# This file is the result of combining several RDB files, specifically # T0361.t06.dssp-ebghstl.rdb (weight 1.53986) # T0361.t06.stride-ebghtl.rdb (weight 1.24869) # T0361.t06.str2.rdb (weight 1.54758) # T0361.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 T0361.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0361 # 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 T0361.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 9.19624 # # ============================================ # Comments from T0361.t06.stride-ebghtl.rdb # ============================================ # TARGET T0361 # 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 T0361.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 9.19624 # # ============================================ # Comments from T0361.t06.str2.rdb # ============================================ # TARGET T0361 # 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 T0361.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 9.19624 # # ============================================ # Comments from T0361.t06.alpha.rdb # ============================================ # TARGET T0361 # 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 T0361.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 9.19624 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0546 0.0623 0.8831 2 A 0.0950 0.1323 0.7727 3 T 0.1463 0.1608 0.6929 4 L 0.1420 0.1726 0.6854 5 T 0.1356 0.1881 0.6763 6 E 0.0732 0.3962 0.5307 7 D 0.0595 0.3893 0.5512 8 D 0.0543 0.6394 0.3063 9 V 0.1045 0.7267 0.1688 10 L 0.1265 0.7299 0.1436 11 E 0.1160 0.7060 0.1780 12 Q 0.1076 0.6665 0.2259 13 L 0.0867 0.5502 0.3631 14 D 0.0493 0.3849 0.5658 15 A 0.0318 0.3311 0.6372 16 Q 0.0473 0.2679 0.6848 17 D 0.0271 0.4031 0.5698 18 N 0.0469 0.4558 0.4974 19 L 0.0054 0.9249 0.0697 20 F 0.0047 0.9539 0.0414 21 S 0.0047 0.9582 0.0371 22 F 0.0047 0.9595 0.0358 23 M 0.0047 0.9603 0.0351 24 K 0.0046 0.9598 0.0355 25 T 0.0047 0.9568 0.0385 26 A 0.0047 0.9573 0.0381 27 H 0.0047 0.9594 0.0359 28 S 0.0047 0.9599 0.0354 29 I 0.0047 0.9587 0.0367 30 L 0.0048 0.9552 0.0401 31 L 0.0047 0.9541 0.0412 32 Q 0.0048 0.9443 0.0508 33 G 0.0049 0.9279 0.0673 34 I 0.0049 0.9400 0.0552 35 R 0.0050 0.9170 0.0780 36 Q 0.0058 0.8465 0.1476 37 F 0.0078 0.7358 0.2563 38 L 0.0152 0.7789 0.2059 39 P 0.0169 0.7564 0.2267 40 S 0.0298 0.7639 0.2064 41 L 0.1203 0.5763 0.3034 42 F 0.3000 0.2564 0.4436 43 V 0.2736 0.1349 0.5915 44 D 0.1458 0.0689 0.7853 45 N 0.0517 0.1585 0.7898 46 D 0.0474 0.2507 0.7019 47 E 0.0151 0.8374 0.1474 48 E 0.0171 0.9028 0.0801 49 I 0.0264 0.9134 0.0601 50 V 0.0246 0.9247 0.0507 51 E 0.0206 0.9300 0.0494 52 Y 0.0251 0.8991 0.0758 53 A 0.0415 0.8283 0.1302 54 V 0.0472 0.7922 0.1606 55 K 0.0310 0.8429 0.1261 56 P 0.0178 0.8546 0.1276 57 L 0.0186 0.8295 0.1519 58 L 0.0355 0.6929 0.2716 59 A 0.0356 0.5100 0.4544 60 Q 0.0338 0.1960 0.7702 61 S 0.0582 0.0628 0.8790 62 G 0.0719 0.0217 0.9063 63 P 0.1046 0.0432 0.8523 64 L 0.0349 0.4289 0.5361 65 D 0.0303 0.5226 0.4471 66 D 0.0478 0.6106 0.3417 67 I 0.1301 0.4620 0.4079 68 D 0.1450 0.5757 0.2793 69 V 0.0702 0.8618 0.0680 70 A 0.0384 0.9147 0.0469 71 L 0.0381 0.9188 0.0431 72 R 0.0254 0.9300 0.0446 73 L 0.0247 0.9285 0.0468 74 I 0.0318 0.9068 0.0614 75 Y 0.0341 0.8533 0.1126 76 A 0.0311 0.7947 0.1742 77 L 0.0429 0.6327 0.3244 78 G 0.0583 0.2393 0.7024 79 K 0.1572 0.2749 0.5679 80 M 0.1842 0.1790 0.6367 81 D 0.0953 0.1728 0.7319 82 K 0.0096 0.8684 0.1219 83 W 0.0129 0.8664 0.1207 84 L 0.0159 0.8891 0.0950 85 Y 0.0160 0.9010 0.0830 86 A 0.0130 0.8898 0.0972 87 D 0.0180 0.8843 0.0977 88 I 0.0056 0.9446 0.0498 89 T 0.0049 0.9532 0.0419 90 H 0.0050 0.9482 0.0468 91 F 0.0048 0.9538 0.0414 92 S 0.0047 0.9525 0.0427 93 Q 0.0051 0.9445 0.0504 94 Y 0.0049 0.9423 0.0528 95 W 0.0048 0.9469 0.0483 96 H 0.0050 0.9372 0.0578 97 Y 0.0055 0.9216 0.0729 98 L 0.0152 0.8630 0.1218 99 N 0.0220 0.6739 0.3041 100 E 0.0270 0.4706 0.5024 101 Q 0.0451 0.2102 0.7446 102 D 0.0482 0.1351 0.8166 103 E 0.0591 0.1132 0.8277 104 T 0.1016 0.0444 0.8540 105 P 0.0928 0.1049 0.8022 106 G 0.1470 0.1112 0.7418 107 F 0.1716 0.1353 0.6931 108 A 0.1359 0.1431 0.7210 109 D 0.0818 0.2501 0.6681 110 D 0.0220 0.7349 0.2431 111 I 0.0495 0.7736 0.1769 112 T 0.0861 0.7921 0.1218 113 W 0.0610 0.8129 0.1261 114 D 0.0591 0.7859 0.1550 115 F 0.0294 0.8274 0.1431 116 I 0.0235 0.8495 0.1270 117 S 0.0203 0.7844 0.1953 118 N 0.0250 0.6940 0.2810 119 V 0.0865 0.5914 0.3221 120 N 0.0882 0.5450 0.3669 121 S 0.1854 0.5534 0.2611 122 I 0.1942 0.5894 0.2164 123 T 0.1733 0.5457 0.2811 124 R 0.1070 0.4786 0.4144 125 N 0.0872 0.3164 0.5965 126 A 0.0478 0.4437 0.5084 127 T 0.0693 0.4889 0.4418 128 L 0.0667 0.6220 0.3113 129 Y 0.0345 0.7716 0.1939 130 D 0.0309 0.8055 0.1635 131 A 0.0246 0.8480 0.1274 132 L 0.0341 0.8016 0.1643 133 K 0.0351 0.7332 0.2318 134 A 0.0288 0.6560 0.3152 135 M 0.0456 0.5097 0.4447 136 K 0.0410 0.4294 0.5296 137 F 0.0571 0.3933 0.5496 138 A 0.0313 0.5263 0.4424 139 D 0.0537 0.5806 0.3657 140 F 0.0383 0.8272 0.1346 141 A 0.0231 0.8959 0.0809 142 V 0.0373 0.8908 0.0720 143 W 0.0391 0.8770 0.0839 144 S 0.0245 0.8957 0.0797 145 E 0.0177 0.9111 0.0713 146 A 0.0184 0.8942 0.0874 147 R 0.0177 0.8729 0.1094 148 F 0.0180 0.8281 0.1538 149 S 0.0269 0.6708 0.3023 150 G 0.0183 0.5506 0.4310 151 M 0.0403 0.6905 0.2692 152 V 0.0828 0.7544 0.1627 153 K 0.0310 0.8826 0.0864 154 T 0.0174 0.9258 0.0568 155 A 0.0082 0.9491 0.0427 156 L 0.0063 0.9552 0.0385 157 T 0.0057 0.9568 0.0374 158 L 0.0052 0.9572 0.0376 159 A 0.0049 0.9539 0.0412 160 V 0.0049 0.9566 0.0385 161 T 0.0049 0.9573 0.0377 162 T 0.0052 0.9549 0.0399 163 T 0.0048 0.9520 0.0432 164 L 0.0052 0.9428 0.0520 165 K 0.0060 0.9137 0.0803 166 E 0.0081 0.8298 0.1621 167 L 0.0379 0.5215 0.4406 168 T 0.0426 0.0799 0.8775 169 P 0.0237 0.0670 0.9092