0582.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0582 # Using neural net t04-2621-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 T0582.t04-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 1665 # # ============================================ # Comments from T0582.t04.stride-ebghtl.rdb # ============================================ # TARGET T0582 # Using neural net t04-2621-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 T0582.t04-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 1665 # # ============================================ # Comments from T0582.t04.str2.rdb # ============================================ # TARGET T0582 # Using neural net t04-2621-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 T0582.t04-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 1665 # # ============================================ # Comments from T0582.t04.alpha.rdb # ============================================ # TARGET T0582 # Using neural net t04-2621-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 T0582.t04-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 1665 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0944 0.0147 0.8909 2 E 0.1339 0.0277 0.8384 3 I 0.1234 0.0850 0.7916 4 N 0.0919 0.0783 0.8298 5 A 0.0537 0.2556 0.6908 6 D 0.0749 0.1642 0.7609 7 F 0.1040 0.0989 0.7970 8 T 0.1041 0.0546 0.8413 9 K 0.1389 0.0407 0.8204 10 P 0.2248 0.0448 0.7304 11 V 0.6464 0.0272 0.3264 12 V 0.8393 0.0080 0.1527 13 I 0.7972 0.0094 0.1934 14 D 0.5447 0.0066 0.4487 15 T 0.0367 0.5451 0.4182 16 D 0.0228 0.5033 0.4739 17 Q 0.0339 0.5548 0.4113 18 L 0.2066 0.1209 0.6725 19 E 0.2932 0.0765 0.6303 20 W 0.5806 0.0433 0.3761 21 R 0.6231 0.0193 0.3576 22 P 0.4980 0.0217 0.4803 23 S 0.2200 0.0197 0.7603 24 P 0.1456 0.0636 0.7909 25 M 0.0761 0.1145 0.8094 26 K 0.0358 0.1347 0.8294 27 G 0.0656 0.0778 0.8566 28 V 0.4549 0.0542 0.4909 29 E 0.7046 0.0451 0.2503 30 R 0.8151 0.0444 0.1406 31 R 0.7993 0.0476 0.1531 32 M 0.7547 0.0701 0.1752 33 L 0.5888 0.1256 0.2856 34 D 0.4099 0.1729 0.4172 35 R 0.2144 0.1929 0.5927 36 I 0.1491 0.1306 0.7204 37 G 0.0812 0.1090 0.8098 38 G 0.0921 0.1266 0.7813 39 E 0.1897 0.1682 0.6421 40 V 0.3003 0.1621 0.5377 41 A 0.4046 0.1060 0.4894 42 R 0.6080 0.0711 0.3209 43 A 0.7988 0.0265 0.1747 44 T 0.8804 0.0111 0.1085 45 S 0.8974 0.0087 0.0939 46 I 0.9110 0.0093 0.0797 47 V 0.8954 0.0093 0.0954 48 R 0.8836 0.0068 0.1096 49 Y 0.6732 0.0106 0.3162 50 A 0.1669 0.0155 0.8176 51 P 0.0301 0.0704 0.8995 52 G 0.0283 0.0515 0.9202 53 S 0.1449 0.0423 0.8128 54 R 0.2602 0.0334 0.7064 55 F 0.2622 0.0348 0.7029 56 S 0.1628 0.0484 0.7888 57 A 0.1663 0.1007 0.7330 58 H 0.2486 0.0550 0.6965 59 T 0.2157 0.0642 0.7201 60 H 0.1289 0.0382 0.8329 61 D 0.0489 0.0843 0.8668 62 G 0.0425 0.0483 0.9092 63 G 0.2305 0.0385 0.7310 64 E 0.6484 0.0087 0.3428 65 E 0.8857 0.0042 0.1102 66 F 0.9254 0.0034 0.0712 67 I 0.9311 0.0034 0.0655 68 V 0.9284 0.0033 0.0684 69 L 0.8717 0.0148 0.1135 70 D 0.7965 0.0219 0.1817 71 G 0.8023 0.0150 0.1827 72 V 0.8875 0.0081 0.1044 73 F 0.8936 0.0066 0.0998 74 Q 0.8401 0.0097 0.1502 75 D 0.6182 0.0209 0.3609 76 E 0.3012 0.0835 0.6153 77 H 0.1330 0.0405 0.8265 78 G 0.0890 0.0400 0.8709 79 D 0.1840 0.0299 0.7861 80 Y 0.2421 0.0116 0.7463 81 P 0.1327 0.0135 0.8539 82 A 0.1021 0.1706 0.7273 83 G 0.1314 0.1598 0.7088 84 T 0.3848 0.1597 0.4555 85 Y 0.7452 0.0565 0.1982 86 V 0.8176 0.0365 0.1459 87 R 0.8442 0.0196 0.1361 88 N 0.5075 0.0181 0.4744 89 P 0.1258 0.0206 0.8536 90 P 0.0449 0.0670 0.8880 91 T 0.0553 0.0532 0.8914 92 T 0.1251 0.0488 0.8262 93 S 0.2164 0.0562 0.7274 94 H 0.3065 0.0662 0.6272 95 V 0.1850 0.0780 0.7370 96 P 0.1280 0.1424 0.7296 97 G 0.1236 0.1144 0.7620 98 S 0.1154 0.0713 0.8133 99 A 0.0560 0.1501 0.7940 100 E 0.0573 0.1686 0.7740 101 G 0.0994 0.1042 0.7963 102 C 0.4342 0.0528 0.5130 103 T 0.8066 0.0328 0.1606 104 I 0.9052 0.0216 0.0731 105 F 0.9004 0.0296 0.0700 106 V 0.8962 0.0300 0.0739 107 K 0.8632 0.0368 0.1000 108 L 0.7603 0.0453 0.1944 109 W 0.3910 0.0520 0.5570 110 Q 0.2073 0.0538 0.7389 111 F 0.1184 0.0535 0.8281 112 D 0.0964 0.0168 0.8868 113 P 0.0169 0.4126 0.5705 114 A 0.0186 0.3622 0.6191 115 D 0.0539 0.3827 0.5634 116 R 0.0794 0.2440 0.6766 117 T 0.1385 0.2107 0.6507 118 Q 0.2534 0.2738 0.4728 119 F 0.3673 0.2542 0.3785 120 S 0.4770 0.2102 0.3128 121 K 0.3632 0.2219 0.4150 122 N 0.2603 0.1269 0.6128 123 M 0.1278 0.2875 0.5847 124 E 0.1290 0.3787 0.4923 125 A 0.1028 0.4160 0.4812 126 E 0.1414 0.3679 0.4907 127 L 0.2036 0.2255 0.5709 128 G 0.1884 0.1288 0.6828 129 A 0.1728 0.0502 0.7770 130 P 0.1592 0.0771 0.7637 131 V 0.1063 0.0967 0.7970 132 E 0.0493 0.1178 0.8329 133 G 0.0552 0.0621 0.8827 134 I 0.2336 0.0370 0.7294 135 S 0.3786 0.0311 0.5903 136 T 0.6803 0.0405 0.2792 137 S 0.7655 0.0368 0.1977 138 L 0.7689 0.0597 0.1714 139 L 0.6360 0.0988 0.2652 140 H 0.4654 0.0990 0.4356 141 E 0.2219 0.1485 0.6296 142 D 0.1516 0.0942 0.7542 143 E 0.0766 0.2401 0.6832 144 R 0.1057 0.2032 0.6911 145 E 0.2242 0.1588 0.6170 146 T 0.5486 0.0839 0.3675 147 V 0.7848 0.0389 0.1764 148 T 0.8035 0.0365 0.1600 149 H 0.7920 0.0435 0.1645 150 R 0.7531 0.0356 0.2113 151 K 0.7061 0.0233 0.2706 152 L 0.3891 0.0234 0.5875 153 E 0.1159 0.0211 0.8630 154 P 0.0283 0.0808 0.8909 155 G 0.0290 0.0558 0.9152 156 A 0.1703 0.0381 0.7916 157 N 0.3590 0.0282 0.6128 158 L 0.3973 0.0273 0.5754 159 T 0.2996 0.0415 0.6590 160 S 0.2733 0.1974 0.5293 161 E 0.2243 0.2260 0.5498 162 A 0.1656 0.2672 0.5672 163 A 0.1197 0.1964 0.6839 164 G 0.0734 0.0779 0.8487 165 G 0.1510 0.0409 0.8081 166 I 0.5187 0.0099 0.4714 167 E 0.8217 0.0054 0.1729 168 V 0.9170 0.0033 0.0797 169 L 0.9274 0.0036 0.0690 170 V 0.9274 0.0033 0.0693 171 L 0.8675 0.0148 0.1177 172 D 0.7739 0.0167 0.2094 173 G 0.7786 0.0149 0.2065 174 D 0.8885 0.0069 0.1046 175 V 0.9168 0.0039 0.0793 176 T 0.9035 0.0041 0.0924 177 V 0.7897 0.0217 0.1886 178 N 0.1950 0.0298 0.7752 179 D 0.1127 0.0341 0.8532 180 E 0.7385 0.0138 0.2477 181 V 0.8693 0.0083 0.1224 182 L 0.6684 0.0163 0.3152 183 G 0.3974 0.0181 0.5846 184 R 0.1008 0.0918 0.8074 185 N 0.1236 0.0597 0.8167 186 A 0.3783 0.0278 0.5939 187 W 0.8082 0.0095 0.1823 188 L 0.8861 0.0057 0.1083 189 R 0.8932 0.0053 0.1015 190 L 0.5882 0.0067 0.4051 191 P 0.2264 0.0186 0.7551 192 E 0.0500 0.0924 0.8576 193 G 0.0458 0.1136 0.8406 194 E 0.1429 0.0978 0.7593 195 A 0.3926 0.0675 0.5399 196 L 0.5237 0.0452 0.4312 197 S 0.6083 0.0433 0.3484 198 A 0.6800 0.0631 0.2569 199 T 0.6908 0.0607 0.2486 200 A 0.5696 0.0791 0.3513 201 G 0.2672 0.0599 0.6729 202 A 0.1441 0.1334 0.7225 203 R 0.1249 0.1227 0.7524 204 G 0.2837 0.0533 0.6631 205 A 0.5695 0.0163 0.4142 206 K 0.8745 0.0067 0.1189 207 I 0.9199 0.0044 0.0757 208 W 0.9266 0.0046 0.0688 209 M 0.9031 0.0087 0.0883 210 K 0.7921 0.0156 0.1923 211 T 0.3187 0.0840 0.5974 212 G 0.0678 0.1158 0.8164 213 H 0.1158 0.1198 0.7644 214 L 0.1978 0.2013 0.6009 215 R 0.2150 0.2429 0.5421 216 F 0.2878 0.2186 0.4937 217 V 0.2474 0.0975 0.6551 218 R 0.1462 0.0995 0.7543 219 T 0.0713 0.1546 0.7742 220 P 0.0341 0.3088 0.6571 221 E 0.0504 0.3102 0.6394 222 V 0.0671 0.0942 0.8387