# This file is the result of combining several RDB files, specifically # T0586.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0586.t2k.stride-ebghtl.rdb (weight 1.24869) # T0586.t2k.str.rdb (weight 1.53983) # 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 T0586.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0586 # 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 T0586.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 1171 # # ============================================ # Comments from T0586.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0586 # 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 T0586.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 1171 # # ============================================ # Comments from T0586.t2k.str.rdb # ============================================ # TARGET T0586 # 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 T0586.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 1171 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.1273 0.0272 0.8454 2 N 0.3761 0.0226 0.6012 3 A 0.6355 0.0132 0.3513 4 M 0.7911 0.0077 0.2012 5 N 0.8514 0.0050 0.1436 6 P 0.8203 0.0053 0.1744 7 T 0.4799 0.0155 0.5046 8 F 0.0536 0.0457 0.9007 9 H 0.0156 0.0390 0.9454 10 A 0.0149 0.0344 0.9507 11 D 0.0219 0.0368 0.9413 12 K 0.1453 0.0633 0.7914 13 P 0.2815 0.0888 0.6297 14 I 0.2159 0.5835 0.2006 15 Y 0.1151 0.8065 0.0784 16 S 0.0350 0.9163 0.0487 17 Q 0.0183 0.9418 0.0399 18 I 0.0059 0.9636 0.0305 19 S 0.0040 0.9730 0.0230 20 D 0.0037 0.9750 0.0213 21 W 0.0037 0.9733 0.0229 22 M 0.0037 0.9734 0.0229 23 K 0.0037 0.9738 0.0225 24 K 0.0037 0.9709 0.0254 25 Q 0.0038 0.9680 0.0283 26 M 0.0038 0.9617 0.0345 27 I 0.0049 0.8776 0.1175 28 T 0.0054 0.4530 0.5416 29 G 0.0139 0.0705 0.9156 30 E 0.0893 0.0316 0.8792 31 W 0.2396 0.0213 0.7391 32 K 0.0336 0.0225 0.9438 33 G 0.0085 0.1005 0.8911 34 E 0.0086 0.0858 0.9056 35 D 0.0403 0.0913 0.8684 36 K 0.1589 0.0580 0.7831 37 L 0.0931 0.0456 0.8613 38 P 0.0520 0.1680 0.7800 39 S 0.0640 0.3304 0.6057 40 V 0.0037 0.9385 0.0577 41 R 0.0037 0.9635 0.0328 42 E 0.0038 0.9677 0.0286 43 M 0.0037 0.9708 0.0255 44 G 0.0038 0.9675 0.0287 45 V 0.0038 0.9534 0.0428 46 K 0.0040 0.8974 0.0986 47 L 0.0053 0.5807 0.4140 48 A 0.0139 0.0530 0.9331 49 V 0.0483 0.0227 0.9290 50 N 0.0182 0.0225 0.9593 51 P 0.0040 0.9138 0.0822 52 N 0.0041 0.9548 0.0411 53 T 0.0037 0.9676 0.0287 54 V 0.0037 0.9755 0.0208 55 S 0.0037 0.9755 0.0208 56 R 0.0037 0.9759 0.0204 57 A 0.0037 0.9766 0.0197 58 Y 0.0037 0.9766 0.0197 59 Q 0.0037 0.9755 0.0207 60 E 0.0037 0.9743 0.0220 61 L 0.0037 0.9728 0.0235 62 E 0.0038 0.9598 0.0364 63 R 0.0040 0.8689 0.1271 64 A 0.0073 0.2918 0.7009 65 G 0.0142 0.0124 0.9735 66 Y 0.2317 0.0102 0.7580 67 I 0.8263 0.0095 0.1642 68 Y 0.8658 0.0150 0.1191 69 A 0.8161 0.0126 0.1714 70 K 0.6792 0.0153 0.3055 71 R 0.2791 0.0229 0.6980 72 G 0.1650 0.0206 0.8143 73 M 0.3967 0.0146 0.5887 74 G 0.6790 0.0080 0.3130 75 S 0.8533 0.0064 0.1403 76 F 0.9058 0.0066 0.0876 77 V 0.8034 0.0134 0.1832 78 T 0.4893 0.0274 0.4832 79 S 0.0948 0.0706 0.8346 80 D 0.0314 0.1083 0.8603 81 K 0.0231 0.4224 0.5545 82 A 0.0232 0.5659 0.4110 83 L 0.0228 0.6467 0.3305 84 F 0.0153 0.7107 0.2739 85 D 0.0136 0.7667 0.2197 86 Q 0.0103 0.8309 0.1588 87 L 0.0092 0.8457 0.1451 88 K 0.0073 0.8566 0.1361 89 K 0.0051 0.9043 0.0907 90 E 0.0046 0.9162 0.0792 91 L 0.0042 0.9206 0.0752 92 A 0.0041 0.9343 0.0617 93 D 0.0040 0.9444 0.0515 94 A 0.0040 0.9431 0.0529 95 I 0.0040 0.9453 0.0506 96 T 0.0038 0.9643 0.0318 97 E 0.0038 0.9709 0.0253 98 R 0.0038 0.9710 0.0252 99 F 0.0038 0.9731 0.0232 100 L 0.0038 0.9708 0.0254 101 E 0.0038 0.9690 0.0271 102 E 0.0038 0.9710 0.0253 103 A 0.0038 0.9677 0.0285 104 K 0.0039 0.9606 0.0356 105 S 0.0040 0.8958 0.1002 106 I 0.0049 0.3230 0.6721 107 G 0.0093 0.0085 0.9822 108 L 0.0178 0.0051 0.9770 109 D 0.0271 0.0081 0.9649 110 D 0.0039 0.9364 0.0597 111 Q 0.0038 0.9608 0.0355 112 T 0.0037 0.9701 0.0262 113 A 0.0037 0.9760 0.0203 114 I 0.0037 0.9759 0.0204 115 E 0.0037 0.9745 0.0218 116 L 0.0037 0.9741 0.0222 117 L 0.0037 0.9745 0.0218 118 I 0.0037 0.9729 0.0234 119 K 0.0038 0.9605 0.0357 120 R 0.0039 0.9366 0.0595 121 S 0.0053 0.8590 0.1357 122 R 0.0077 0.6105 0.3819 123 N 0.0092 0.3531 0.6377 124 H 0.0152 0.1495 0.8353 125 E 0.0086 0.0548 0.9366