# This file is the result of combining several RDB files, specifically # T0315.t06.dssp-ebghstl.rdb (weight 1.53986) # T0315.t06.stride-ebghtl.rdb (weight 1.24869) # T0315.t06.str2.rdb (weight 1.54758) # T0315.t06.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 T0315.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0315 # 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 T0315.t06-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 891 # # ============================================ # Comments from T0315.t06.stride-ebghtl.rdb # ============================================ # TARGET T0315 # Using neural net t06-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 T0315.t06-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 891 # # ============================================ # Comments from T0315.t06.str2.rdb # ============================================ # TARGET T0315 # 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 T0315.t06-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 891 # # ============================================ # Comments from T0315.t06.alpha.rdb # ============================================ # TARGET T0315 # Using neural net t06-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 T0315.t06-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 891 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1147 0.0152 0.8701 2 L 0.5458 0.0183 0.4359 3 I 0.6670 0.0194 0.3135 4 D 0.6033 0.0262 0.3705 5 T 0.5256 0.0883 0.3860 6 H 0.5519 0.0656 0.3825 7 V 0.5502 0.0534 0.3963 8 H 0.4561 0.0355 0.5084 9 L 0.2220 0.0570 0.7210 10 N 0.1353 0.0348 0.8299 11 D 0.0422 0.2812 0.6766 12 E 0.0091 0.5901 0.4007 13 Q 0.0137 0.6292 0.3570 14 Y 0.0363 0.5000 0.4637 15 D 0.0431 0.3953 0.5616 16 D 0.0285 0.3716 0.5999 17 D 0.0586 0.2989 0.6425 18 L 0.0049 0.9389 0.0562 19 S 0.0047 0.9570 0.0383 20 E 0.0047 0.9590 0.0364 21 V 0.0047 0.9606 0.0348 22 I 0.0047 0.9610 0.0344 23 T 0.0046 0.9598 0.0356 24 R 0.0047 0.9603 0.0350 25 A 0.0047 0.9594 0.0359 26 R 0.0048 0.9524 0.0428 27 E 0.0051 0.9282 0.0667 28 A 0.0417 0.4154 0.5429 29 G 0.0465 0.0118 0.9417 30 V 0.1046 0.0065 0.8889 31 D 0.2573 0.0415 0.7011 32 R 0.9070 0.0040 0.0890 33 M 0.9288 0.0033 0.0679 34 F 0.9291 0.0033 0.0676 35 V 0.8977 0.0044 0.0979 36 V 0.6478 0.0259 0.3263 37 G 0.2761 0.0217 0.7022 38 F 0.1504 0.0282 0.8213 39 N 0.1055 0.0142 0.8803 40 K 0.0092 0.7548 0.2360 41 S 0.0077 0.8047 0.1876 42 T 0.0094 0.8626 0.1280 43 I 0.0048 0.9514 0.0438 44 E 0.0047 0.9588 0.0366 45 R 0.0047 0.9591 0.0362 46 A 0.0047 0.9593 0.0360 47 M 0.0047 0.9592 0.0362 48 K 0.0047 0.9579 0.0374 49 L 0.0049 0.9511 0.0440 50 I 0.0052 0.9389 0.0559 51 D 0.0058 0.8684 0.1259 52 E 0.0113 0.6859 0.3028 53 Y 0.0673 0.1465 0.7862 54 D 0.0287 0.1182 0.8530 55 F 0.1221 0.0830 0.7950 56 L 0.7423 0.0165 0.2412 57 Y 0.8624 0.0131 0.1245 58 G 0.8800 0.0102 0.1098 59 I 0.8587 0.0129 0.1285 60 I 0.7500 0.0331 0.2168 61 G 0.5797 0.0250 0.3953 62 W 0.4055 0.0363 0.5582 63 H 0.2156 0.0263 0.7581 64 P 0.0663 0.3582 0.5755 65 V 0.0468 0.4722 0.4811 66 D 0.0764 0.5097 0.4139 67 A 0.0468 0.6040 0.3492 68 I 0.0457 0.5268 0.4275 69 D 0.0621 0.4251 0.5128 70 F 0.0771 0.2362 0.6867 71 T 0.0546 0.2069 0.7385 72 E 0.0055 0.9090 0.0854 73 E 0.0051 0.9186 0.0763 74 H 0.0051 0.9404 0.0545 75 L 0.0047 0.9576 0.0377 76 E 0.0047 0.9584 0.0369 77 W 0.0047 0.9567 0.0386 78 I 0.0047 0.9565 0.0387 79 E 0.0047 0.9568 0.0384 80 S 0.0050 0.9488 0.0463 81 L 0.0063 0.9104 0.0833 82 A 0.0086 0.7844 0.2069 83 Q 0.0142 0.4648 0.5210 84 H 0.0583 0.0373 0.9044 85 P 0.0478 0.0843 0.8678 86 K 0.1822 0.0611 0.7566 87 V 0.7527 0.0119 0.2354 88 I 0.8729 0.0162 0.1109 89 G 0.9003 0.0066 0.0932 90 I 0.8551 0.0253 0.1196 91 G 0.7572 0.0211 0.2217 92 E 0.5861 0.0555 0.3584 93 M 0.4178 0.0783 0.5039 94 G 0.2799 0.1045 0.6157 95 L 0.2529 0.1492 0.5979 96 D 0.2606 0.1935 0.5459 97 Y 0.2069 0.2405 0.5527 98 H 0.1820 0.1420 0.6760 99 W 0.1222 0.1276 0.7503 100 D 0.0860 0.0870 0.8271 101 K 0.0465 0.1015 0.8520 102 S 0.0594 0.0366 0.9040 103 P 0.0498 0.2626 0.6877 104 A 0.0226 0.6877 0.2897 105 D 0.0093 0.9088 0.0819 106 V 0.0054 0.9432 0.0514 107 Q 0.0051 0.9444 0.0505 108 K 0.0047 0.9570 0.0384 109 E 0.0047 0.9567 0.0386 110 V 0.0047 0.9555 0.0398 111 F 0.0047 0.9586 0.0367 112 R 0.0047 0.9613 0.0341 113 K 0.0046 0.9612 0.0341 114 Q 0.0046 0.9611 0.0342 115 I 0.0046 0.9612 0.0341 116 A 0.0046 0.9606 0.0348 117 L 0.0047 0.9598 0.0355 118 A 0.0047 0.9586 0.0367 119 K 0.0048 0.9512 0.0440 120 R 0.0059 0.9034 0.0907 121 L 0.0469 0.4372 0.5159 122 K 0.0278 0.0309 0.9413 123 L 0.0615 0.0082 0.9303 124 P 0.2244 0.0055 0.7701 125 I 0.8941 0.0039 0.1020 126 I 0.9272 0.0034 0.0694 127 I 0.9118 0.0077 0.0805 128 H 0.8145 0.0126 0.1730 129 N 0.3638 0.0223 0.6139 130 R 0.0870 0.2082 0.7048 131 E 0.0752 0.2753 0.6495 132 A 0.0499 0.4013 0.5488 133 T 0.0223 0.6159 0.3618 134 Q 0.0065 0.8995 0.0940 135 D 0.0060 0.9191 0.0749 136 C 0.0048 0.9490 0.0463 137 I 0.0047 0.9581 0.0372 138 D 0.0047 0.9595 0.0358 139 I 0.0047 0.9589 0.0364 140 L 0.0048 0.9540 0.0412 141 L 0.0050 0.9374 0.0576 142 E 0.0075 0.8612 0.1313 143 E 0.0193 0.6637 0.3171 144 H 0.0336 0.3858 0.5806 145 A 0.0572 0.3490 0.5939 146 E 0.0371 0.4759 0.4870 147 E 0.0846 0.3545 0.5608 148 V 0.2393 0.0796 0.6810 149 G 0.3797 0.0250 0.5953 150 G 0.8099 0.0080 0.1821 151 I 0.9087 0.0053 0.0861 152 M 0.8817 0.0115 0.1068 153 H 0.7607 0.0128 0.2265 154 S 0.3770 0.0289 0.5941 155 F 0.1358 0.0420 0.8222 156 S 0.0893 0.0418 0.8689 157 G 0.0528 0.0369 0.9104 158 S 0.0654 0.0359 0.8988 159 P 0.0054 0.9421 0.0525 160 E 0.0047 0.9558 0.0394 161 I 0.0048 0.9562 0.0390 162 A 0.0047 0.9584 0.0369 163 D 0.0047 0.9534 0.0419 164 I 0.0053 0.9305 0.0641 165 V 0.0082 0.9042 0.0876 166 T 0.0141 0.8394 0.1466 167 N 0.0108 0.7026 0.2866 168 K 0.0182 0.4798 0.5020 169 L 0.0655 0.1458 0.7887 170 N 0.1117 0.0296 0.8587 171 F 0.6420 0.0076 0.3504 172 Y 0.9172 0.0038 0.0790 173 I 0.9212 0.0041 0.0747 174 S 0.8999 0.0049 0.0952 175 L 0.7489 0.0135 0.2376 176 G 0.3413 0.0294 0.6292 177 G 0.2346 0.0296 0.7357 178 P 0.2484 0.0680 0.6836 179 V 0.2941 0.0961 0.6098 180 T 0.2467 0.1007 0.6526 181 F 0.1334 0.1886 0.6781 182 K 0.0832 0.2382 0.6786 183 N 0.0831 0.1690 0.7480 184 A 0.0449 0.3344 0.6207 185 K 0.0356 0.3971 0.5673 186 Q 0.0620 0.3275 0.6105 187 P 0.0133 0.8779 0.1089 188 K 0.0059 0.9359 0.0582 189 E 0.0063 0.9438 0.0499 190 V 0.0054 0.9392 0.0554 191 A 0.0092 0.9066 0.0843 192 K 0.0113 0.7818 0.2068 193 H 0.0167 0.5481 0.4352 194 V 0.0738 0.1050 0.8212 195 S 0.0796 0.0479 0.8725 196 M 0.0301 0.5849 0.3851 197 E 0.0476 0.5586 0.3937 198 R 0.2492 0.4764 0.2744 199 L 0.6531 0.1638 0.1831 200 L 0.7934 0.1005 0.1061 201 V 0.7687 0.1000 0.1313 202 E 0.6876 0.0789 0.2335 203 T 0.4086 0.0627 0.5287 204 D 0.1751 0.0604 0.7645 205 A 0.0884 0.1328 0.7788 206 P 0.0432 0.2452 0.7115 207 Y 0.0711 0.2025 0.7265 208 L 0.1087 0.0798 0.8115 209 S 0.0941 0.0387 0.8672 210 P 0.0981 0.0643 0.8376 211 H 0.1201 0.0473 0.8326 212 P 0.0958 0.1259 0.7783 213 Y 0.1170 0.1436 0.7394 214 R 0.1008 0.1375 0.7618 215 G 0.0638 0.0771 0.8592 216 K 0.1129 0.0704 0.8167 217 R 0.1577 0.1060 0.7363 218 N 0.1036 0.1056 0.7908 219 E 0.0954 0.1147 0.7899 220 P 0.0671 0.3948 0.5381 221 A 0.0497 0.6110 0.3393 222 R 0.0535 0.7013 0.2452 223 V 0.0179 0.8768 0.1054 224 T 0.0076 0.9379 0.0545 225 L 0.0071 0.9511 0.0417 226 V 0.0051 0.9548 0.0402 227 A 0.0047 0.9582 0.0371 228 E 0.0046 0.9615 0.0339 229 Q 0.0047 0.9604 0.0350 230 I 0.0047 0.9588 0.0365 231 A 0.0048 0.9560 0.0391 232 E 0.0055 0.9414 0.0531 233 L 0.0111 0.8837 0.1052 234 K 0.0429 0.4450 0.5120 235 G 0.0322 0.0269 0.9409 236 L 0.0833 0.0104 0.9063 237 S 0.0739 0.0078 0.9183 238 Y 0.0050 0.9400 0.0550 239 E 0.0047 0.9588 0.0365 240 E 0.0047 0.9601 0.0352 241 V 0.0047 0.9612 0.0342 242 C 0.0047 0.9597 0.0357 243 E 0.0047 0.9575 0.0378 244 Q 0.0048 0.9500 0.0452 245 T 0.0050 0.9397 0.0553 246 T 0.0056 0.9206 0.0738 247 K 0.0060 0.8950 0.0990 248 N 0.0075 0.8336 0.1589 249 A 0.0049 0.9471 0.0480 250 E 0.0053 0.9485 0.0462 251 K 0.0057 0.9386 0.0557 252 L 0.0073 0.8953 0.0975 253 F 0.0245 0.6596 0.3160 254 N 0.0299 0.2250 0.7451 255 L 0.0617 0.0738 0.8645 256 N 0.0490 0.0565 0.8945 257 S 0.0547 0.0325 0.9128