# This file is the result of combining several RDB files, specifically # ACH7_SHORT.t04.dssp-ebghstl.rdb (weight 1.53986) # ACH7_SHORT.t04.stride-ebghtl.rdb (weight 1.24869) # ACH7_SHORT.t04.str2.rdb (weight 1.54758) # ACH7_SHORT.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 ACH7_SHORT.t04.dssp-ebghstl.rdb # ============================================ # TARGET ACH7_SHORT # 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 ACH7_SHORT.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 560 # # ============================================ # Comments from ACH7_SHORT.t04.stride-ebghtl.rdb # ============================================ # TARGET ACH7_SHORT # 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 ACH7_SHORT.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 560 # # ============================================ # Comments from ACH7_SHORT.t04.str2.rdb # ============================================ # TARGET ACH7_SHORT # 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 ACH7_SHORT.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 560 # # ============================================ # Comments from ACH7_SHORT.t04.alpha.rdb # ============================================ # TARGET ACH7_SHORT # 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 ACH7_SHORT.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 560 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 G 0.0317 0.1056 0.8627 2 E 0.0220 0.6021 0.3759 3 F 0.0114 0.8474 0.1412 4 Q 0.0050 0.9244 0.0706 5 R 0.0050 0.9463 0.0487 6 K 0.0050 0.9452 0.0497 7 L 0.0047 0.9437 0.0517 8 Y 0.0047 0.9546 0.0407 9 K 0.0047 0.9564 0.0389 10 E 0.0050 0.9499 0.0451 11 L 0.0051 0.9393 0.0556 12 V 0.0074 0.8917 0.1009 13 K 0.0144 0.7199 0.2658 14 N 0.0194 0.4309 0.5497 15 Y 0.0609 0.2309 0.7082 16 N 0.0947 0.0314 0.8739 17 P 0.0179 0.2692 0.7129 18 L 0.0538 0.2736 0.6727 19 E 0.2281 0.1529 0.6190 20 R 0.2549 0.0260 0.7190 21 P 0.2593 0.0296 0.7111 22 V 0.3224 0.0416 0.6360 23 A 0.2618 0.0559 0.6822 24 N 0.1274 0.0462 0.8264 25 D 0.0593 0.0801 0.8606 26 S 0.0674 0.0606 0.8720 27 Q 0.1602 0.0215 0.8184 28 P 0.3072 0.0090 0.6838 29 L 0.8255 0.0054 0.1690 30 T 0.9045 0.0035 0.0920 31 V 0.9184 0.0034 0.0782 32 Y 0.9244 0.0033 0.0723 33 F 0.9131 0.0036 0.0833 34 S 0.9030 0.0044 0.0926 35 L 0.8889 0.0040 0.1071 36 S 0.9125 0.0041 0.0834 37 L 0.8982 0.0055 0.0963 38 L 0.8507 0.0250 0.1243 39 Q 0.8407 0.0141 0.1452 40 I 0.7935 0.0338 0.1727 41 M 0.6994 0.0403 0.2603 42 D 0.6074 0.0230 0.3695 43 V 0.3418 0.0849 0.5733 44 D 0.2994 0.0684 0.6322 45 E 0.0928 0.3512 0.5560 46 K 0.1244 0.2828 0.5928 47 N 0.1531 0.1500 0.6969 48 Q 0.4485 0.0651 0.4863 49 V 0.8070 0.0270 0.1660 50 L 0.8858 0.0147 0.0996 51 T 0.9040 0.0116 0.0844 52 T 0.8983 0.0142 0.0875 53 N 0.8879 0.0171 0.0950 54 I 0.9059 0.0096 0.0845 55 W 0.9055 0.0133 0.0812 56 L 0.8889 0.0161 0.0951 57 Q 0.8325 0.0219 0.1456 58 M 0.7519 0.0237 0.2244 59 S 0.6149 0.0448 0.3402 60 W 0.5190 0.0893 0.3917 61 T 0.4466 0.1158 0.4376 62 D 0.2794 0.1430 0.5777 63 H 0.0961 0.3235 0.5803 64 Y 0.1255 0.3449 0.5297 65 L 0.2545 0.2483 0.4972 66 Q 0.2537 0.1345 0.6118 67 W 0.2534 0.0662 0.6805 68 N 0.1611 0.0233 0.8156 69 V 0.0115 0.7082 0.2802 70 S 0.0138 0.7018 0.2844 71 E 0.0270 0.6610 0.3121 72 Y 0.1028 0.1331 0.7641 73 P 0.0329 0.1297 0.8373 74 G 0.0509 0.0608 0.8882 75 V 0.3693 0.0261 0.6046 76 K 0.5318 0.0414 0.4268 77 T 0.7697 0.0271 0.2032 78 V 0.7388 0.0213 0.2399 79 R 0.6628 0.0172 0.3199 80 F 0.2952 0.0125 0.6924 81 P 0.1273 0.0275 0.8451 82 D 0.0372 0.2901 0.6728 83 G 0.0245 0.3143 0.6613 84 Q 0.1253 0.3331 0.5416 85 I 0.5122 0.0598 0.4280 86 W 0.5850 0.0305 0.3845 87 K 0.6204 0.0199 0.3598 88 P 0.4557 0.0240 0.5203 89 D 0.4731 0.0378 0.4891 90 I 0.8767 0.0124 0.1109 91 L 0.9178 0.0063 0.0759 92 L 0.9155 0.0075 0.0770 93 Y 0.8319 0.0131 0.1549 94 N 0.4232 0.0209 0.5559 95 S 0.1694 0.0398 0.7908 96 A 0.0779 0.1666 0.7554 97 D 0.1021 0.1347 0.7632 98 E 0.1204 0.1788 0.7008 99 R 0.2430 0.1663 0.5907 100 F 0.3029 0.1852 0.5119 101 D 0.2677 0.1924 0.5398 102 A 0.2966 0.2140 0.4894 103 T 0.3712 0.1326 0.4961 104 F 0.4172 0.0669 0.5159 105 H 0.3990 0.0351 0.5660 106 T 0.2707 0.0522 0.6771 107 N 0.4179 0.0277 0.5544 108 V 0.7903 0.0063 0.2034 109 L 0.9064 0.0040 0.0895 110 V 0.8920 0.0055 0.1025 111 N 0.5527 0.0086 0.4387 112 S 0.0904 0.0943 0.8153 113 S 0.0661 0.0234 0.9105 114 G 0.1328 0.0274 0.8398 115 H 0.6058 0.0113 0.3829 116 C 0.9050 0.0040 0.0910 117 Q 0.8899 0.0082 0.1019 118 Y 0.8694 0.0059 0.1248 119 L 0.6273 0.0112 0.3615 120 P 0.3237 0.0151 0.6612 121 P 0.3335 0.0271 0.6394 122 G 0.7597 0.0122 0.2281 123 I 0.9128 0.0065 0.0807 124 F 0.9170 0.0050 0.0781 125 K 0.8823 0.0087 0.1090 126 S 0.7696 0.0071 0.2233 127 S 0.5483 0.0229 0.4288 128 C 0.5173 0.0215 0.4612 129 Y 0.5469 0.0312 0.4219 130 I 0.5794 0.0266 0.3940 131 D 0.6108 0.0307 0.3584 132 V 0.4920 0.1574 0.3506 133 R 0.4133 0.1577 0.4290 134 W 0.3996 0.1049 0.4955 135 F 0.2354 0.0306 0.7340 136 P 0.1232 0.1291 0.7477 137 F 0.1460 0.1154 0.7386 138 D 0.1953 0.1194 0.6853 139 V 0.2614 0.1472 0.5914 140 Q 0.5642 0.0726 0.3632 141 H 0.6432 0.0397 0.3171 142 C 0.7432 0.0140 0.2429 143 K 0.7897 0.0105 0.1998 144 L 0.8629 0.0065 0.1306 145 K 0.8719 0.0074 0.1207 146 F 0.8012 0.0192 0.1796 147 G 0.6323 0.0330 0.3347 148 S 0.5214 0.0277 0.4508 149 W 0.4487 0.0614 0.4899 150 S 0.4028 0.0510 0.5462 151 Y 0.3984 0.0481 0.5535 152 G 0.2062 0.0380 0.7558 153 G 0.0939 0.0981 0.8079 154 W 0.3172 0.0789 0.6040 155 S 0.7766 0.0289 0.1945 156 L 0.8742 0.0055 0.1203 157 D 0.9120 0.0037 0.0843 158 L 0.9039 0.0039 0.0922 159 Q 0.8824 0.0048 0.1127 160 M 0.8423 0.0081 0.1496 161 Q 0.6203 0.0406 0.3391 162 E 0.5283 0.0297 0.4420 163 A 0.3182 0.0214 0.6604 164 D 0.2865 0.0228 0.6907 165 I 0.1957 0.1963 0.6080 166 S 0.1057 0.2851 0.6092 167 G 0.0812 0.2392 0.6797 168 Y 0.2481 0.1103 0.6416 169 I 0.3219 0.0154 0.6626 170 P 0.3215 0.0278 0.6506 171 N 0.1424 0.1014 0.7562 172 G 0.1611 0.1331 0.7058 173 E 0.4105 0.1574 0.4321 174 W 0.6785 0.0434 0.2781 175 D 0.8024 0.0289 0.1687 176 L 0.8228 0.0404 0.1368 177 V 0.6674 0.0580 0.2746 178 G 0.4618 0.0297 0.5085 179 I 0.5098 0.0131 0.4771 180 P 0.4996 0.0170 0.4833 181 G 0.4026 0.0264 0.5710 182 K 0.5191 0.0407 0.4403 183 R 0.6336 0.0387 0.3277 184 S 0.6620 0.0319 0.3061 185 E 0.7512 0.0277 0.2211 186 R 0.8032 0.0188 0.1780 187 F 0.7453 0.0302 0.2245 188 Y 0.6105 0.0416 0.3479 189 E 0.3960 0.0805 0.5235 190 C 0.2464 0.1074 0.6462 191 C 0.1994 0.0856 0.7150 192 K 0.1405 0.0807 0.7788 193 E 0.1257 0.0303 0.8440 194 P 0.1795 0.0468 0.7738 195 Y 0.2372 0.0446 0.7182 196 P 0.2621 0.0671 0.6708 197 D 0.6496 0.0335 0.3169 198 V 0.8861 0.0040 0.1098 199 T 0.9235 0.0036 0.0730 200 F 0.9262 0.0034 0.0705 201 T 0.9276 0.0032 0.0692 202 V 0.9292 0.0032 0.0676 203 T 0.9254 0.0032 0.0713 204 M 0.9121 0.0037 0.0842 205 R 0.8618 0.0055 0.1327 206 R 0.6438 0.0101 0.3461 207 R 0.2548 0.0121 0.7331 208 T 0.0799 0.0269 0.8931