# This file is the result of combining several RDB files, specifically # T0270.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0270.t2k.stride-ebghtl.rdb (weight 1.24869) # T0270.t2k.str2.rdb (weight 1.54758) # T0270.t2k.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 T0270.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0270 # 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 T0270.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 31 # # ============================================ # Comments from T0270.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0270 # 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 T0270.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 31 # # ============================================ # Comments from T0270.t2k.str2.rdb # ============================================ # TARGET T0270 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str2-from-empty.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0270.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 31 # # ============================================ # Comments from T0270.t2k.alpha.rdb # ============================================ # TARGET T0270 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0270.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 31 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0850 0.0431 0.8719 2 E 0.1573 0.0375 0.8052 3 R 0.2111 0.0545 0.7344 4 H 0.2144 0.0585 0.7271 5 V 0.1808 0.0648 0.7544 6 P 0.1306 0.1225 0.7469 7 E 0.0978 0.2665 0.6357 8 P 0.1486 0.2490 0.6024 9 T 0.2210 0.1609 0.6181 10 H 0.2744 0.0940 0.6316 11 T 0.1810 0.0948 0.7242 12 L 0.0928 0.2234 0.6838 13 E 0.0782 0.2175 0.7042 14 G 0.1712 0.2567 0.5721 15 W 0.4035 0.3096 0.2869 16 H 0.5697 0.2812 0.1491 17 V 0.5723 0.3078 0.1199 18 L 0.5422 0.3318 0.1260 19 H 0.4824 0.3773 0.1403 20 D 0.4182 0.4187 0.1631 21 F 0.3591 0.4454 0.1955 22 R 0.4045 0.3499 0.2456 23 L 0.4446 0.2857 0.2696 24 L 0.4322 0.1439 0.4240 25 D 0.1827 0.1102 0.7071 26 F 0.0084 0.8340 0.1577 27 A 0.0075 0.8432 0.1492 28 R 0.0099 0.8356 0.1545 29 W 0.0248 0.7284 0.2468 30 F 0.0214 0.5308 0.4478 31 S 0.0324 0.2458 0.7218 32 A 0.0598 0.0474 0.8928 33 P 0.0526 0.0373 0.9100 34 L 0.0065 0.8683 0.1252 35 E 0.0055 0.9056 0.0889 36 A 0.0056 0.9300 0.0645 37 R 0.0048 0.9454 0.0498 38 E 0.0048 0.9406 0.0546 39 D 0.0049 0.9361 0.0590 40 A 0.0049 0.9356 0.0596 41 W 0.0048 0.9449 0.0503 42 E 0.0052 0.9349 0.0600 43 E 0.0050 0.9302 0.0648 44 L 0.0048 0.9413 0.0539 45 K 0.0048 0.9412 0.0540 46 G 0.0050 0.9314 0.0636 47 L 0.0051 0.9265 0.0684 48 V 0.0053 0.9305 0.0642 49 R 0.0054 0.9117 0.0829 50 E 0.0066 0.8869 0.1065 51 W 0.0108 0.8478 0.1414 52 R 0.0139 0.7821 0.2040 53 E 0.0167 0.6876 0.2957 54 L 0.0349 0.5522 0.4129 55 E 0.0403 0.3923 0.5674 56 E 0.0611 0.2194 0.7194 57 A 0.1296 0.1403 0.7302 58 G 0.2159 0.1067 0.6773 59 Q 0.3675 0.1326 0.4999 60 G 0.3564 0.1055 0.5382 61 S 0.4480 0.0847 0.4673 62 Y 0.6767 0.0745 0.2488 63 G 0.7440 0.0699 0.1860 64 I 0.8163 0.0569 0.1268 65 Y 0.8255 0.0578 0.1167 66 Q 0.7754 0.0868 0.1378 67 V 0.6315 0.1907 0.1777 68 V 0.4281 0.2545 0.3174 69 G 0.2851 0.2159 0.4990 70 H 0.1702 0.2685 0.5613 71 K 0.1815 0.1778 0.6407 72 A 0.2192 0.0474 0.7334 73 D 0.2499 0.0570 0.6931 74 L 0.8827 0.0074 0.1099 75 L 0.9150 0.0082 0.0768 76 F 0.9229 0.0066 0.0705 77 L 0.8837 0.0116 0.1047 78 N 0.6370 0.0284 0.3347 79 L 0.3098 0.0460 0.6442 80 R 0.1267 0.0522 0.8211 81 P 0.0536 0.1124 0.8340 82 G 0.0787 0.0559 0.8654 83 L 0.0070 0.8830 0.1100 84 D 0.0055 0.9258 0.0687 85 P 0.0050 0.9351 0.0599 86 L 0.0047 0.9518 0.0434 87 L 0.0048 0.9532 0.0420 88 E 0.0047 0.9526 0.0427 89 A 0.0047 0.9542 0.0411 90 E 0.0048 0.9535 0.0417 91 A 0.0049 0.9474 0.0477 92 R 0.0054 0.9283 0.0664 93 L 0.0129 0.8881 0.0990 94 S 0.0139 0.7876 0.1985 95 R 0.0150 0.7413 0.2437 96 S 0.0284 0.6156 0.3560 97 A 0.0307 0.5826 0.3867 98 F 0.0362 0.6428 0.3210 99 A 0.0331 0.6703 0.2967 100 R 0.0384 0.6345 0.3272 101 Y 0.0710 0.5393 0.3898 102 L 0.2061 0.3161 0.4778 103 G 0.3343 0.1667 0.4990 104 R 0.4482 0.1768 0.3749 105 S 0.5437 0.1584 0.2980 106 Y 0.6735 0.0888 0.2377 107 S 0.7004 0.0699 0.2297 108 F 0.7206 0.0884 0.1910 109 Y 0.7225 0.0982 0.1793 110 S 0.7496 0.0778 0.1726 111 V 0.7702 0.0769 0.1529 112 V 0.7207 0.0837 0.1956 113 E 0.6398 0.0910 0.2693 114 L 0.4039 0.1100 0.4861 115 G 0.1834 0.0745 0.7422 116 S 0.0831 0.1638 0.7532 117 Q 0.0904 0.1665 0.7431 118 E 0.0846 0.1536 0.7618 119 K 0.0591 0.1544 0.7864 120 P 0.0533 0.2508 0.6959 121 L 0.0584 0.2955 0.6462 122 D 0.0231 0.5005 0.4764 123 P 0.0289 0.4844 0.4866 124 E 0.0474 0.4556 0.4971 125 S 0.0643 0.3859 0.5498 126 P 0.0195 0.5457 0.4348 127 Y 0.0315 0.5577 0.4108 128 V 0.0360 0.6109 0.3531 129 K 0.0208 0.6881 0.2911 130 P 0.0149 0.7232 0.2619 131 R 0.0235 0.6781 0.2984 132 L 0.0654 0.5256 0.4090 133 T 0.0835 0.3151 0.6014 134 P 0.0723 0.2449 0.6827 135 R 0.1136 0.1756 0.7107 136 V 0.0881 0.0554 0.8565 137 P 0.0612 0.0601 0.8787 138 K 0.0645 0.0992 0.8363 139 S 0.1016 0.0933 0.8050 140 G 0.1144 0.0770 0.8086 141 Y 0.6550 0.0193 0.3257 142 V 0.8614 0.0059 0.1326 143 C 0.8900 0.0060 0.1039 144 F 0.8346 0.0103 0.1551 145 Y 0.6679 0.0081 0.3240 146 P 0.4247 0.0488 0.5265 147 M 0.4449 0.0521 0.5030 148 N 0.4526 0.0466 0.5008 149 K 0.3844 0.0478 0.5677 150 R 0.2920 0.0314 0.6766 151 R 0.1613 0.0557 0.7830 152 Q 0.0841 0.0407 0.8752 153 G 0.0437 0.1178 0.8385 154 Q 0.0497 0.1200 0.8303 155 D 0.0949 0.1348 0.7704 156 N 0.2330 0.1170 0.6500 157 W 0.4036 0.1464 0.4500 158 Y 0.4593 0.0938 0.4470 159 M 0.4579 0.0566 0.4855 160 L 0.1635 0.0193 0.8172 161 P 0.0718 0.0211 0.9071 162 A 0.0052 0.9188 0.0760 163 K 0.0047 0.9384 0.0568 164 E 0.0049 0.9471 0.0479 165 R 0.0047 0.9562 0.0391 166 A 0.0047 0.9538 0.0415 167 S 0.0047 0.9496 0.0457 168 L 0.0047 0.9493 0.0460 169 M 0.0048 0.9511 0.0442 170 K 0.0051 0.9478 0.0472 171 A 0.0059 0.9345 0.0596 172 H 0.0081 0.9164 0.0755 173 G 0.0069 0.8927 0.1004 174 E 0.0062 0.9178 0.0760 175 T 0.0068 0.8968 0.0964 176 G 0.0130 0.8241 0.1629 177 R 0.0198 0.7368 0.2434 178 K 0.0257 0.6048 0.3694 179 Y 0.0494 0.3636 0.5870 180 Q 0.0282 0.2993 0.6725 181 G 0.0260 0.2325 0.7415 182 E 0.0765 0.2487 0.6748 183 V 0.4305 0.1055 0.4640 184 M 0.6494 0.0928 0.2579 185 Q 0.7833 0.0500 0.1667 186 V 0.7868 0.0462 0.1670 187 I 0.8165 0.0216 0.1619 188 S 0.7622 0.0320 0.2058 189 G 0.7411 0.0305 0.2284 190 A 0.6777 0.0501 0.2722 191 Q 0.6011 0.0445 0.3544 192 G 0.4310 0.0305 0.5385 193 L 0.2579 0.0704 0.6717 194 D 0.1695 0.0718 0.7587 195 D 0.2267 0.0809 0.6924 196 W 0.4652 0.0655 0.4693 197 E 0.7058 0.0380 0.2562 198 W 0.8490 0.0237 0.1273 199 G 0.8873 0.0147 0.0980 200 V 0.8877 0.0171 0.0951 201 D 0.8907 0.0117 0.0976 202 L 0.8255 0.0212 0.1533 203 F 0.6930 0.0267 0.2803 204 S 0.2406 0.0789 0.6805 205 E 0.0451 0.1142 0.8408 206 D 0.0759 0.0702 0.8539 207 P 0.0087 0.8352 0.1561 208 V 0.0070 0.8880 0.1050 209 Q 0.0089 0.9129 0.0782 210 F 0.0052 0.9494 0.0454 211 K 0.0051 0.9562 0.0387 212 K 0.0049 0.9570 0.0380 213 I 0.0049 0.9577 0.0374 214 V 0.0048 0.9566 0.0386 215 Y 0.0052 0.9517 0.0432 216 E 0.0058 0.9336 0.0606 217 M 0.0092 0.8979 0.0930 218 R 0.0139 0.7926 0.1935 219 F 0.0057 0.9369 0.0574 220 D 0.0070 0.9314 0.0617 221 E 0.0058 0.9348 0.0594 222 V 0.0078 0.9258 0.0664 223 S 0.0089 0.9215 0.0696 224 A 0.0137 0.9067 0.0797 225 R 0.0249 0.8587 0.1164 226 Y 0.0517 0.7808 0.1676 227 G 0.0645 0.6605 0.2750 228 E 0.0716 0.5169 0.4115 229 F 0.1265 0.2987 0.5748 230 G 0.1483 0.0696 0.7821 231 P 0.2483 0.0579 0.6938 232 F 0.6351 0.0492 0.3157 233 F 0.7752 0.0281 0.1967 234 V 0.6913 0.0439 0.2648 235 G 0.5391 0.0407 0.4201 236 K 0.4543 0.0536 0.4921 237 Y 0.3486 0.0485 0.6029 238 L 0.2354 0.0317 0.7329 239 D 0.1582 0.0201 0.8217 240 E 0.0059 0.8777 0.1164 241 E 0.0050 0.9132 0.0818 242 A 0.0054 0.9240 0.0706 243 L 0.0051 0.9285 0.0664 244 R 0.0062 0.9078 0.0861 245 A 0.0078 0.8492 0.1430 246 F 0.0149 0.7519 0.2333 247 L 0.0762 0.3877 0.5360 248 G 0.0749 0.1219 0.8031 249 L 0.0453 0.0393 0.9154