# This file is the result of combining several RDB files, specifically # T0351.t06.dssp-ebghstl.rdb (weight 1.53986) # T0351.t06.stride-ebghtl.rdb (weight 1.24869) # T0351.t06.str2.rdb (weight 1.54758) # T0351.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 T0351.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0351 # 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 T0351.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 6 # # ============================================ # Comments from T0351.t06.stride-ebghtl.rdb # ============================================ # TARGET T0351 # 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 T0351.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 6 # # ============================================ # Comments from T0351.t06.str2.rdb # ============================================ # TARGET T0351 # 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 T0351.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 6 # # ============================================ # Comments from T0351.t06.alpha.rdb # ============================================ # TARGET T0351 # 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 T0351.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 6 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0563 0.2351 0.7086 2 I 0.1165 0.3805 0.5030 3 L 0.0540 0.7695 0.1765 4 Y 0.0538 0.8142 0.1320 5 D 0.0548 0.8447 0.1005 6 A 0.0578 0.8720 0.0702 7 I 0.0421 0.8924 0.0655 8 M 0.0579 0.8615 0.0806 9 Y 0.0816 0.7593 0.1592 10 K 0.1108 0.5555 0.3337 11 Y 0.1060 0.1102 0.7838 12 P 0.0488 0.1933 0.7578 13 N 0.0611 0.1477 0.7912 14 A 0.0972 0.1634 0.7393 15 V 0.1472 0.0788 0.7739 16 S 0.1692 0.0938 0.7370 17 R 0.1434 0.2648 0.5918 18 K 0.2626 0.1920 0.5454 19 D 0.4599 0.0979 0.4422 20 F 0.7041 0.0252 0.2707 21 E 0.8579 0.0137 0.1284 22 L 0.8839 0.0132 0.1029 23 R 0.7673 0.0223 0.2103 24 N 0.5555 0.0371 0.4074 25 D 0.1476 0.0440 0.8084 26 G 0.0666 0.0619 0.8715 27 N 0.1032 0.0389 0.8579 28 G 0.2511 0.0602 0.6887 29 S 0.4420 0.0961 0.4619 30 Y 0.7013 0.0943 0.2044 31 I 0.6662 0.1550 0.1788 32 E 0.6588 0.1617 0.1795 33 K 0.6128 0.1877 0.1994 34 W 0.4947 0.1899 0.3154 35 N 0.3482 0.1089 0.5428 36 L 0.2309 0.0589 0.7102 37 R 0.1190 0.0719 0.8091 38 A 0.0800 0.0299 0.8901 39 P 0.0830 0.0273 0.8897 40 L 0.1072 0.0181 0.8747 41 P 0.1069 0.0156 0.8775 42 T 0.0616 0.0234 0.9150 43 Q 0.0049 0.9497 0.0455 44 A 0.0047 0.9572 0.0381 45 E 0.0047 0.9578 0.0375 46 L 0.0047 0.9590 0.0363 47 E 0.0047 0.9591 0.0362 48 T 0.0048 0.9548 0.0404 49 W 0.0048 0.9517 0.0435 50 W 0.0047 0.9563 0.0389 51 E 0.0047 0.9567 0.0385 52 E 0.0050 0.9482 0.0469 53 L 0.0055 0.9221 0.0723 54 Q 0.0098 0.8176 0.1725 55 K 0.0192 0.5588 0.4220 56 N 0.0592 0.0640 0.8768 57 P 0.0534 0.0343 0.9123 58 P 0.0294 0.1212 0.8494 59 Y 0.0518 0.1036 0.8447 60 E 0.0557 0.0430 0.9012 61 P 0.0606 0.0180 0.9214 62 P 0.0398 0.5011 0.4591 63 D 0.0379 0.6833 0.2787 64 Q 0.0386 0.8174 0.1440 65 V 0.0402 0.8525 0.1073 66 E 0.0552 0.8308 0.1140 67 L 0.0557 0.8287 0.1156 68 L 0.0479 0.8032 0.1489 69 A 0.0200 0.8645 0.1155 70 Q 0.0136 0.8631 0.1233 71 E 0.0111 0.8486 0.1403 72 L 0.0151 0.8076 0.1773 73 S 0.0154 0.7090 0.2756 74 Q 0.0124 0.7912 0.1963 75 E 0.0111 0.8625 0.1264 76 K 0.0065 0.9198 0.0737 77 L 0.0060 0.9343 0.0597 78 A 0.0055 0.9339 0.0606 79 R 0.0055 0.9404 0.0541 80 K 0.0051 0.9451 0.0498 81 Q 0.0056 0.9414 0.0530 82 L 0.0055 0.9398 0.0547 83 E 0.0053 0.9374 0.0573 84 E 0.0057 0.9214 0.0728 85 L 0.0066 0.9022 0.0912 86 N 0.0149 0.8537 0.1314 87 K 0.0145 0.8004 0.1852 88 T 0.0187 0.7503 0.2309 89 L 0.0394 0.5803 0.3804 90 G 0.0350 0.3907 0.5744 91 N 0.0344 0.5245 0.4411 92 E 0.0654 0.6141 0.3205 93 L 0.0503 0.7259 0.2238 94 S 0.0499 0.7042 0.2459 95 D 0.0685 0.7119 0.2196 96 I 0.1486 0.6670 0.1845 97 K 0.1886 0.6509 0.1606 98 L 0.2248 0.6415 0.1337 99 S 0.2047 0.6477 0.1476 100 L 0.1579 0.7112 0.1309 101 L 0.1884 0.6287 0.1829 102 S 0.1935 0.5848 0.2217 103 L 0.2038 0.5122 0.2840 104 K 0.1399 0.3744 0.4857 105 G 0.1105 0.2563 0.6332 106 D 0.1262 0.2557 0.6181 107 Y 0.0373 0.7266 0.2361 108 A 0.0273 0.7511 0.2216 109 E 0.0384 0.7257 0.2359 110 L 0.0563 0.6769 0.2668 111 E 0.0801 0.5773 0.3426 112 H 0.0758 0.5091 0.4151 113 H 0.0703 0.3434 0.5864 114 H 0.0785 0.1947 0.7268 115 H 0.0692 0.1562 0.7746 116 H 0.0695 0.1104 0.8201 117 H 0.0472 0.0402 0.9126