# This file is the result of combining several RDB files, specifically # T0206.t04.dssp-ebghstl.rdb (weight 1.53986) # T0206.t04.stride-ebghtl.rdb (weight 1.24869) # T0206.t04.str2.rdb (weight 1.54758) # T0206.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 T0206.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0206 # 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 T0206.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 132.978 # # ============================================ # Comments from T0206.t04.stride-ebghtl.rdb # ============================================ # TARGET T0206 # 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 T0206.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 132.978 # # ============================================ # Comments from T0206.t04.str2.rdb # ============================================ # TARGET T0206 # 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 T0206.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 132.978 # # ============================================ # Comments from T0206.t04.alpha.rdb # ============================================ # TARGET T0206 # 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 T0206.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 132.978 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1049 0.0345 0.8606 2 A 0.1729 0.0501 0.7770 3 F 0.1963 0.0427 0.7610 4 D 0.1124 0.0254 0.8621 5 P 0.0618 0.1028 0.8354 6 N 0.0938 0.0643 0.8418 7 L 0.1567 0.0675 0.7759 8 V 0.2089 0.0557 0.7354 9 G 0.1293 0.0354 0.8353 10 P 0.1324 0.0621 0.8056 11 T 0.2111 0.0660 0.7229 12 L 0.1134 0.0284 0.8582 13 P 0.1104 0.0357 0.8539 14 P 0.1576 0.0382 0.8042 15 I 0.1377 0.0216 0.8407 16 P 0.1044 0.0426 0.8530 17 P 0.0979 0.0528 0.8493 18 F 0.1484 0.0511 0.8005 19 T 0.2115 0.0414 0.7471 20 L 0.1773 0.0237 0.7990 21 P 0.1755 0.0414 0.7831 22 T 0.2567 0.0515 0.6918 23 G 0.1380 0.0352 0.8268 24 P 0.0985 0.0798 0.8217 25 T 0.1926 0.0630 0.7443 26 G 0.1153 0.0396 0.8450 27 P 0.1069 0.0949 0.7982 28 T 0.2102 0.0735 0.7163 29 G 0.1278 0.0459 0.8262 30 P 0.1079 0.0925 0.7996 31 T 0.1919 0.0824 0.7256 32 G 0.1292 0.0522 0.8186 33 P 0.1131 0.0812 0.8057 34 T 0.1869 0.0751 0.7380 35 G 0.1267 0.0390 0.8343 36 P 0.1125 0.0793 0.8081 37 T 0.1976 0.0662 0.7362 38 G 0.1365 0.0394 0.8241 39 P 0.1311 0.0652 0.8037 40 T 0.2320 0.0680 0.7000 41 G 0.1334 0.0559 0.8107 42 P 0.0973 0.1281 0.7746 43 T 0.1881 0.0939 0.7180 44 G 0.1158 0.0750 0.8092 45 D 0.1018 0.1226 0.7757 46 T 0.1930 0.0981 0.7090 47 G 0.1465 0.0599 0.7937 48 T 0.1419 0.0918 0.7663 49 T 0.2265 0.0691 0.7044 50 G 0.1583 0.0404 0.8014 51 P 0.1368 0.0677 0.7955 52 T 0.2077 0.0641 0.7281 53 G 0.1322 0.0424 0.8254 54 P 0.1128 0.0782 0.8089 55 T 0.1945 0.0706 0.7348 56 G 0.1279 0.0444 0.8277 57 P 0.1168 0.0866 0.7966 58 T 0.2132 0.0758 0.7110 59 G 0.1318 0.0505 0.8177 60 P 0.1085 0.0969 0.7945 61 T 0.2108 0.0863 0.7029 62 G 0.1270 0.0653 0.8077 63 P 0.1002 0.1293 0.7706 64 T 0.1656 0.1180 0.7164 65 G 0.1215 0.0790 0.7995 66 A 0.1077 0.1290 0.7633 67 T 0.1782 0.1091 0.7128 68 G 0.1434 0.0613 0.7953 69 L 0.1432 0.0763 0.7805 70 T 0.1994 0.0617 0.7389 71 G 0.1239 0.0355 0.8406 72 P 0.1091 0.0683 0.8226 73 T 0.1853 0.0679 0.7468 74 G 0.1190 0.0492 0.8318 75 P 0.1133 0.0856 0.8011 76 T 0.1913 0.0773 0.7315 77 G 0.1240 0.0461 0.8300 78 P 0.0968 0.1071 0.7961 79 S 0.1386 0.0993 0.7622 80 G 0.1138 0.0701 0.8161 81 L 0.1505 0.0700 0.7795 82 G 0.2017 0.0685 0.7297 83 L 0.1448 0.0494 0.8059 84 P 0.1363 0.1000 0.7637 85 A 0.1409 0.1127 0.7464 86 G 0.1823 0.0815 0.7361 87 L 0.2835 0.0984 0.6181 88 Y 0.4326 0.0861 0.4812 89 A 0.4541 0.0761 0.4698 90 F 0.3259 0.0810 0.5931 91 N 0.1897 0.0617 0.7486 92 S 0.1232 0.1142 0.7626 93 G 0.1753 0.0833 0.7413 94 G 0.2181 0.0666 0.7154 95 I 0.3271 0.0561 0.6167 96 S 0.4299 0.0542 0.5159 97 L 0.3946 0.0591 0.5463 98 D 0.3257 0.0693 0.6049 99 L 0.2198 0.1105 0.6697 100 G 0.1511 0.0606 0.7883 101 I 0.1592 0.0610 0.7798 102 N 0.1357 0.0496 0.8146 103 D 0.1323 0.0201 0.8475 104 P 0.1604 0.0278 0.8118 105 V 0.2784 0.0213 0.7003 106 P 0.2993 0.0301 0.6706 107 F 0.3128 0.0705 0.6167 108 N 0.2451 0.0636 0.6913 109 T 0.1917 0.0999 0.7084 110 V 0.2024 0.0947 0.7029 111 G 0.1344 0.0938 0.7718 112 S 0.1646 0.1455 0.6899 113 Q 0.2981 0.1553 0.5466 114 F 0.2967 0.1196 0.5837 115 G 0.2546 0.1081 0.6373 116 T 0.2694 0.1073 0.6233 117 A 0.2805 0.1127 0.6068 118 I 0.2751 0.1322 0.5927 119 S 0.2641 0.1318 0.6041 120 Q 0.2112 0.1067 0.6821 121 L 0.2077 0.0866 0.7057 122 D 0.1674 0.0542 0.7784 123 A 0.1074 0.1048 0.7878 124 D 0.1549 0.0916 0.7535 125 T 0.3851 0.0782 0.5367 126 F 0.5642 0.0416 0.3942 127 V 0.6821 0.0282 0.2897 128 I 0.6202 0.0393 0.3405 129 S 0.3896 0.0489 0.5615 130 E 0.1998 0.0928 0.7075 131 T 0.1270 0.0929 0.7801 132 G 0.2160 0.0605 0.7235 133 F 0.4142 0.0581 0.5277 134 Y 0.6972 0.0324 0.2704 135 K 0.7739 0.0290 0.1971 136 I 0.7970 0.0345 0.1685 137 T 0.8192 0.0380 0.1428 138 V 0.8326 0.0431 0.1242 139 I 0.7888 0.0537 0.1575 140 A 0.6728 0.0800 0.2472 141 N 0.5019 0.0864 0.4116 142 T 0.4385 0.1017 0.4598 143 A 0.4149 0.1170 0.4681 144 T 0.3928 0.1457 0.4615 145 A 0.3666 0.1753 0.4581 146 S 0.3604 0.1542 0.4854 147 V 0.4619 0.1606 0.3776 148 L 0.5891 0.0979 0.3130 149 G 0.6558 0.0619 0.2823 150 G 0.7249 0.0466 0.2286 151 L 0.8399 0.0206 0.1395 152 T 0.8784 0.0189 0.1027 153 I 0.8985 0.0136 0.0878 154 Q 0.8699 0.0188 0.1112 155 V 0.7993 0.0455 0.1552 156 N 0.2046 0.0307 0.7647 157 G 0.1095 0.0338 0.8567 158 V 0.3725 0.0109 0.6165 159 P 0.5427 0.0128 0.4445 160 V 0.2646 0.0159 0.7194 161 P 0.1207 0.0645 0.8148 162 G 0.0846 0.0695 0.8459 163 T 0.1555 0.0656 0.7789 164 G 0.1368 0.0760 0.7872 165 S 0.1799 0.1054 0.7147 166 S 0.2541 0.1238 0.6221 167 L 0.4010 0.1498 0.4493 168 I 0.5444 0.1434 0.3122 169 S 0.5166 0.1451 0.3383 170 L 0.3606 0.1308 0.5086 171 G 0.2054 0.0651 0.7295 172 A 0.1958 0.0859 0.7183 173 P 0.2854 0.1185 0.5961 174 I 0.7344 0.0836 0.1820 175 V 0.8425 0.0701 0.0874 176 I 0.8510 0.0640 0.0850 177 Q 0.8051 0.0734 0.1214 178 A 0.6343 0.1323 0.2334 179 I 0.4622 0.1698 0.3679 180 T 0.3731 0.1856 0.4413 181 Q 0.2598 0.1777 0.5626 182 I 0.2749 0.1223 0.6027 183 T 0.3636 0.1198 0.5166 184 T 0.3873 0.1223 0.4905 185 T 0.2994 0.1240 0.5766 186 P 0.2175 0.3738 0.4088 187 S 0.4109 0.3710 0.2181 188 L 0.4933 0.3809 0.1258 189 V 0.4920 0.3860 0.1220 190 E 0.4817 0.3961 0.1222 191 V 0.4875 0.3888 0.1237 192 I 0.5082 0.3635 0.1283 193 V 0.4363 0.3998 0.1640 194 T 0.2541 0.4155 0.3304 195 G 0.1685 0.2669 0.5646 196 L 0.2534 0.2333 0.5133 197 G 0.3512 0.1441 0.5047 198 L 0.3094 0.1187 0.5719 199 S 0.2373 0.1244 0.6383 200 L 0.1160 0.2707 0.6133 201 A 0.1039 0.2660 0.6301 202 L 0.0772 0.2500 0.6729 203 G 0.0706 0.1834 0.7460 204 T 0.1290 0.3082 0.5628 205 S 0.2326 0.4669 0.3005 206 A 0.2025 0.6869 0.1107 207 S 0.0896 0.8293 0.0812 208 I 0.0944 0.8408 0.0648 209 I 0.0710 0.8724 0.0566 210 I 0.0564 0.8910 0.0526 211 E 0.0847 0.8564 0.0588 212 K 0.1061 0.8131 0.0808 213 V 0.0958 0.7805 0.1237 214 A 0.0796 0.6895 0.2310 215 H 0.0657 0.6498 0.2845 216 H 0.0780 0.5832 0.3388 217 H 0.1254 0.3932 0.4814 218 H 0.1089 0.2423 0.6488 219 H 0.0694 0.0887 0.8420 220 H 0.0611 0.0407 0.8982