# This file is the result of combining several RDB files, specifically # T0291.t04.dssp-ebghstl.rdb (weight 1.53986) # T0291.t04.stride-ebghtl.rdb (weight 1.24869) # T0291.t04.str2.rdb (weight 1.54758) # T0291.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 T0291.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0291 # 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 T0291.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 79.048 # # ============================================ # Comments from T0291.t04.stride-ebghtl.rdb # ============================================ # TARGET T0291 # 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 T0291.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 79.048 # # ============================================ # Comments from T0291.t04.str2.rdb # ============================================ # TARGET T0291 # 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 T0291.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 79.048 # # ============================================ # Comments from T0291.t04.alpha.rdb # ============================================ # TARGET T0291 # 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 T0291.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 79.048 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 T 0.0778 0.0371 0.8852 2 Y 0.1424 0.0382 0.8194 3 V 0.1783 0.0344 0.7872 4 D 0.1241 0.0193 0.8566 5 P 0.0569 0.2071 0.7361 6 H 0.0680 0.2043 0.7277 7 T 0.1273 0.1752 0.6976 8 Y 0.1389 0.0994 0.7617 9 E 0.1489 0.0747 0.7765 10 D 0.1081 0.0305 0.8615 11 P 0.0337 0.3370 0.6292 12 T 0.0423 0.3858 0.5719 13 Q 0.0587 0.4454 0.4960 14 A 0.0738 0.4964 0.4298 15 V 0.1150 0.5356 0.3494 16 H 0.1284 0.5266 0.3450 17 E 0.1434 0.4755 0.3811 18 F 0.1513 0.4011 0.4476 19 A 0.1756 0.3690 0.4553 20 K 0.2574 0.3207 0.4219 21 E 0.3532 0.2450 0.4018 22 L 0.4327 0.0688 0.4985 23 D 0.2447 0.0309 0.7244 24 A 0.0282 0.6390 0.3327 25 T 0.0321 0.5643 0.4036 26 N 0.0771 0.4441 0.4788 27 I 0.5316 0.0391 0.4293 28 S 0.7614 0.0206 0.2180 29 I 0.7953 0.0506 0.1540 30 D 0.7315 0.0648 0.2037 31 K 0.7332 0.0756 0.1912 32 V 0.7657 0.0576 0.1767 33 V 0.6806 0.0476 0.2718 34 G 0.4744 0.0403 0.4853 35 A 0.3814 0.0673 0.5513 36 G 0.2954 0.0680 0.6366 37 E 0.2849 0.0961 0.6191 38 F 0.3332 0.0834 0.5834 39 G 0.4728 0.0540 0.4732 40 E 0.7757 0.0327 0.1916 41 V 0.8633 0.0204 0.1163 42 C 0.8443 0.0312 0.1245 43 S 0.8552 0.0219 0.1229 44 G 0.8544 0.0150 0.1306 45 R 0.8903 0.0120 0.0977 46 L 0.8849 0.0085 0.1066 47 K 0.7855 0.0109 0.2037 48 L 0.3890 0.0147 0.5963 49 P 0.0658 0.0698 0.8644 50 S 0.0420 0.0693 0.8887 51 K 0.0558 0.0763 0.8679 52 K 0.1071 0.0509 0.8420 53 E 0.4593 0.0340 0.5067 54 I 0.7744 0.0080 0.2176 55 S 0.8699 0.0072 0.1229 56 V 0.9189 0.0044 0.0767 57 A 0.9240 0.0049 0.0711 58 I 0.9113 0.0065 0.0822 59 K 0.8595 0.0140 0.1264 60 T 0.7766 0.0196 0.2038 61 L 0.4149 0.0509 0.5342 62 K 0.1686 0.0635 0.7679 63 V 0.0411 0.1699 0.7890 64 G 0.0349 0.0873 0.8779 65 Y 0.0879 0.0398 0.8723 66 T 0.0583 0.0505 0.8912 67 E 0.0049 0.9382 0.0568 68 K 0.0047 0.9493 0.0459 69 Q 0.0048 0.9518 0.0434 70 R 0.0047 0.9556 0.0397 71 R 0.0049 0.9511 0.0440 72 D 0.0053 0.9413 0.0534 73 F 0.0053 0.9443 0.0504 74 L 0.0049 0.9520 0.0430 75 G 0.0048 0.9565 0.0387 76 E 0.0050 0.9529 0.0420 77 A 0.0048 0.9558 0.0394 78 S 0.0050 0.9460 0.0490 79 I 0.0060 0.9179 0.0761 80 M 0.0150 0.8451 0.1399 81 G 0.0118 0.6917 0.2965 82 Q 0.0199 0.5409 0.4392 83 F 0.0754 0.2282 0.6964 84 D 0.0646 0.0928 0.8426 85 H 0.0795 0.0689 0.8516 86 P 0.0189 0.2690 0.7121 87 N 0.0589 0.1874 0.7537 88 I 0.4060 0.1859 0.4081 89 I 0.7084 0.0905 0.2011 90 R 0.8287 0.0444 0.1269 91 L 0.8183 0.0479 0.1338 92 E 0.7818 0.0411 0.1771 93 G 0.8063 0.0192 0.1745 94 V 0.8451 0.0168 0.1381 95 V 0.8258 0.0192 0.1550 96 T 0.5666 0.0278 0.4056 97 K 0.2275 0.0609 0.7117 98 S 0.0910 0.0459 0.8631 99 K 0.1075 0.0239 0.8686 100 P 0.2090 0.0140 0.7771 101 V 0.7539 0.0071 0.2390 102 M 0.9205 0.0037 0.0758 103 I 0.9293 0.0036 0.0670 104 V 0.9200 0.0053 0.0747 105 T 0.8733 0.0112 0.1155 106 E 0.6958 0.0299 0.2744 107 Y 0.4285 0.0639 0.5076 108 M 0.1357 0.0596 0.8047 109 E 0.0598 0.1225 0.8177 110 N 0.0508 0.0531 0.8961 111 G 0.0550 0.0249 0.9201 112 S 0.1123 0.0263 0.8614 113 L 0.0132 0.8766 0.1102 114 D 0.0048 0.9400 0.0553 115 S 0.0051 0.9446 0.0503 116 F 0.0066 0.9346 0.0588 117 L 0.0132 0.8992 0.0876 118 R 0.0155 0.8140 0.1705 119 K 0.0165 0.6892 0.2943 120 H 0.0459 0.3035 0.6506 121 D 0.0419 0.1271 0.8310 122 A 0.0350 0.1435 0.8215 123 Q 0.1230 0.1014 0.7756 124 F 0.1853 0.0249 0.7898 125 T 0.1210 0.0336 0.8455 126 V 0.0053 0.9533 0.0415 127 I 0.0047 0.9605 0.0349 128 Q 0.0047 0.9603 0.0350 129 L 0.0047 0.9607 0.0346 130 V 0.0047 0.9605 0.0349 131 G 0.0046 0.9604 0.0349 132 M 0.0046 0.9606 0.0348 133 L 0.0047 0.9604 0.0349 134 R 0.0047 0.9607 0.0347 135 G 0.0047 0.9595 0.0358 136 I 0.0048 0.9540 0.0411 137 A 0.0048 0.9352 0.0600 138 S 0.0049 0.8521 0.1429 139 G 0.0054 0.8574 0.1372 140 M 0.0082 0.9228 0.0690 141 K 0.0051 0.9408 0.0541 142 Y 0.0064 0.9377 0.0559 143 L 0.0070 0.9321 0.0609 144 S 0.0062 0.8992 0.0945 145 D 0.0084 0.8200 0.1716 146 M 0.0513 0.4143 0.5344 147 G 0.0390 0.0470 0.9139 148 Y 0.1665 0.0884 0.7451 149 V 0.3585 0.1803 0.4612 150 H 0.1821 0.5042 0.3137 151 R 0.0696 0.6993 0.2312 152 D 0.0797 0.6933 0.2271 153 L 0.0197 0.8210 0.1593 154 A 0.0406 0.7080 0.2515 155 A 0.0790 0.6588 0.2622 156 R 0.0805 0.6206 0.2989 157 N 0.1721 0.4040 0.4240 158 I 0.3606 0.3059 0.3335 159 L 0.5357 0.2099 0.2545 160 I 0.4984 0.1407 0.3610 161 N 0.2022 0.0639 0.7338 162 S 0.0332 0.1163 0.8505 163 N 0.0447 0.0534 0.9019 164 L 0.2626 0.0303 0.7071 165 V 0.7818 0.0087 0.2095 166 C 0.8889 0.0058 0.1053 167 K 0.8965 0.0080 0.0955 168 V 0.8134 0.0269 0.1597 169 S 0.5199 0.0451 0.4350 170 D 0.2727 0.0571 0.6702 171 F 0.1399 0.1430 0.7171 172 G 0.1096 0.1831 0.7074 173 L 0.1498 0.2935 0.5567 174 G 0.2238 0.3110 0.4652 175 R 0.2755 0.3612 0.3633 176 V 0.3280 0.3153 0.3567 177 L 0.3234 0.2718 0.4048 178 E 0.2441 0.1554 0.6005 179 D 0.1216 0.0902 0.7881 180 D 0.1030 0.0206 0.8764 181 P 0.0226 0.3540 0.6234 182 E 0.0804 0.3493 0.5704 183 A 0.3266 0.3250 0.3484 184 A 0.5807 0.2007 0.2186 185 Y 0.7016 0.1475 0.1510 186 T 0.6110 0.1843 0.2046 187 T 0.4043 0.1706 0.4250 188 R 0.1322 0.0993 0.7685 189 G 0.0751 0.0419 0.8830 190 G 0.1747 0.0335 0.7919 191 K 0.4537 0.0198 0.5264 192 I 0.5895 0.0129 0.3976 193 P 0.5112 0.0225 0.4663 194 I 0.5756 0.0682 0.3562 195 R 0.5225 0.1199 0.3576 196 W 0.4253 0.1673 0.4073 197 T 0.2470 0.1416 0.6113 198 S 0.1287 0.1492 0.7221 199 P 0.0249 0.7321 0.2431 200 E 0.0378 0.8260 0.1362 201 A 0.0551 0.8300 0.1148 202 I 0.0663 0.7874 0.1463 203 A 0.0600 0.6702 0.2698 204 Y 0.0525 0.3330 0.6145 205 R 0.0767 0.1075 0.8158 206 K 0.1318 0.1068 0.7614 207 F 0.2388 0.0739 0.6873 208 T 0.1678 0.0560 0.7761 209 S 0.0685 0.3704 0.5611 210 A 0.0339 0.6642 0.3018 211 S 0.0590 0.6480 0.2929 212 D 0.0641 0.6932 0.2427 213 V 0.0332 0.8527 0.1141 214 W 0.0204 0.8612 0.1185 215 S 0.0177 0.8892 0.0931 216 Y 0.0180 0.8901 0.0919 217 G 0.0124 0.9241 0.0635 218 I 0.0203 0.9306 0.0492 219 V 0.0275 0.9287 0.0439 220 L 0.0270 0.9261 0.0469 221 W 0.0317 0.9160 0.0523 222 E 0.0456 0.8972 0.0572 223 V 0.0544 0.8723 0.0733 224 M 0.0770 0.7845 0.1385 225 S 0.0874 0.5883 0.3243 226 Y 0.0585 0.2411 0.7004 227 G 0.0565 0.0688 0.8747 228 E 0.1249 0.0592 0.8160 229 R 0.1531 0.0272 0.8197 230 P 0.1656 0.0604 0.7741 231 Y 0.1224 0.1264 0.7512 232 W 0.0670 0.1817 0.7513 233 E 0.0607 0.1156 0.8237 234 M 0.1335 0.0230 0.8435 235 S 0.0812 0.0194 0.8994 236 N 0.0081 0.8987 0.0932 237 Q 0.0049 0.9560 0.0390 238 D 0.0048 0.9574 0.0378 239 V 0.0047 0.9589 0.0364 240 I 0.0049 0.9567 0.0384 241 K 0.0056 0.9550 0.0394 242 A 0.0057 0.9492 0.0450 243 V 0.0106 0.9292 0.0601 244 D 0.0151 0.8704 0.1144 245 E 0.0380 0.3846 0.5774 246 G 0.0296 0.0756 0.8948 247 Y 0.1051 0.0242 0.8707 248 R 0.2556 0.0165 0.7279 249 L 0.1273 0.0105 0.8622 250 P 0.0768 0.0115 0.9117 251 P 0.0681 0.0118 0.9201 252 P 0.0578 0.0427 0.8996 253 M 0.0188 0.1707 0.8105 254 D 0.0246 0.1633 0.8121 255 C 0.0664 0.0300 0.9036 256 P 0.0492 0.2903 0.6605 257 A 0.0053 0.9331 0.0616 258 A 0.0047 0.9544 0.0409 259 L 0.0047 0.9593 0.0360 260 Y 0.0047 0.9605 0.0348 261 Q 0.0046 0.9606 0.0347 262 L 0.0047 0.9584 0.0369 263 M 0.0048 0.9551 0.0402 264 L 0.0048 0.9464 0.0488 265 D 0.0053 0.9248 0.0699 266 C 0.0067 0.8790 0.1143 267 W 0.0132 0.7822 0.2046 268 Q 0.0231 0.6252 0.3518 269 K 0.0424 0.4788 0.4788 270 D 0.0860 0.0822 0.8318 271 R 0.0094 0.4630 0.5276 272 N 0.0105 0.3975 0.5920 273 N 0.0215 0.3639 0.6146 274 R 0.0799 0.0380 0.8821 275 P 0.1097 0.0375 0.8527 276 K 0.1528 0.0646 0.7826 277 F 0.0048 0.9472 0.0480 278 E 0.0047 0.9604 0.0350 279 Q 0.0047 0.9608 0.0346 280 I 0.0047 0.9605 0.0349 281 V 0.0047 0.9599 0.0354 282 S 0.0047 0.9568 0.0385 283 I 0.0047 0.9505 0.0448 284 L 0.0048 0.9516 0.0436 285 D 0.0049 0.9500 0.0451 286 K 0.0053 0.9313 0.0634 287 L 0.0072 0.8929 0.0998 288 I 0.0188 0.7485 0.2327 289 R 0.0285 0.4944 0.4771 290 N 0.0761 0.0567 0.8671 291 P 0.0243 0.2726 0.7031 292 G 0.0333 0.2560 0.7107 293 S 0.1187 0.3330 0.5482 294 L 0.2910 0.2690 0.4400 295 K 0.4579 0.2191 0.3230 296 I 0.5510 0.1778 0.2713 297 I 0.4721 0.1669 0.3611 298 T 0.3135 0.1853 0.5012 299 S 0.1858 0.2261 0.5880 300 A 0.1091 0.3606 0.5302 301 A 0.0986 0.3270 0.5744 302 A 0.0905 0.2401 0.6693 303 R 0.1047 0.0747 0.8206 304 P 0.0876 0.1145 0.7979 305 S 0.0848 0.2618 0.6534 306 N 0.0959 0.3454 0.5588 307 L 0.1215 0.3239 0.5547 308 L 0.1457 0.2330 0.6213 309 L 0.1104 0.1217 0.7679 310 D 0.0607 0.0401 0.8992