# This file is the result of combining several RDB files, specifically # T0585.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0585.t2k.stride-ebghtl.rdb (weight 1.24869) # T0585.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 T0585.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0585 # 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 T0585.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 1109 # # ============================================ # Comments from T0585.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0585 # 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 T0585.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 1109 # # ============================================ # Comments from T0585.t2k.str.rdb # ============================================ # TARGET T0585 # 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 T0585.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 1109 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0281 0.0986 0.8733 2 N 0.0464 0.1624 0.7911 3 A 0.0490 0.1776 0.7734 4 S 0.0572 0.0993 0.8435 5 F 0.2057 0.0245 0.7698 6 R 0.7175 0.0053 0.2772 7 V 0.9315 0.0032 0.0652 8 V 0.9634 0.0028 0.0338 9 L 0.9482 0.0040 0.0477 10 D 0.5078 0.0085 0.4837 11 P 0.1056 0.0488 0.8456 12 G 0.0592 0.0798 0.8610 13 H 0.0581 0.0933 0.8486 14 G 0.0678 0.0688 0.8634 15 G 0.1368 0.0773 0.7858 16 I 0.1936 0.1191 0.6873 17 D 0.1550 0.1228 0.7223 18 G 0.0637 0.1643 0.7720 19 G 0.0622 0.1246 0.8131 20 A 0.2349 0.0885 0.6765 21 R 0.4988 0.0365 0.4647 22 G 0.1841 0.0325 0.7833 23 V 0.0457 0.0493 0.9050 24 T 0.0205 0.0363 0.9432 25 G 0.0840 0.0517 0.8643 26 I 0.3302 0.0601 0.6097 27 L 0.6306 0.0833 0.2861 28 E 0.4237 0.2478 0.3285 29 K 0.1713 0.4986 0.3300 30 D 0.0999 0.6379 0.2622 31 V 0.0368 0.8816 0.0816 32 T 0.0084 0.9607 0.0309 33 L 0.0054 0.9718 0.0229 34 A 0.0037 0.9763 0.0200 35 F 0.0037 0.9760 0.0203 36 A 0.0037 0.9766 0.0197 37 R 0.0037 0.9756 0.0207 38 A 0.0037 0.9732 0.0230 39 L 0.0037 0.9719 0.0244 40 R 0.0037 0.9723 0.0240 41 D 0.0037 0.9675 0.0288 42 E 0.0037 0.9628 0.0335 43 L 0.0044 0.9476 0.0479 44 Q 0.0052 0.8480 0.1468 45 K 0.0054 0.6313 0.3633 46 G 0.0110 0.1988 0.7902 47 S 0.0098 0.0407 0.9496 48 H 0.0147 0.0191 0.9662 49 T 0.3082 0.0072 0.6847 50 I 0.8783 0.0027 0.1190 51 V 0.9637 0.0024 0.0339 52 A 0.9694 0.0024 0.0282 53 L 0.9550 0.0025 0.0425 54 T 0.7924 0.0038 0.2038 55 R 0.4108 0.0092 0.5800 56 D 0.0886 0.0376 0.8738 57 S 0.0383 0.0727 0.8890 58 D 0.0690 0.0884 0.8426 59 I 0.2035 0.0689 0.7276 60 F 0.3088 0.0427 0.6484 61 L 0.2250 0.0251 0.7499 62 R 0.0961 0.0248 0.8790 63 L 0.0042 0.8896 0.1062 64 S 0.0038 0.9339 0.0623 65 E 0.0037 0.9634 0.0328 66 R 0.0037 0.9684 0.0278 67 V 0.0037 0.9675 0.0288 68 K 0.0041 0.9639 0.0320 69 K 0.0037 0.9632 0.0331 70 A 0.0038 0.9560 0.0402 71 Q 0.0038 0.9231 0.0732 72 E 0.0043 0.8612 0.1345 73 F 0.0063 0.5317 0.4620 74 D 0.0131 0.0454 0.9416 75 A 0.0191 0.0121 0.9688 76 D 0.1003 0.0099 0.8898 77 L 0.9470 0.0027 0.0503 78 F 0.9790 0.0024 0.0187 79 I 0.9806 0.0024 0.0170 80 S 0.9704 0.0024 0.0272 81 I 0.8455 0.0069 0.1476 82 H 0.6775 0.0179 0.3046 83 A 0.4532 0.0444 0.5025 84 D 0.2614 0.0685 0.6701 85 T 0.1586 0.0659 0.7755 86 I 0.0884 0.0779 0.8337 87 D 0.0610 0.0711 0.8680 88 V 0.0571 0.0671 0.8759 89 H 0.0794 0.1246 0.7959 90 S 0.1067 0.1164 0.7769 91 L 0.2076 0.0784 0.7141 92 R 0.2290 0.0455 0.7255 93 G 0.3668 0.0280 0.6052 94 A 0.7428 0.0071 0.2501 95 T 0.9399 0.0027 0.0574 96 V 0.9626 0.0025 0.0349 97 Y 0.9558 0.0028 0.0413 98 T 0.9202 0.0027 0.0772 99 I 0.6655 0.0062 0.3283 100 S 0.1720 0.0172 0.8107 101 D 0.0253 0.0815 0.8932 102 E 0.0190 0.1762 0.8048 103 A 0.0180 0.3309 0.6511 104 S 0.0140 0.3868 0.5991 105 D 0.0111 0.6113 0.3775 106 A 0.0078 0.8055 0.1866 107 I 0.0065 0.8695 0.1241 108 A 0.0060 0.9153 0.0787 109 K 0.0048 0.9419 0.0533 110 S 0.0041 0.9480 0.0478 111 L 0.0039 0.9469 0.0492 112 A 0.0040 0.9368 0.0592 113 E 0.0041 0.9171 0.0789 114 S 0.0041 0.8826 0.1133 115 E 0.0050 0.7905 0.2044 116 N 0.0078 0.6775 0.3147 117 K 0.0105 0.7266 0.2629 118 V 0.0104 0.7521 0.2374 119 D 0.0145 0.7478 0.2377 120 L 0.0174 0.7547 0.2278 121 L 0.0193 0.7200 0.2607 122 D 0.0112 0.4936 0.4953 123 G 0.0202 0.1355 0.8444 124 L 0.0624 0.1143 0.8233 125 P 0.0993 0.1459 0.7549 126 K 0.0482 0.2183 0.7335 127 E 0.0391 0.1955 0.7654 128 E 0.0405 0.1516 0.8079 129 S 0.0356 0.1862 0.7782 130 L 0.0299 0.2115 0.7586 131 E 0.0153 0.6830 0.3017 132 L 0.0098 0.8736 0.1166 133 T 0.0067 0.9306 0.0627 134 D 0.0069 0.9376 0.0555 135 I 0.0086 0.9320 0.0594 136 L 0.0077 0.9367 0.0557 137 L 0.0085 0.9201 0.0715 138 D 0.0080 0.8915 0.1005 139 L 0.0088 0.8641 0.1271 140 T 0.0101 0.8511 0.1387 141 R 0.0144 0.7723 0.2133 142 R 0.0152 0.7189 0.2660 143 E 0.0178 0.6643 0.3179 144 T 0.0150 0.6423 0.3426 145 H 0.0166 0.6131 0.3704 146 A 0.0091 0.7642 0.2267 147 F 0.0065 0.8321 0.1614 148 S 0.0059 0.8477 0.1464 149 I 0.0056 0.8907 0.1037 150 N 0.0038 0.9519 0.0444 151 F 0.0037 0.9565 0.0398 152 A 0.0037 0.9652 0.0310 153 N 0.0037 0.9715 0.0247 154 N 0.0038 0.9717 0.0245 155 V 0.0037 0.9716 0.0246 156 V 0.0037 0.9718 0.0245 157 S 0.0038 0.9684 0.0278 158 N 0.0038 0.9622 0.0340 159 L 0.0038 0.9538 0.0424 160 S 0.0038 0.9431 0.0530 161 K 0.0046 0.9199 0.0756 162 S 0.0054 0.8627 0.1319 163 H 0.0063 0.8011 0.1926 164 I 0.0193 0.4417 0.5390 165 N 0.0374 0.1375 0.8251 166 L 0.0696 0.1252 0.8052 167 I 0.0803 0.1363 0.7834 168 N 0.0750 0.1763 0.7487 169 N 0.0914 0.1640 0.7446 170 P 0.1491 0.1445 0.7064 171 H 0.3579 0.1170 0.5251 172 R 0.4113 0.1098 0.4789 173 Y 0.3627 0.1149 0.5224 174 A 0.2619 0.0691 0.6689 175 D 0.2347 0.0407 0.7245 176 F 0.7396 0.0254 0.2350 177 Q 0.9094 0.0104 0.0802 178 V 0.9284 0.0127 0.0589 179 L 0.8805 0.0166 0.1028 180 K 0.6817 0.0263 0.2920 181 A 0.3118 0.0377 0.6505 182 P 0.1002 0.0411 0.8587 183 D 0.0520 0.0308 0.9172 184 V 0.0809 0.0185 0.9006 185 P 0.1628 0.0252 0.8120 186 S 0.7837 0.0211 0.1951 187 V 0.9218 0.0223 0.0559 188 L 0.9411 0.0212 0.0377 189 I 0.9217 0.0269 0.0514 190 E 0.8676 0.0337 0.0987 191 I 0.6549 0.0704 0.2747 192 G 0.4739 0.0883 0.4378 193 Y 0.4291 0.0809 0.4900 194 L 0.3532 0.0751 0.5717 195 S 0.1440 0.0465 0.8095 196 N 0.0253 0.0532 0.9215 197 K 0.0039 0.8719 0.1242 198 E 0.0038 0.9126 0.0836 199 D 0.0038 0.9415 0.0547 200 E 0.0038 0.9396 0.0566 201 K 0.0042 0.9010 0.0948 202 L 0.0057 0.8147 0.1796 203 L 0.0087 0.5624 0.4290 204 N 0.0108 0.3225 0.6668 205 N 0.0107 0.0518 0.9374 206 P 0.0040 0.8963 0.0997 207 Q 0.0038 0.9339 0.0623 208 W 0.0037 0.9606 0.0357 209 R 0.0037 0.9730 0.0232 210 K 0.0037 0.9727 0.0236 211 Q 0.0037 0.9738 0.0225 212 M 0.0037 0.9752 0.0211 213 A 0.0037 0.9762 0.0200 214 A 0.0037 0.9759 0.0204 215 S 0.0037 0.9759 0.0204 216 I 0.0037 0.9759 0.0204 217 A 0.0037 0.9755 0.0207 218 Y 0.0037 0.9706 0.0257 219 S 0.0037 0.9663 0.0299 220 I 0.0037 0.9752 0.0211 221 R 0.0037 0.9757 0.0206 222 Q 0.0037 0.9739 0.0223 223 F 0.0037 0.9705 0.0258 224 A 0.0038 0.9571 0.0391 225 E 0.0038 0.8684 0.1278 226 Y 0.0057 0.6273 0.3671 227 R 0.0162 0.1321 0.8517 228 Q 0.0152 0.0303 0.9544 229 K 0.0362 0.0805 0.8833 230 I 0.0757 0.1174 0.8070 231 M 0.1553 0.0742 0.7705 232 Q 0.2555 0.0442 0.7003 233 P 0.1677 0.0224 0.8099 234 L 0.0119 0.0063 0.9817