# This file is the result of combining several RDB files, specifically # T0313.t06.dssp-ebghstl.rdb (weight 1.53986) # T0313.t06.stride-ebghtl.rdb (weight 1.24869) # T0313.t06.str2.rdb (weight 1.54758) # T0313.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 T0313.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0313 # 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 T0313.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 90.4103 # # ============================================ # Comments from T0313.t06.stride-ebghtl.rdb # ============================================ # TARGET T0313 # 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 T0313.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 90.4103 # # ============================================ # Comments from T0313.t06.str2.rdb # ============================================ # TARGET T0313 # 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 T0313.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 90.4103 # # ============================================ # Comments from T0313.t06.alpha.rdb # ============================================ # TARGET T0313 # 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 T0313.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 90.4103 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 N 0.1356 0.0158 0.8486 2 I 0.4618 0.0055 0.5327 3 R 0.8447 0.0035 0.1518 4 V 0.9194 0.0035 0.0772 5 I 0.9272 0.0033 0.0696 6 A 0.9210 0.0039 0.0752 7 R 0.9044 0.0039 0.0918 8 V 0.7787 0.0069 0.2144 9 R 0.5245 0.0089 0.4667 10 P 0.3386 0.0219 0.6396 11 V 0.1978 0.0432 0.7590 12 T 0.1396 0.0322 0.8282 13 K 0.0381 0.2814 0.6805 14 E 0.0466 0.2666 0.6868 15 D 0.0739 0.2696 0.6565 16 G 0.0742 0.1282 0.7976 17 E 0.0865 0.0852 0.8282 18 G 0.0790 0.0473 0.8737 19 P 0.0873 0.0797 0.8331 20 E 0.1685 0.1154 0.7161 21 A 0.3237 0.0961 0.5802 22 T 0.5622 0.0520 0.3858 23 N 0.7759 0.0193 0.2047 24 A 0.8505 0.0088 0.1408 25 V 0.8691 0.0074 0.1235 26 T 0.8213 0.0085 0.1702 27 F 0.5793 0.0256 0.3951 28 D 0.2690 0.0299 0.7011 29 A 0.0534 0.1132 0.8334 30 D 0.0715 0.0832 0.8452 31 D 0.2035 0.0837 0.7128 32 D 0.5450 0.0641 0.3909 33 S 0.8300 0.0326 0.1374 34 I 0.8584 0.0285 0.1131 35 I 0.8181 0.0352 0.1467 36 H 0.7311 0.0413 0.2276 37 L 0.4708 0.1618 0.3674 38 L 0.2868 0.1952 0.5180 39 H 0.1558 0.1596 0.6847 40 K 0.0978 0.0847 0.8175 41 G 0.0673 0.0372 0.8955 42 K 0.1200 0.0178 0.8622 43 P 0.2294 0.0166 0.7540 44 V 0.5491 0.0113 0.4396 45 S 0.8030 0.0084 0.1886 46 F 0.8665 0.0057 0.1278 47 E 0.8578 0.0067 0.1355 48 L 0.7522 0.0240 0.2238 49 D 0.5509 0.0663 0.3828 50 K 0.5687 0.0526 0.3787 51 V 0.6137 0.0476 0.3387 52 F 0.4902 0.0354 0.4744 53 S 0.1274 0.0200 0.8527 54 P 0.0185 0.1709 0.8105 55 Q 0.0309 0.1453 0.8238 56 A 0.0755 0.1589 0.7656 57 S 0.0898 0.1434 0.7667 58 Q 0.0138 0.8301 0.1561 59 Q 0.0055 0.9332 0.0614 60 D 0.0060 0.9396 0.0544 61 V 0.0055 0.9405 0.0540 62 F 0.0048 0.9487 0.0464 63 Q 0.0053 0.9411 0.0537 64 E 0.0053 0.9282 0.0665 65 V 0.0058 0.9249 0.0693 66 Q 0.0050 0.9390 0.0559 67 A 0.0050 0.9386 0.0564 68 L 0.0050 0.9352 0.0598 69 V 0.0053 0.9407 0.0540 70 T 0.0056 0.9307 0.0637 71 S 0.0068 0.9180 0.0751 72 C 0.0076 0.8888 0.1036 73 I 0.0166 0.8087 0.1747 74 D 0.0370 0.4506 0.5124 75 G 0.0342 0.1570 0.8088 76 F 0.1146 0.0774 0.8081 77 N 0.2215 0.0376 0.7409 78 V 0.6457 0.0196 0.3347 79 C 0.8710 0.0114 0.1175 80 I 0.9175 0.0091 0.0734 81 F 0.9126 0.0104 0.0771 82 A 0.8748 0.0133 0.1119 83 Y 0.6864 0.0325 0.2811 84 G 0.3301 0.0278 0.6421 85 Q 0.2341 0.0662 0.6998 86 T 0.1297 0.0872 0.7831 87 G 0.0809 0.0733 0.8458 88 A 0.1006 0.0526 0.8469 89 G 0.1075 0.0478 0.8448 90 K 0.3530 0.0507 0.5963 91 T 0.6273 0.0476 0.3250 92 Y 0.6952 0.0497 0.2551 93 T 0.6891 0.0476 0.2633 94 M 0.6269 0.0585 0.3146 95 E 0.4886 0.0623 0.4491 96 G 0.2450 0.0359 0.7191 97 T 0.1374 0.0459 0.8167 98 A 0.0412 0.1827 0.7762 99 E 0.0333 0.1562 0.8105 100 N 0.0594 0.0780 0.8626 101 P 0.0379 0.1467 0.8154 102 G 0.0768 0.1771 0.7460 103 I 0.1528 0.3290 0.5181 104 N 0.0671 0.4688 0.4641 105 Q 0.0068 0.9271 0.0661 106 R 0.0060 0.9433 0.0507 107 A 0.0053 0.9505 0.0443 108 L 0.0047 0.9576 0.0377 109 Q 0.0047 0.9594 0.0360 110 L 0.0047 0.9569 0.0384 111 L 0.0048 0.9525 0.0427 112 F 0.0047 0.9537 0.0416 113 S 0.0049 0.9483 0.0469 114 E 0.0050 0.9307 0.0643 115 V 0.0068 0.8872 0.1059 116 Q 0.0102 0.7963 0.1934 117 E 0.0177 0.6743 0.3080 118 K 0.0361 0.5071 0.4569 119 A 0.0620 0.1981 0.7399 120 S 0.0396 0.1327 0.8278 121 D 0.0770 0.0686 0.8544 122 W 0.3232 0.0278 0.6490 123 E 0.5786 0.0139 0.4075 124 Y 0.8702 0.0038 0.1261 125 T 0.9105 0.0042 0.0853 126 I 0.9243 0.0036 0.0722 127 T 0.9226 0.0041 0.0733 128 V 0.9058 0.0042 0.0900 129 S 0.8152 0.0278 0.1570 130 A 0.7900 0.0749 0.1351 131 A 0.6926 0.1963 0.1110 132 E 0.6666 0.2443 0.0891 133 I 0.4761 0.3943 0.1296 134 Y 0.2381 0.4866 0.2753 135 N 0.0741 0.5675 0.3584 136 E 0.0512 0.6939 0.2549 137 V 0.0950 0.7592 0.1458 138 L 0.0558 0.8569 0.0873 139 R 0.0439 0.8618 0.0943 140 D 0.0315 0.8499 0.1186 141 L 0.0249 0.7595 0.2156 142 L 0.0368 0.5014 0.4618 143 G 0.0440 0.1265 0.8295 144 K 0.0536 0.0917 0.8547 145 E 0.0744 0.0386 0.8871 146 P 0.0526 0.1562 0.7912 147 Q 0.0487 0.2485 0.7028 148 E 0.0804 0.2557 0.6639 149 K 0.1492 0.1390 0.7118 150 L 0.3794 0.0409 0.5797 151 E 0.6686 0.0168 0.3146 152 I 0.7997 0.0074 0.1928 153 R 0.8551 0.0056 0.1394 154 L 0.8621 0.0070 0.1310 155 C 0.7105 0.0071 0.2824 156 P 0.5156 0.0238 0.4606 157 D 0.1603 0.0222 0.8175 158 G 0.0335 0.1137 0.8528 159 S 0.0522 0.0368 0.9110 160 G 0.0536 0.0510 0.8954 161 Q 0.2938 0.0211 0.6852 162 L 0.7848 0.0058 0.2094 163 Y 0.7910 0.0059 0.2031 164 V 0.5609 0.0116 0.4275 165 P 0.1298 0.0544 0.8158 166 G 0.1064 0.0312 0.8623 167 L 0.4414 0.0133 0.5454 168 T 0.7951 0.0135 0.1914 169 E 0.8839 0.0087 0.1073 170 F 0.8417 0.0061 0.1522 171 Q 0.8116 0.0053 0.1831 172 V 0.4765 0.0094 0.5141 173 Q 0.1952 0.0416 0.7632 174 S 0.0917 0.0109 0.8974 175 V 0.0051 0.9313 0.0636 176 D 0.0047 0.9544 0.0409 177 D 0.0048 0.9566 0.0387 178 I 0.0047 0.9596 0.0357 179 N 0.0047 0.9597 0.0357 180 K 0.0047 0.9578 0.0376 181 V 0.0047 0.9567 0.0386 182 F 0.0051 0.9502 0.0447 183 E 0.0052 0.9177 0.0771 184 F 0.0062 0.8148 0.1790 185 G 0.0120 0.6550 0.3330 186 H 0.0179 0.5658 0.4163 187 T 0.0289 0.5356 0.4354 188 N 0.0682 0.4079 0.5240 189 R 0.1250 0.2636 0.6114 190 T 0.2703 0.1921 0.5376 191 T 0.2848 0.2246 0.4906 192 E 0.2118 0.2373 0.5509 193 F 0.1813 0.2699 0.5488 194 T 0.1673 0.2330 0.5997 195 N 0.1439 0.2160 0.6401 196 L 0.1103 0.2253 0.6643 197 N 0.1098 0.1379 0.7523 198 E 0.0533 0.2644 0.6823 199 H 0.0654 0.1899 0.7447 200 S 0.1015 0.1457 0.7528 201 S 0.1054 0.1684 0.7262 202 R 0.1148 0.3064 0.5789 203 S 0.2182 0.1958 0.5860 204 H 0.3175 0.1215 0.5610 205 A 0.7217 0.0380 0.2403 206 L 0.8569 0.0160 0.1271 207 L 0.9019 0.0136 0.0845 208 I 0.9170 0.0108 0.0722 209 V 0.9046 0.0196 0.0759 210 T 0.9100 0.0146 0.0754 211 V 0.9081 0.0087 0.0832 212 R 0.8437 0.0211 0.1352 213 G 0.8139 0.0102 0.1759 214 V 0.6383 0.0175 0.3443 215 D 0.6302 0.0144 0.3554 216 C 0.3459 0.0833 0.5708 217 S 0.2381 0.0998 0.6622 218 T 0.1019 0.0660 0.8322 219 G 0.1115 0.0484 0.8401 220 L 0.5168 0.0230 0.4602 221 R 0.7120 0.0169 0.2711 222 T 0.7569 0.0224 0.2207 223 T 0.7381 0.0276 0.2343 224 G 0.6809 0.0221 0.2969 225 K 0.8282 0.0181 0.1537 226 L 0.8783 0.0088 0.1129 227 N 0.8766 0.0118 0.1116 228 L 0.8893 0.0207 0.0900 229 V 0.8393 0.0428 0.1178 230 D 0.7277 0.0998 0.1725 231 L 0.4248 0.1503 0.4249 232 A 0.2347 0.1340 0.6312 233 G 0.1283 0.1195 0.7522 234 S 0.1515 0.2095 0.6390 235 E 0.1557 0.3920 0.4522 236 R 0.2145 0.3999 0.3856 237 V 0.1899 0.3914 0.4187 238 G 0.1288 0.3143 0.5569 239 K 0.1575 0.2728 0.5698 240 S 0.2170 0.1963 0.5866 241 G 0.0840 0.0964 0.8196 242 A 0.0952 0.1560 0.7488 243 E 0.0698 0.1798 0.7504 244 G 0.0502 0.1885 0.7613 245 S 0.1012 0.3463 0.5525 246 R 0.1832 0.4913 0.3255 247 L 0.0722 0.7369 0.1909 248 R 0.0476 0.8276 0.1248 249 E 0.0358 0.8700 0.0942 250 A 0.0124 0.9079 0.0797 251 Q 0.0073 0.9289 0.0638 252 H 0.0066 0.9187 0.0747 253 I 0.0071 0.9153 0.0776 254 N 0.0083 0.9007 0.0910 255 K 0.0072 0.8657 0.1271 256 S 0.0070 0.8815 0.1115 257 L 0.0052 0.9397 0.0552 258 S 0.0051 0.9419 0.0530 259 A 0.0053 0.9263 0.0684 260 L 0.0048 0.9385 0.0567 261 G 0.0047 0.9498 0.0454 262 D 0.0047 0.9513 0.0440 263 V 0.0047 0.9558 0.0395 264 I 0.0047 0.9582 0.0371 265 A 0.0047 0.9552 0.0401 266 A 0.0049 0.9476 0.0475 267 L 0.0058 0.9263 0.0678 268 R 0.0100 0.8302 0.1597 269 S 0.0241 0.6184 0.3575 270 R 0.0256 0.3051 0.6694 271 Q 0.0534 0.0995 0.8471 272 G 0.0430 0.0631 0.8939 273 H 0.1850 0.0358 0.7791 274 V 0.3203 0.0186 0.6611 275 P 0.2441 0.0300 0.7260 276 F 0.1496 0.1856 0.6648 277 R 0.0729 0.3108 0.6163 278 N 0.0511 0.2674 0.6814 279 S 0.0746 0.3826 0.5428 280 K 0.0205 0.8568 0.1226 281 L 0.0100 0.9286 0.0614 282 T 0.0100 0.9307 0.0593 283 Y 0.0116 0.9342 0.0543 284 L 0.0099 0.9179 0.0722 285 L 0.0114 0.8750 0.1136 286 Q 0.0169 0.8457 0.1374 287 D 0.0208 0.7659 0.2133 288 S 0.0285 0.6470 0.3244 289 L 0.0642 0.3566 0.5792 290 S 0.0634 0.1394 0.7972 291 G 0.0442 0.1056 0.8502 292 D 0.0550 0.0719 0.8730 293 S 0.1639 0.0463 0.7898 294 K 0.3426 0.0277 0.6296 295 T 0.7961 0.0058 0.1981 296 L 0.9076 0.0038 0.0886 297 M 0.9302 0.0032 0.0665 298 V 0.9314 0.0031 0.0655 299 V 0.9139 0.0050 0.0811 300 Q 0.8835 0.0047 0.1118 301 V 0.6789 0.0142 0.3069 302 S 0.2425 0.0139 0.7436 303 P 0.0530 0.2709 0.6761 304 V 0.0424 0.3349 0.6227 305 E 0.0381 0.5208 0.4411 306 K 0.0540 0.3823 0.5637 307 N 0.0920 0.2675 0.6405 308 T 0.0321 0.6219 0.3459 309 S 0.0232 0.7967 0.1801 310 E 0.0303 0.8061 0.1636 311 T 0.0210 0.8538 0.1252 312 L 0.0094 0.9163 0.0743 313 Y 0.0088 0.8984 0.0928 314 S 0.0069 0.9182 0.0749 315 L 0.0052 0.9440 0.0508 316 K 0.0058 0.9383 0.0559 317 F 0.0057 0.9318 0.0625 318 A 0.0072 0.9142 0.0786 319 E 0.0095 0.8780 0.1126 320 R 0.0128 0.7240 0.2632 321 V 0.0567 0.4589 0.4843 322 R 0.0335 0.0726 0.8939