# This file is the result of combining several RDB files, specifically # T0204.t04.dssp-ebghstl.rdb (weight 1.53986) # T0204.t04.stride-ebghtl.rdb (weight 1.24869) # T0204.t04.str2.rdb (weight 1.54758) # T0204.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 T0204.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0204 # 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 T0204.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 416 # # ============================================ # Comments from T0204.t04.stride-ebghtl.rdb # ============================================ # TARGET T0204 # 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 T0204.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 416 # # ============================================ # Comments from T0204.t04.str2.rdb # ============================================ # TARGET T0204 # 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 T0204.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 416 # # ============================================ # Comments from T0204.t04.alpha.rdb # ============================================ # TARGET T0204 # 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 T0204.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 416 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0783 0.0365 0.8852 2 T 0.1116 0.0595 0.8290 3 S 0.1105 0.0426 0.8469 4 P 0.0895 0.1384 0.7721 5 S 0.1015 0.2089 0.6897 6 H 0.1201 0.2507 0.6292 7 A 0.1281 0.2877 0.5842 8 S 0.1223 0.3206 0.5571 9 D 0.1226 0.2943 0.5831 10 R 0.1016 0.2341 0.6643 11 G 0.0823 0.1106 0.8072 12 G 0.0964 0.0601 0.8435 13 G 0.1052 0.0421 0.8527 14 D 0.1093 0.0680 0.8226 15 G 0.0850 0.1276 0.7874 16 D 0.1112 0.1574 0.7314 17 S 0.2055 0.1817 0.6128 18 V 0.1902 0.1553 0.6545 19 E 0.0894 0.3431 0.5675 20 N 0.0796 0.2586 0.6619 21 Q 0.1023 0.2061 0.6916 22 S 0.0878 0.1000 0.8122 23 P 0.0883 0.2588 0.6529 24 E 0.2789 0.3100 0.4111 25 L 0.4499 0.2671 0.2830 26 R 0.5716 0.1672 0.2612 27 K 0.5808 0.1011 0.3181 28 D 0.2616 0.0178 0.7206 29 P 0.0271 0.1589 0.8140 30 V 0.0271 0.1315 0.8414 31 T 0.0662 0.0885 0.8452 32 N 0.0927 0.0398 0.8675 33 R 0.3949 0.0193 0.5859 34 W 0.8730 0.0081 0.1190 35 V 0.9138 0.0076 0.0786 36 I 0.9182 0.0061 0.0757 37 F 0.8416 0.0183 0.1401 38 S 0.4229 0.0190 0.5581 39 P 0.1075 0.3155 0.5770 40 A 0.0473 0.4676 0.4851 41 R 0.0319 0.6065 0.3617 42 A 0.0635 0.3511 0.5854 43 K 0.0692 0.2236 0.7072 44 R 0.0821 0.0323 0.8856 45 P 0.0754 0.1503 0.7744 46 T 0.0674 0.3137 0.6189 47 D 0.0864 0.3731 0.5405 48 F 0.0910 0.4115 0.4975 49 K 0.0969 0.3481 0.5550 50 S 0.1269 0.2627 0.6104 51 K 0.1187 0.1548 0.7265 52 S 0.0856 0.0259 0.8885 53 P 0.0682 0.0667 0.8651 54 Q 0.0822 0.0689 0.8489 55 N 0.0936 0.0267 0.8797 56 P 0.0684 0.0588 0.8729 57 N 0.0845 0.0287 0.8869 58 P 0.0865 0.0400 0.8735 59 K 0.0728 0.0291 0.8981 60 P 0.0583 0.1646 0.7770 61 S 0.0533 0.2200 0.7266 62 S 0.0937 0.1550 0.7512 63 C 0.1120 0.0214 0.8667 64 P 0.0327 0.1473 0.8199 65 F 0.0639 0.1264 0.8097 66 C 0.1452 0.0980 0.7568 67 I 0.0923 0.1225 0.7852 68 G 0.0694 0.0874 0.8432 69 R 0.0519 0.2240 0.7241 70 E 0.0438 0.4056 0.5505 71 Q 0.0506 0.3911 0.5583 72 E 0.0975 0.2815 0.6210 73 C 0.1202 0.0709 0.8090 74 A 0.0691 0.0590 0.8718 75 P 0.0310 0.3779 0.5911 76 E 0.0542 0.4244 0.5214 77 L 0.1496 0.4075 0.4429 78 F 0.2827 0.1371 0.5802 79 R 0.3292 0.0794 0.5914 80 V 0.1527 0.0323 0.8150 81 P 0.0770 0.0856 0.8374 82 D 0.0836 0.0966 0.8199 83 H 0.1620 0.0735 0.7644 84 D 0.0925 0.0234 0.8841 85 P 0.0162 0.1309 0.8529 86 N 0.0373 0.0660 0.8967 87 W 0.1933 0.0271 0.7796 88 K 0.3911 0.0116 0.5973 89 L 0.8731 0.0034 0.1235 90 R 0.9127 0.0037 0.0836 91 V 0.9183 0.0039 0.0777 92 I 0.8438 0.0097 0.1464 93 E 0.6019 0.0415 0.3566 94 N 0.2926 0.0545 0.6528 95 L 0.1325 0.0899 0.7776 96 Y 0.1364 0.1159 0.7477 97 P 0.0750 0.3444 0.5806 98 A 0.1150 0.3886 0.4964 99 L 0.1940 0.2602 0.5458 100 S 0.1311 0.1772 0.6916 101 R 0.0443 0.3906 0.5652 102 N 0.0587 0.2679 0.6735 103 L 0.0868 0.2501 0.6631 104 E 0.0838 0.2284 0.6878 105 T 0.0947 0.2093 0.6960 106 Q 0.0884 0.1662 0.7454 107 S 0.0809 0.1453 0.7738 108 T 0.1007 0.1133 0.7860 109 Q 0.0889 0.0572 0.8540 110 P 0.0557 0.1493 0.7950 111 E 0.0529 0.1607 0.7864 112 T 0.0787 0.1184 0.8029 113 G 0.0670 0.1456 0.7875 114 T 0.1207 0.1990 0.6802 115 S 0.1913 0.2198 0.5889 116 R 0.2721 0.1894 0.5386 117 T 0.4354 0.1312 0.4334 118 I 0.5072 0.0862 0.4066 119 V 0.4499 0.0850 0.4652 120 G 0.4419 0.0697 0.4884 121 F 0.3677 0.0609 0.5714 122 G 0.3220 0.0402 0.6378 123 F 0.3815 0.0472 0.5714 124 H 0.5211 0.0257 0.4532 125 D 0.7016 0.0143 0.2841 126 V 0.8934 0.0047 0.1019 127 V 0.9225 0.0038 0.0737 128 I 0.9169 0.0041 0.0790 129 E 0.8303 0.0096 0.1601 130 S 0.3248 0.0114 0.6638 131 P 0.0435 0.1215 0.8350 132 V 0.0398 0.1055 0.8547 133 H 0.0879 0.1129 0.7992 134 S 0.1120 0.0827 0.8053 135 I 0.1697 0.0768 0.7535 136 Q 0.2768 0.0612 0.6620 137 L 0.0968 0.4044 0.4988 138 S 0.0386 0.4648 0.4966 139 D 0.0471 0.3762 0.5767 140 I 0.1269 0.0561 0.8170 141 D 0.0682 0.0146 0.9172 142 P 0.0056 0.8921 0.1023 143 V 0.0049 0.9258 0.0693 144 G 0.0056 0.9275 0.0669 145 I 0.0049 0.9487 0.0465 146 G 0.0047 0.9588 0.0365 147 D 0.0047 0.9606 0.0348 148 I 0.0047 0.9607 0.0346 149 L 0.0046 0.9613 0.0340 150 I 0.0046 0.9617 0.0337 151 A 0.0046 0.9614 0.0339 152 Y 0.0046 0.9600 0.0354 153 K 0.0046 0.9609 0.0344 154 K 0.0047 0.9608 0.0345 155 R 0.0047 0.9582 0.0371 156 I 0.0047 0.9586 0.0367 157 N 0.0048 0.9531 0.0421 158 Q 0.0050 0.9401 0.0549 159 I 0.0062 0.9049 0.0889 160 A 0.0079 0.7763 0.2159 161 Q 0.0151 0.5707 0.4143 162 H 0.0570 0.1245 0.8185 163 D 0.0245 0.1124 0.8631 164 S 0.0442 0.1057 0.8502 165 I 0.2742 0.0560 0.6698 166 N 0.3510 0.0685 0.5806 167 Y 0.8246 0.0285 0.1469 168 I 0.8937 0.0178 0.0885 169 Q 0.8824 0.0378 0.0798 170 V 0.8635 0.0488 0.0877 171 F 0.8010 0.0667 0.1322 172 K 0.6762 0.1080 0.2158 173 N 0.3290 0.1107 0.5603 174 Q 0.1739 0.1025 0.7237 175 G 0.0915 0.0852 0.8232 176 A 0.0711 0.2662 0.6628 177 S 0.1137 0.3094 0.5769 178 A 0.1700 0.2601 0.5699 179 G 0.1439 0.1430 0.7131 180 A 0.1737 0.1068 0.7194 181 S 0.1870 0.0948 0.7182 182 M 0.0984 0.0791 0.8225 183 S 0.0729 0.1089 0.8182 184 H 0.0699 0.1028 0.8274 185 S 0.0525 0.2042 0.7433 186 H 0.0980 0.2275 0.6745 187 S 0.1759 0.2664 0.5577 188 Q 0.3717 0.3120 0.3163 189 M 0.5658 0.2064 0.2278 190 M 0.6920 0.1265 0.1815 191 A 0.5989 0.1402 0.2609 192 L 0.3341 0.0959 0.5700 193 P 0.1873 0.1051 0.7077 194 V 0.1529 0.0863 0.7608 195 V 0.1084 0.0283 0.8633 196 P 0.0665 0.0386 0.8949 197 P 0.0267 0.4983 0.4750 198 T 0.0339 0.7373 0.2288 199 V 0.0192 0.8557 0.1251 200 S 0.0162 0.8751 0.1088 201 S 0.0222 0.8593 0.1185 202 R 0.0185 0.8466 0.1348 203 L 0.0244 0.8127 0.1629 204 D 0.0109 0.8026 0.1865 205 G 0.0141 0.7040 0.2819 206 T 0.0261 0.7169 0.2571 207 K 0.0116 0.8528 0.1355 208 D 0.0154 0.8481 0.1364 209 Y 0.0193 0.8701 0.1106 210 F 0.0310 0.8440 0.1251 211 E 0.0219 0.8171 0.1610 212 E 0.0263 0.7301 0.2436 213 T 0.0598 0.4380 0.5022 214 G 0.0362 0.0958 0.8679 215 K 0.0939 0.0979 0.8082 216 C 0.3206 0.0959 0.5836 217 C 0.3880 0.1771 0.4349 218 L 0.4365 0.2400 0.3234 219 C 0.4301 0.2765 0.2934 220 E 0.4090 0.2591 0.3319 221 A 0.3432 0.2934 0.3633 222 K 0.2822 0.2396 0.4782 223 S 0.1209 0.1508 0.7283 224 K 0.1210 0.0624 0.8166 225 H 0.3239 0.0242 0.6519 226 F 0.5192 0.0115 0.4693 227 V 0.6455 0.0074 0.3471 228 I 0.6154 0.0141 0.3705 229 D 0.5676 0.0146 0.4179 230 E 0.3508 0.0948 0.5544 231 S 0.1815 0.0780 0.7405 232 S 0.0983 0.1061 0.7956 233 H 0.4180 0.0438 0.5382 234 F 0.8771 0.0062 0.1167 235 V 0.9178 0.0049 0.0773 236 S 0.9262 0.0039 0.0698 237 V 0.9135 0.0054 0.0811 238 A 0.7874 0.0107 0.2019 239 P 0.5796 0.0239 0.3965 240 F 0.2948 0.0955 0.6096 241 A 0.1745 0.0962 0.7293 242 A 0.0980 0.1368 0.7652 243 T 0.1191 0.1007 0.7802 244 Y 0.1414 0.0234 0.8352 245 P 0.1311 0.0555 0.8134 246 F 0.4421 0.0233 0.5346 247 E 0.7625 0.0131 0.2244 248 I 0.9160 0.0038 0.0802 249 W 0.9254 0.0034 0.0711 250 I 0.9080 0.0034 0.0886 251 I 0.7459 0.0068 0.2473 252 P 0.3968 0.0148 0.5884 253 K 0.0863 0.3948 0.5189 254 D 0.0642 0.4587 0.4771 255 H 0.0666 0.5222 0.4112 256 S 0.0867 0.3621 0.5512 257 S 0.0533 0.3740 0.5727 258 H 0.0710 0.3196 0.6093 259 F 0.0726 0.4704 0.4569 260 H 0.0456 0.4288 0.5256 261 H 0.0670 0.2832 0.6498 262 L 0.1119 0.0384 0.8497 263 D 0.0567 0.0299 0.9134 264 D 0.0058 0.9381 0.0560 265 V 0.0049 0.9502 0.0448 266 K 0.0052 0.9456 0.0492 267 A 0.0048 0.9512 0.0440 268 V 0.0053 0.9492 0.0455 269 D 0.0052 0.9447 0.0501 270 L 0.0050 0.9514 0.0436 271 G 0.0047 0.9577 0.0376 272 G 0.0047 0.9607 0.0346 273 L 0.0047 0.9607 0.0346 274 L 0.0047 0.9608 0.0346 275 K 0.0046 0.9617 0.0337 276 L 0.0046 0.9618 0.0335 277 M 0.0046 0.9606 0.0348 278 L 0.0046 0.9613 0.0341 279 Q 0.0046 0.9618 0.0336 280 K 0.0046 0.9614 0.0340 281 I 0.0047 0.9580 0.0373 282 A 0.0048 0.9534 0.0418 283 K 0.0060 0.9212 0.0728 284 Q 0.0138 0.7911 0.1951 285 L 0.0528 0.5167 0.4305 286 N 0.0382 0.0933 0.8685 287 D 0.0508 0.0253 0.9239 288 P 0.0456 0.0704 0.8840 289 P 0.0995 0.1367 0.7637 290 Y 0.4588 0.0821 0.4592 291 N 0.6343 0.0558 0.3099 292 Y 0.8421 0.0334 0.1245 293 M 0.8728 0.0260 0.1012 294 I 0.8526 0.0214 0.1260 295 H 0.7086 0.0231 0.2683 296 T 0.3790 0.0342 0.5869 297 S 0.1803 0.0379 0.7818 298 P 0.1051 0.0960 0.7989 299 L 0.1090 0.0894 0.8016 300 K 0.0911 0.0880 0.8209 301 V 0.0945 0.2163 0.6893 302 T 0.1024 0.3692 0.5284 303 E 0.0800 0.4846 0.4354 304 S 0.0652 0.3719 0.5630 305 Q 0.0534 0.1488 0.7979 306 L 0.1091 0.0301 0.8608 307 P 0.1526 0.0371 0.8103 308 Y 0.2798 0.0619 0.6583 309 T 0.4046 0.0660 0.5294 310 H 0.7302 0.0299 0.2400 311 W 0.8387 0.0153 0.1460 312 F 0.8982 0.0064 0.0955 313 L 0.9127 0.0047 0.0826 314 Q 0.9086 0.0044 0.0870 315 I 0.8741 0.0071 0.1189 316 V 0.6783 0.0101 0.3116 317 P 0.4438 0.0204 0.5358 318 Q 0.2276 0.0589 0.7135 319 L 0.1834 0.1334 0.6832 320 S 0.1362 0.1619 0.7019 321 G 0.1104 0.1560 0.7336 322 V 0.1554 0.1056 0.7390 323 G 0.0955 0.0963 0.8082 324 G 0.0842 0.0755 0.8402 325 F 0.2822 0.0683 0.6495 326 E 0.3736 0.0751 0.5512 327 I 0.3952 0.0834 0.5213 328 G 0.2623 0.0754 0.6623 329 T 0.2635 0.0901 0.6464 330 G 0.3086 0.0910 0.6004 331 C 0.4126 0.0651 0.5223 332 Y 0.5064 0.0415 0.4521 333 I 0.4162 0.0523 0.5315 334 N 0.1937 0.0303 0.7760 335 P 0.0852 0.0630 0.8518 336 V 0.1273 0.0190 0.8537 337 F 0.0745 0.0122 0.9133 338 P 0.0063 0.9312 0.0625 339 E 0.0047 0.9577 0.0376 340 D 0.0047 0.9591 0.0362 341 V 0.0048 0.9586 0.0367 342 A 0.0047 0.9599 0.0354 343 K 0.0047 0.9593 0.0360 344 V 0.0048 0.9567 0.0386 345 M 0.0049 0.9506 0.0445 346 R 0.0051 0.9348 0.0601 347 E 0.0060 0.8825 0.1115 348 V 0.0239 0.7475 0.2287 349 S 0.0395 0.4418 0.5187 350 L 0.0478 0.1431 0.8090 351 T 0.0415 0.0513 0.9073