# This file is the result of combining several RDB files, specifically # T0158.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0158.t2k.stride-ebghtl.rdb (weight 1.24869) # T0158.t2k.str.rdb (weight 1.53983) # T0158.t2k.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 T0158.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0158 # 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 T0158.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 234 # # ============================================ # Comments from T0158.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0158 # 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 T0158.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 234 # # ============================================ # Comments from T0158.t2k.str.rdb # ============================================ # TARGET T0158 # 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 T0158.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 234 # # ============================================ # Comments from T0158.t2k.alpha.rdb # ============================================ # TARGET T0158 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0158.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 234 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0972 0.0186 0.8842 2 K 0.4493 0.0232 0.5275 3 P 0.5937 0.0264 0.3798 4 E 0.6501 0.0324 0.3175 5 N 0.6018 0.0411 0.3572 6 K 0.5731 0.0485 0.3783 7 L 0.4741 0.0525 0.4735 8 P 0.3240 0.0587 0.6174 9 V 0.1630 0.0506 0.7864 10 L 0.1338 0.0477 0.8185 11 D 0.1242 0.0650 0.8107 12 L 0.0815 0.2151 0.7034 13 I 0.0591 0.2148 0.7261 14 S 0.0559 0.1955 0.7486 15 A 0.0430 0.5408 0.4162 16 E 0.0356 0.6903 0.2741 17 M 0.0467 0.7678 0.1855 18 K 0.0554 0.7781 0.1665 19 T 0.0645 0.7598 0.1757 20 V 0.0704 0.7385 0.1911 21 V 0.0630 0.6812 0.2558 22 N 0.0612 0.5294 0.4093 23 T 0.0788 0.3224 0.5988 24 L 0.0961 0.1638 0.7401 25 Q 0.0866 0.1620 0.7514 26 P 0.0804 0.1813 0.7384 27 D 0.0756 0.1884 0.7360 28 L 0.0873 0.1499 0.7628 29 P 0.0985 0.1234 0.7781 30 P 0.1009 0.1463 0.7528 31 W 0.1037 0.1659 0.7304 32 P 0.0962 0.1856 0.7182 33 A 0.1066 0.1766 0.7168 34 T 0.1225 0.1691 0.7083 35 G 0.1198 0.1324 0.7479 36 T 0.0952 0.1285 0.7763 37 I 0.0405 0.5484 0.4111 38 A 0.0276 0.5797 0.3927 39 E 0.0380 0.5742 0.3878 40 Q 0.0547 0.5088 0.4365 41 R 0.0563 0.5437 0.4000 42 Q 0.0489 0.6264 0.3247 43 Y 0.0482 0.6485 0.3033 44 Y 0.0585 0.6446 0.2969 45 T 0.0550 0.6436 0.3013 46 L 0.0640 0.6004 0.3356 47 E 0.0872 0.5206 0.3923 48 R 0.0981 0.4067 0.4952 49 R 0.1004 0.3292 0.5704 50 F 0.0931 0.2479 0.6590 51 W 0.0766 0.2103 0.7131 52 N 0.0818 0.1443 0.7739 53 A 0.0756 0.1394 0.7850 54 G 0.0814 0.1197 0.7989 55 A 0.0852 0.1231 0.7916 56 P 0.0933 0.1643 0.7425 57 E 0.1261 0.1681 0.7058 58 M 0.2427 0.1133 0.6440 59 A 0.4330 0.0724 0.4946 60 T 0.5658 0.0647 0.3695 61 R 0.6265 0.0560 0.3175 62 A 0.6569 0.0440 0.2991 63 Y 0.6708 0.0318 0.2974 64 M 0.6655 0.0246 0.3099 65 V 0.6330 0.0225 0.3445 66 P 0.4991 0.0383 0.4626 67 T 0.2667 0.0596 0.6737 68 K 0.1185 0.0944 0.7872 69 Y 0.0789 0.1384 0.7827 70 G 0.0716 0.1006 0.8278 71 Q 0.1634 0.0540 0.7826 72 V 0.4840 0.0117 0.5042 73 E 0.7444 0.0070 0.2487 74 T 0.8785 0.0046 0.1169 75 R 0.9046 0.0045 0.0909 76 L 0.9001 0.0045 0.0953 77 F 0.8727 0.0060 0.1213 78 C 0.7414 0.0076 0.2510 79 P 0.3535 0.0167 0.6298 80 Q 0.1018 0.0807 0.8176 81 P 0.0570 0.0854 0.8576 82 D 0.0572 0.0729 0.8699 83 S 0.0596 0.0498 0.8906 84 P 0.1076 0.0135 0.8790 85 A 0.2689 0.0071 0.7241 86 T 0.8895 0.0040 0.1066 87 L 0.9321 0.0034 0.0645 88 F 0.9324 0.0035 0.0641 89 Y 0.9270 0.0036 0.0694 90 L 0.8153 0.0071 0.1776 91 H 0.3740 0.0259 0.6001 92 G 0.1376 0.0602 0.8022 93 G 0.0869 0.2076 0.7055 94 G 0.0979 0.3730 0.5291 95 F 0.1454 0.4585 0.3961 96 I 0.2455 0.3890 0.3655 97 L 0.2144 0.2723 0.5133 98 G 0.1148 0.0939 0.7914 99 N 0.0822 0.0816 0.8362 100 L 0.0229 0.5726 0.4045 101 D 0.0167 0.5721 0.4112 102 T 0.0244 0.6046 0.3711 103 H 0.0223 0.5607 0.4170 104 D 0.0164 0.7073 0.2764 105 R 0.0063 0.8989 0.0948 106 I 0.0048 0.9364 0.0588 107 M 0.0045 0.9521 0.0434 108 R 0.0045 0.9572 0.0384 109 L 0.0045 0.9575 0.0380 110 L 0.0044 0.9582 0.0374 111 A 0.0044 0.9560 0.0396 112 S 0.0049 0.9437 0.0514 113 Y 0.0060 0.8975 0.0965 114 S 0.0469 0.4237 0.5294 115 Q 0.0394 0.0175 0.9430 116 C 0.1223 0.0079 0.8698 117 T 0.7024 0.0041 0.2935 118 V 0.9242 0.0034 0.0724 119 I 0.9246 0.0048 0.0706 120 G 0.9126 0.0039 0.0834 121 I 0.7299 0.0125 0.2576 122 D 0.4060 0.0261 0.5678 123 Y 0.1836 0.0651 0.7513 124 T 0.1716 0.1016 0.7268 125 L 0.1357 0.0921 0.7722 126 S 0.0760 0.0515 0.8725 127 P 0.0657 0.0882 0.8461 128 E 0.0681 0.1038 0.8282 129 A 0.1034 0.0703 0.8262 130 R 0.0740 0.0945 0.8315 131 F 0.0682 0.0879 0.8439 132 P 0.0460 0.3197 0.6343 133 Q 0.0285 0.5664 0.4051 134 A 0.0216 0.7188 0.2596 135 I 0.0050 0.9270 0.0680 136 E 0.0046 0.9481 0.0473 137 E 0.0047 0.9484 0.0469 138 I 0.0044 0.9589 0.0367 139 V 0.0044 0.9609 0.0348 140 A 0.0044 0.9610 0.0347 141 A 0.0043 0.9608 0.0349 142 C 0.0044 0.9608 0.0348 143 C 0.0044 0.9605 0.0352 144 Y 0.0043 0.9581 0.0376 145 F 0.0044 0.9532 0.0424 146 H 0.0046 0.9330 0.0624 147 Q 0.0052 0.8813 0.1135 148 Q 0.0078 0.8301 0.1621 149 A 0.0071 0.8343 0.1585 150 E 0.0080 0.8152 0.1769 151 D 0.0102 0.7595 0.2303 152 Y 0.0528 0.4015 0.5457 153 Q 0.0666 0.0508 0.8826 154 I 0.1281 0.0214 0.8504 155 N 0.1430 0.0173 0.8397 156 M 0.0392 0.4040 0.5568 157 S 0.0272 0.3323 0.6405 158 R 0.2345 0.2514 0.5141 159 I 0.8502 0.0093 0.1405 160 G 0.9115 0.0061 0.0824 161 F 0.9173 0.0065 0.0762 162 A 0.8007 0.0305 0.1688 163 G 0.3400 0.0576 0.6025 164 D 0.0748 0.2040 0.7212 165 S 0.0511 0.3179 0.6311 166 A 0.0179 0.7292 0.2529 167 G 0.0103 0.8602 0.1295 168 A 0.0050 0.9421 0.0529 169 M 0.0044 0.9566 0.0390 170 L 0.0044 0.9589 0.0366 171 A 0.0044 0.9603 0.0354 172 L 0.0044 0.9601 0.0355 173 A 0.0044 0.9597 0.0359 174 S 0.0044 0.9561 0.0395 175 A 0.0045 0.9419 0.0536 176 L 0.0049 0.9091 0.0860 177 W 0.0084 0.8599 0.1317 178 L 0.0102 0.7882 0.2016 179 R 0.0157 0.7294 0.2549 180 D 0.0225 0.6018 0.3756 181 K 0.0485 0.3520 0.5996 182 Q 0.0434 0.1437 0.8129 183 I 0.0665 0.1212 0.8123 184 D 0.0679 0.1245 0.8076 185 C 0.0727 0.1099 0.8174 186 G 0.0973 0.0774 0.8252 187 K 0.1871 0.0650 0.7480 188 V 0.2987 0.0972 0.6040 189 A 0.5482 0.1016 0.3503 190 G 0.8176 0.0479 0.1345 191 V 0.8956 0.0222 0.0822 192 L 0.9058 0.0156 0.0786 193 L 0.8806 0.0223 0.0971 194 W 0.7502 0.0414 0.2084 195 Y 0.4134 0.0509 0.5357 196 G 0.2417 0.1078 0.6506 197 L 0.2036 0.1601 0.6364 198 Y 0.1647 0.1906 0.6447 199 G 0.1321 0.1383 0.7296 200 L 0.0737 0.3006 0.6257 201 R 0.0702 0.3082 0.6216 202 D 0.0771 0.2699 0.6530 203 S 0.0717 0.1901 0.7381 204 V 0.0852 0.1395 0.7753 205 T 0.0514 0.3796 0.5690 206 R 0.0637 0.4636 0.4727 207 R 0.0462 0.6649 0.2889 208 L 0.0618 0.6493 0.2889 209 L 0.0606 0.5876 0.3518 210 G 0.0631 0.4789 0.4580 211 G 0.0454 0.4018 0.5528 212 V 0.0405 0.3026 0.6569 213 W 0.0652 0.1741 0.7607 214 D 0.0721 0.2342 0.6937 215 G 0.1274 0.2119 0.6606 216 L 0.1320 0.1230 0.7450 217 T 0.0799 0.0960 0.8241 218 Q 0.0083 0.8969 0.0948 219 Q 0.0048 0.9319 0.0632 220 D 0.0047 0.9429 0.0524 221 L 0.0044 0.9524 0.0432 222 Q 0.0047 0.9497 0.0455 223 M 0.0051 0.9449 0.0500 224 Y 0.0052 0.9392 0.0556 225 E 0.0056 0.9313 0.0631 226 E 0.0059 0.9134 0.0807 227 A 0.0100 0.8455 0.1444 228 Y 0.0310 0.6724 0.2967 229 L 0.0713 0.2825 0.6462 230 S 0.0479 0.1455 0.8066 231 N 0.0399 0.1544 0.8056 232 D 0.0399 0.1646 0.7955 233 A 0.0712 0.1496 0.7792 234 D 0.0847 0.1320 0.7833 235 R 0.0429 0.2772 0.6799 236 E 0.0413 0.2461 0.7126 237 S 0.0775 0.1540 0.7685 238 P 0.0442 0.2802 0.6756 239 Y 0.0918 0.2454 0.6628 240 Y 0.1835 0.1835 0.6330 241 C 0.1342 0.1043 0.7615 242 L 0.0714 0.3494 0.5792 243 F 0.0932 0.3750 0.5318 244 N 0.0896 0.2977 0.6128 245 N 0.0677 0.3113 0.6210 246 D 0.0434 0.4374 0.5192 247 L 0.0515 0.3874 0.5612 248 T 0.0543 0.3730 0.5726 249 R 0.0359 0.2106 0.7535 250 E 0.0392 0.1210 0.8399 251 V 0.1003 0.0285 0.8712 252 P 0.0785 0.0172 0.9043 253 P 0.3226 0.0188 0.6586 254 C 0.8172 0.0083 0.1746 255 F 0.9124 0.0051 0.0826 256 I 0.9199 0.0044 0.0757 257 A 0.9092 0.0058 0.0850 258 G 0.7968 0.0146 0.1886 259 A 0.3707 0.0343 0.5950 260 E 0.1150 0.1070 0.7780 261 F 0.0647 0.1067 0.8286 262 D 0.1055 0.0760 0.8185 263 P 0.0437 0.2738 0.6825 264 L 0.0454 0.3191 0.6355 265 L 0.0352 0.5260 0.4388 266 D 0.0201 0.7431 0.2368 267 D 0.0111 0.8237 0.1652 268 S 0.0062 0.9120 0.0818 269 R 0.0048 0.9504 0.0448 270 L 0.0045 0.9550 0.0405 271 L 0.0045 0.9552 0.0403 272 Y 0.0048 0.9583 0.0369 273 Q 0.0046 0.9571 0.0383 274 T 0.0046 0.9573 0.0381 275 L 0.0046 0.9566 0.0388 276 A 0.0049 0.9431 0.0520 277 A 0.0053 0.8630 0.1317 278 H 0.0443 0.3353 0.6205 279 Q 0.0416 0.0156 0.9428 280 Q 0.0794 0.0094 0.9112 281 P 0.4105 0.0079 0.5816 282 C 0.7486 0.0073 0.2441 283 E 0.8843 0.0052 0.1105 284 F 0.9059 0.0040 0.0901 285 K 0.8934 0.0047 0.1019 286 L 0.8059 0.0065 0.1876 287 Y 0.4023 0.0160 0.5817 288 P 0.0539 0.0671 0.8790 289 G 0.0355 0.0457 0.9189 290 T 0.2501 0.0357 0.7142 291 L 0.4438 0.0543 0.5018 292 H 0.5443 0.0917 0.3640 293 A 0.4882 0.1702 0.3415 294 F 0.4138 0.2810 0.3052 295 L 0.3487 0.3748 0.2765 296 H 0.2150 0.3715 0.4135 297 Y 0.1279 0.2282 0.6439 298 S 0.0607 0.2976 0.6418 299 R 0.0381 0.3398 0.6221 300 M 0.0429 0.3426 0.6145 301 M 0.0507 0.2794 0.6699 302 K 0.0087 0.8086 0.1826 303 T 0.0068 0.8853 0.1078 304 A 0.0046 0.9317 0.0637 305 D 0.0045 0.9462 0.0494 306 E 0.0045 0.9482 0.0473 307 A 0.0045 0.9505 0.0450 308 L 0.0044 0.9563 0.0393 309 R 0.0044 0.9580 0.0376 310 D 0.0044 0.9577 0.0379 311 G 0.0044 0.9585 0.0371 312 A 0.0044 0.9582 0.0374 313 Q 0.0044 0.9543 0.0413 314 F 0.0045 0.9456 0.0499 315 F 0.0046 0.9346 0.0608 316 T 0.0050 0.8938 0.1012 317 A 0.0084 0.6874 0.3041 318 Q 0.0171 0.4533 0.5296 319 L 0.0327 0.0558 0.9115