# This file is the result of combining several RDB files, specifically # T0205.t04.dssp-ebghstl.rdb (weight 1.53986) # T0205.t04.stride-ebghtl.rdb (weight 1.24869) # T0205.t04.str2.rdb (weight 1.54758) # T0205.t04.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 T0205.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0205 # Using neural net t04-2621-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 T0205.t04-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 3.40851 # # ============================================ # Comments from T0205.t04.stride-ebghtl.rdb # ============================================ # TARGET T0205 # Using neural net t04-2621-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 T0205.t04-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 3.40851 # # ============================================ # Comments from T0205.t04.str2.rdb # ============================================ # TARGET T0205 # Using neural net t04-2621-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 T0205.t04-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 3.40851 # # ============================================ # Comments from T0205.t04.alpha.rdb # ============================================ # TARGET T0205 # Using neural net t04-2621-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 T0205.t04-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 3.40851 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0962 0.1606 0.7432 2 E 0.2206 0.3116 0.4678 3 E 0.3504 0.3071 0.3425 4 I 0.3416 0.3629 0.2955 5 T 0.2745 0.3879 0.3376 6 D 0.1815 0.4129 0.4055 7 G 0.1708 0.3692 0.4600 8 V 0.2983 0.2668 0.4348 9 N 0.2964 0.2194 0.4842 10 N 0.2784 0.1981 0.5235 11 M 0.3823 0.1340 0.4837 12 N 0.4806 0.0982 0.4212 13 L 0.4671 0.1022 0.4308 14 A 0.4832 0.0830 0.4338 15 T 0.4109 0.1154 0.4738 16 D 0.2430 0.1168 0.6403 17 S 0.1234 0.1793 0.6973 18 Q 0.0980 0.1537 0.7484 19 K 0.1329 0.1413 0.7258 20 K 0.1962 0.1110 0.6928 21 N 0.3308 0.0471 0.6221 22 R 0.6946 0.0224 0.2830 23 I 0.8570 0.0078 0.1352 24 Q 0.8763 0.0073 0.1163 25 V 0.7656 0.0164 0.2180 26 S 0.3858 0.0324 0.5818 27 N 0.0753 0.0880 0.8367 28 T 0.1007 0.0624 0.8369 29 K 0.1987 0.0460 0.7553 30 K 0.2199 0.0290 0.7511 31 P 0.2775 0.0491 0.6734 32 L 0.5554 0.0562 0.3885 33 F 0.7836 0.0476 0.1688 34 F 0.8115 0.0577 0.1308 35 Y 0.8118 0.0731 0.1151 36 V 0.7094 0.1034 0.1872 37 N 0.4344 0.1714 0.3941 38 L 0.0994 0.6532 0.2475 39 A 0.0652 0.7363 0.1985 40 K 0.0420 0.7939 0.1641 41 R 0.0545 0.7920 0.1534 42 Y 0.0519 0.7784 0.1697 43 M 0.0508 0.7749 0.1743 44 Q 0.0563 0.6951 0.2487 45 Q 0.0774 0.4687 0.4539 46 Y 0.0932 0.3305 0.5763 47 N 0.0545 0.2525 0.6929 48 D 0.1948 0.2745 0.5308 49 V 0.5093 0.2200 0.2707 50 E 0.6268 0.2148 0.1584 51 L 0.5631 0.2733 0.1635 52 S 0.3524 0.3842 0.2634 53 A 0.1814 0.5891 0.2295 54 L 0.0929 0.7179 0.1893 55 G 0.0626 0.7485 0.1890 56 M 0.0699 0.8082 0.1219 57 A 0.1047 0.7835 0.1118 58 I 0.0976 0.8052 0.0972 59 A 0.1178 0.7492 0.1330 60 T 0.0879 0.7165 0.1956 61 V 0.1134 0.7172 0.1694 62 V 0.2074 0.5741 0.2185 63 T 0.2320 0.4549 0.3131 64 V 0.0190 0.9119 0.0692 65 T 0.0217 0.9153 0.0630 66 E 0.0244 0.9256 0.0499 67 I 0.0268 0.9179 0.0553 68 L 0.0302 0.8868 0.0830 69 K 0.0324 0.7780 0.1896 70 N 0.0652 0.3643 0.5704 71 N 0.0531 0.1303 0.8166 72 G 0.0783 0.0771 0.8446 73 F 0.4322 0.0677 0.5001 74 A 0.6988 0.0491 0.2521 75 V 0.8078 0.0351 0.1570 76 E 0.8366 0.0294 0.1340 77 K 0.8087 0.0348 0.1564 78 K 0.8095 0.0272 0.1633 79 I 0.7845 0.0275 0.1880 80 M 0.6814 0.0334 0.2853 81 T 0.5460 0.0378 0.4161 82 S 0.4687 0.0474 0.4839 83 I 0.6402 0.0425 0.3172 84 V 0.7088 0.0199 0.2713 85 D 0.6616 0.0171 0.3213 86 I 0.4241 0.1516 0.4242 87 K 0.2927 0.1597 0.5476 88 D 0.1622 0.2177 0.6201 89 D 0.0931 0.2580 0.6490 90 A 0.1123 0.2441 0.6436 91 R 0.1468 0.1471 0.7061 92 G 0.1532 0.0613 0.7855 93 R 0.2639 0.0350 0.7012 94 P 0.3386 0.0883 0.5731 95 V 0.3364 0.1373 0.5263 96 Q 0.4115 0.1436 0.4449 97 K 0.5636 0.1060 0.3304 98 A 0.6859 0.0235 0.2906 99 K 0.8276 0.0079 0.1645 100 I 0.8978 0.0037 0.0985 101 E 0.9208 0.0037 0.0756 102 I 0.9267 0.0033 0.0700 103 T 0.9231 0.0042 0.0726 104 L 0.8970 0.0064 0.0966 105 V 0.7201 0.0139 0.2660 106 K 0.4017 0.0195 0.5788 107 S 0.1275 0.0687 0.8038 108 E 0.0231 0.5350 0.4419 109 K 0.0239 0.6766 0.2995 110 F 0.0182 0.8218 0.1600 111 D 0.0122 0.8563 0.1315 112 E 0.0126 0.9046 0.0828 113 L 0.0118 0.8994 0.0888 114 M 0.0113 0.8953 0.0935 115 A 0.0103 0.8644 0.1253 116 A 0.0094 0.8139 0.1766 117 A 0.0152 0.6958 0.2890 118 N 0.0196 0.5441 0.4363 119 E 0.0167 0.5492 0.4341 120 E 0.0269 0.5972 0.3759 121 K 0.0156 0.7932 0.1912 122 E 0.0146 0.8347 0.1508 123 D 0.0217 0.8061 0.1722 124 A 0.0312 0.8095 0.1593 125 E 0.0444 0.7735 0.1821 126 T 0.0875 0.7162 0.1963 127 Q 0.0945 0.6539 0.2517 128 V 0.1047 0.5420 0.3533 129 Q 0.0821 0.3063 0.6116 130 N 0.0506 0.0760 0.8734