# This file is the result of combining several RDB files, specifically # T0301.t06.dssp-ebghstl.rdb (weight 1.53986) # T0301.t06.stride-ebghtl.rdb (weight 1.24869) # T0301.t06.str2.rdb (weight 1.54758) # T0301.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 T0301.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0301 # 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 T0301.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 14.6022 # # ============================================ # Comments from T0301.t06.stride-ebghtl.rdb # ============================================ # TARGET T0301 # 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 T0301.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 14.6022 # # ============================================ # Comments from T0301.t06.str2.rdb # ============================================ # TARGET T0301 # 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 T0301.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 14.6022 # # ============================================ # Comments from T0301.t06.alpha.rdb # ============================================ # TARGET T0301 # 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 T0301.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 14.6022 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0655 0.0442 0.8902 2 A 0.0905 0.0532 0.8563 3 H 0.0928 0.0354 0.8718 4 P 0.0766 0.0440 0.8793 5 P 0.1043 0.1288 0.7669 6 Q 0.2464 0.1542 0.5993 7 I 0.3967 0.1034 0.4999 8 R 0.5570 0.0461 0.3969 9 I 0.5453 0.0210 0.4337 10 P 0.5030 0.0187 0.4783 11 A 0.6695 0.0653 0.2652 12 T 0.7408 0.0914 0.1678 13 Y 0.7831 0.0854 0.1315 14 L 0.7253 0.0688 0.2059 15 R 0.4803 0.0626 0.4571 16 G 0.2135 0.0583 0.7281 17 G 0.1353 0.0690 0.7958 18 T 0.1399 0.0869 0.7731 19 S 0.1382 0.0946 0.7672 20 K 0.1232 0.1623 0.7145 21 G 0.1768 0.2131 0.6101 22 V 0.3570 0.2501 0.3930 23 F 0.5867 0.1725 0.2408 24 F 0.5859 0.1423 0.2718 25 R 0.4337 0.1167 0.4496 26 L 0.0383 0.6943 0.2674 27 E 0.0200 0.5771 0.4029 28 D 0.0215 0.5245 0.4540 29 L 0.0740 0.1040 0.8220 30 P 0.0638 0.1960 0.7402 31 E 0.0218 0.5256 0.4526 32 S 0.0249 0.4583 0.5168 33 C 0.0855 0.2756 0.6388 34 R 0.0807 0.1545 0.7649 35 V 0.0702 0.0544 0.8754 36 P 0.0564 0.0935 0.8501 37 G 0.0269 0.4521 0.5210 38 E 0.0158 0.7886 0.1956 39 A 0.0084 0.8935 0.0981 40 R 0.0074 0.9106 0.0819 41 D 0.0073 0.9149 0.0778 42 R 0.0057 0.9255 0.0688 43 L 0.0068 0.9094 0.0838 44 F 0.0087 0.9194 0.0719 45 M 0.0127 0.9152 0.0722 46 R 0.0162 0.9021 0.0817 47 V 0.0210 0.8735 0.1055 48 I 0.0695 0.6301 0.3004 49 G 0.0760 0.1718 0.7523 50 S 0.1013 0.0445 0.8543 51 P 0.0701 0.0632 0.8667 52 D 0.0930 0.0213 0.8857 53 P 0.0154 0.3878 0.5967 54 Y 0.0211 0.4209 0.5580 55 A 0.0379 0.5092 0.4528 56 A 0.0926 0.3799 0.5274 57 H 0.2288 0.2532 0.5181 58 I 0.3411 0.1668 0.4921 59 D 0.2208 0.1401 0.6391 60 G 0.1650 0.1108 0.7241 61 M 0.1592 0.1141 0.7267 62 G 0.1542 0.0957 0.7501 63 G 0.1309 0.0630 0.8061 64 A 0.1690 0.0582 0.7728 65 T 0.1501 0.0513 0.7986 66 S 0.1037 0.1140 0.7824 67 S 0.0859 0.1159 0.7983 68 T 0.1700 0.0700 0.7600 69 S 0.2673 0.0449 0.6878 70 K 0.5961 0.0282 0.3757 71 C 0.8642 0.0092 0.1266 72 V 0.9059 0.0068 0.0873 73 I 0.9113 0.0054 0.0834 74 L 0.8158 0.0147 0.1694 75 S 0.5528 0.0136 0.4336 76 K 0.2078 0.0768 0.7154 77 S 0.0959 0.0777 0.8265 78 S 0.0661 0.0749 0.8590 79 Q 0.0606 0.0294 0.9100 80 P 0.0355 0.0998 0.8647 81 G 0.0455 0.0979 0.8566 82 H 0.1551 0.0702 0.7747 83 D 0.2808 0.0330 0.6862 84 V 0.4644 0.0799 0.4557 85 D 0.5295 0.0844 0.3861 86 Y 0.8024 0.0348 0.1628 87 L 0.8357 0.0313 0.1330 88 Y 0.8488 0.0251 0.1261 89 G 0.8449 0.0227 0.1325 90 Q 0.8513 0.0190 0.1297 91 V 0.7913 0.0237 0.1850 92 S 0.6873 0.0168 0.2959 93 I 0.4426 0.0396 0.5178 94 D 0.1927 0.0499 0.7574 95 K 0.1260 0.0726 0.8014 96 P 0.1573 0.1195 0.7233 97 F 0.4390 0.1105 0.4505 98 V 0.6044 0.0399 0.3557 99 D 0.4301 0.0290 0.5409 100 W 0.1612 0.1321 0.7067 101 S 0.1191 0.1022 0.7787 102 G 0.0665 0.1460 0.7874 103 N 0.0764 0.1398 0.7837 104 C 0.1324 0.1755 0.6921 105 G 0.1071 0.2888 0.6041 106 N 0.1558 0.3892 0.4550 107 L 0.1418 0.5590 0.2992 108 S 0.1495 0.6311 0.2194 109 T 0.1836 0.5930 0.2235 110 G 0.1610 0.5942 0.2448 111 A 0.1151 0.6676 0.2173 112 G 0.0541 0.7594 0.1865 113 A 0.0170 0.8849 0.0981 114 F 0.0158 0.9094 0.0748 115 A 0.0192 0.9145 0.0663 116 L 0.0188 0.8923 0.0889 117 H 0.0182 0.8170 0.1649 118 A 0.0453 0.3454 0.6093 119 G 0.0321 0.0663 0.9016 120 L 0.1080 0.0654 0.8265 121 V 0.2428 0.0314 0.7258 122 D 0.1491 0.0211 0.8298 123 P 0.0321 0.4810 0.4869 124 A 0.0452 0.4159 0.5388 125 R 0.1544 0.3789 0.4668 126 I 0.2297 0.0207 0.7495 127 P 0.1014 0.0345 0.8641 128 E 0.0449 0.1392 0.8160 129 D 0.0518 0.0863 0.8618 130 G 0.0970 0.0669 0.8361 131 I 0.5514 0.0139 0.4347 132 C 0.8177 0.0054 0.1769 133 E 0.9082 0.0036 0.0882 134 V 0.9222 0.0034 0.0744 135 R 0.9219 0.0051 0.0730 136 I 0.9061 0.0085 0.0854 137 W 0.8375 0.0202 0.1424 138 Q 0.7368 0.0388 0.2244 139 A 0.4295 0.1156 0.4549 140 N 0.3240 0.0880 0.5881 141 I 0.1948 0.0693 0.7359 142 G 0.1321 0.0575 0.8104 143 K 0.4822 0.0349 0.4829 144 T 0.8234 0.0179 0.1587 145 I 0.8841 0.0161 0.0998 146 I 0.9068 0.0112 0.0819 147 A 0.8759 0.0123 0.1118 148 H 0.8739 0.0074 0.1188 149 V 0.8337 0.0054 0.1609 150 P 0.7369 0.0046 0.2585 151 V 0.4053 0.0188 0.5758 152 S 0.1398 0.0684 0.7918 153 G 0.0531 0.0456 0.9013 154 G 0.1860 0.0342 0.7798 155 Q 0.6372 0.0142 0.3486 156 V 0.8605 0.0066 0.1328 157 Q 0.7705 0.0160 0.2135 158 E 0.7768 0.0165 0.2067 159 T 0.5196 0.0252 0.4552 160 G 0.3886 0.0223 0.5890 161 D 0.5927 0.0206 0.3867 162 F 0.8058 0.0161 0.1781 163 E 0.8173 0.0162 0.1666 164 L 0.7448 0.0281 0.2271 165 D 0.3899 0.0571 0.5531 166 G 0.2001 0.0345 0.7654 167 V 0.3657 0.0231 0.6112 168 T 0.3370 0.0265 0.6365 169 F 0.1592 0.0435 0.7973 170 P 0.0962 0.0989 0.8048 171 A 0.0876 0.1595 0.7529 172 A 0.2465 0.0828 0.6707 173 E 0.4698 0.0390 0.4912 174 I 0.7896 0.0105 0.1999 175 V 0.8542 0.0082 0.1376 176 L 0.8684 0.0101 0.1215 177 E 0.8577 0.0142 0.1281 178 F 0.7905 0.0156 0.1938 179 L 0.5630 0.0194 0.4176 180 D 0.2707 0.0101 0.7192 181 P 0.0850 0.0836 0.8313 182 S 0.0505 0.0785 0.8710 183 D 0.0423 0.1397 0.8180 184 D 0.0575 0.0891 0.8534 185 G 0.0769 0.0624 0.8607 186 E 0.0688 0.1815 0.7497 187 D 0.1766 0.1696 0.6538 188 G 0.1626 0.1888 0.6486 189 G 0.1459 0.1524 0.7018 190 A 0.3661 0.0900 0.5439 191 I 0.6054 0.0612 0.3334 192 F 0.3367 0.0409 0.6223 193 P 0.2047 0.0495 0.7458 194 T 0.1599 0.0483 0.7918 195 G 0.0965 0.0836 0.8200 196 N 0.1325 0.0749 0.7926 197 L 0.3059 0.1340 0.5601 198 V 0.4471 0.0981 0.4547 199 D 0.4654 0.1149 0.4197 200 D 0.6627 0.0563 0.2811 201 L 0.8061 0.0179 0.1760 202 E 0.7807 0.0110 0.2083 203 V 0.4839 0.0143 0.5018 204 P 0.1269 0.0582 0.8149 205 G 0.0785 0.0432 0.8783 206 V 0.1802 0.0522 0.7676 207 G 0.1623 0.0419 0.7958 208 T 0.4625 0.0261 0.5114 209 F 0.7330 0.0052 0.2618 210 K 0.8400 0.0043 0.1556 211 A 0.9002 0.0051 0.0947 212 T 0.9068 0.0071 0.0861 213 M 0.8919 0.0111 0.0970 214 I 0.8001 0.0394 0.1605 215 N 0.5437 0.0797 0.3766 216 A 0.1916 0.1197 0.6887 217 G 0.1567 0.0895 0.7538 218 I 0.1633 0.0616 0.7751 219 P 0.2696 0.0592 0.6712 220 T 0.6921 0.0549 0.2529 221 V 0.8881 0.0183 0.0936 222 F 0.9114 0.0116 0.0771 223 V 0.8485 0.0221 0.1294 224 N 0.5996 0.0117 0.3887 225 A 0.0332 0.7192 0.2477 226 E 0.0119 0.7986 0.1895 227 E 0.0140 0.8189 0.1671 228 I 0.0844 0.4881 0.4275 229 G 0.0645 0.1237 0.8118 230 Y 0.1237 0.1388 0.7375 231 R 0.1176 0.1528 0.7296 232 G 0.0739 0.1441 0.7820 233 T 0.0765 0.3938 0.5297 234 E 0.1242 0.5093 0.3665 235 L 0.0736 0.6226 0.3039 236 R 0.0191 0.8427 0.1382 237 E 0.0117 0.8532 0.1351 238 E 0.0114 0.8234 0.1652 239 I 0.0376 0.6039 0.3585 240 N 0.0453 0.2963 0.6584 241 G 0.0384 0.1349 0.8267 242 D 0.0840 0.0269 0.8891 243 P 0.0051 0.9307 0.0643 244 Q 0.0049 0.9450 0.0502 245 Q 0.0049 0.9507 0.0444 246 L 0.0047 0.9568 0.0385 247 A 0.0047 0.9569 0.0384 248 R 0.0048 0.9545 0.0407 249 F 0.0047 0.9568 0.0385 250 E 0.0047 0.9591 0.0362 251 R 0.0047 0.9597 0.0357 252 I 0.0047 0.9578 0.0375 253 R 0.0047 0.9584 0.0369 254 V 0.0048 0.9584 0.0368 255 A 0.0052 0.9521 0.0428 256 G 0.0050 0.9516 0.0435 257 A 0.0054 0.9515 0.0431 258 L 0.0069 0.9453 0.0478 259 R 0.0075 0.9172 0.0753 260 M 0.0453 0.6138 0.3409 261 G 0.0426 0.1289 0.8285 262 L 0.0861 0.1526 0.7613 263 I 0.1272 0.0986 0.7742 264 K 0.0778 0.0700 0.8522 265 T 0.0827 0.0297 0.8876 266 P 0.0073 0.8445 0.1483 267 E 0.0059 0.8793 0.1148 268 E 0.0081 0.8839 0.1079 269 A 0.0206 0.8248 0.1546 270 A 0.0292 0.6777 0.2931 271 T 0.0441 0.4664 0.4894 272 R 0.0809 0.1538 0.7652 273 Q 0.0865 0.0968 0.8167 274 H 0.1214 0.0531 0.8255 275 T 0.1681 0.0206 0.8114 276 P 0.2151 0.0162 0.7687 277 K 0.6004 0.0163 0.3833 278 I 0.8582 0.0083 0.1335 279 A 0.8948 0.0089 0.0963 280 F 0.9138 0.0056 0.0806 281 V 0.8301 0.0124 0.1575 282 A 0.4902 0.0137 0.4961 283 P 0.1914 0.0153 0.7933 284 P 0.0944 0.1566 0.7490 285 R 0.0656 0.3433 0.5911 286 D 0.0922 0.3905 0.5173 287 Y 0.1450 0.4086 0.4464 288 R 0.2343 0.3208 0.4450 289 T 0.2140 0.2701 0.5159 290 A 0.1693 0.2454 0.5853 291 S 0.1000 0.1506 0.7495 292 G 0.1145 0.1363 0.7492 293 K 0.4068 0.1523 0.4409 294 L 0.5883 0.1444 0.2673 295 V 0.3915 0.1638 0.4448 296 A 0.2919 0.1463 0.5617 297 A 0.0883 0.3196 0.5921 298 G 0.0576 0.1845 0.7579 299 D 0.1270 0.1434 0.7296 300 I 0.2718 0.0592 0.6689 301 D 0.4002 0.0675 0.5323 302 L 0.7767 0.0654 0.1579 303 L 0.8348 0.0701 0.0951 304 V 0.8247 0.0790 0.0963 305 R 0.7751 0.1045 0.1203 306 A 0.7099 0.1078 0.1823 307 L 0.4963 0.1167 0.3869 308 S 0.2803 0.0843 0.6353 309 M 0.0811 0.2080 0.7109 310 G 0.0432 0.1787 0.7781 311 K 0.0990 0.1672 0.7338 312 L 0.1531 0.2053 0.6416 313 H 0.1105 0.2781 0.6114 314 H 0.0466 0.5244 0.4291 315 A 0.0570 0.5807 0.3623 316 M 0.0575 0.6123 0.3302 317 M 0.0345 0.7419 0.2236 318 G 0.0211 0.8307 0.1482 319 T 0.0113 0.9137 0.0750 320 A 0.0054 0.9534 0.0412 321 A 0.0048 0.9588 0.0365 322 V 0.0047 0.9598 0.0355 323 A 0.0047 0.9591 0.0362 324 I 0.0048 0.9574 0.0378 325 G 0.0052 0.9480 0.0468 326 T 0.0061 0.9326 0.0613 327 A 0.0084 0.8920 0.0996 328 A 0.0209 0.7805 0.1986 329 A 0.0492 0.6114 0.3394 330 I 0.0838 0.1685 0.7477 331 P 0.0359 0.1821 0.7821 332 G 0.0520 0.1688 0.7792 333 T 0.1399 0.3805 0.4796 334 L 0.0749 0.7580 0.1671 335 V 0.0618 0.7941 0.1440 336 N 0.0784 0.7403 0.1813 337 L 0.0687 0.7397 0.1915 338 A 0.0785 0.6059 0.3155 339 A 0.0780 0.4141 0.5079 340 G 0.0635 0.1787 0.7579 341 G 0.0622 0.0761 0.8617 342 G 0.0759 0.0560 0.8681 343 E 0.1654 0.0654 0.7692 344 R 0.2726 0.0737 0.6536 345 S 0.3846 0.0488 0.5667 346 A 0.7531 0.0161 0.2308 347 V 0.8664 0.0064 0.1272 348 R 0.8980 0.0052 0.0968 349 F 0.8296 0.0122 0.1582 350 G 0.6099 0.0190 0.3712 351 H 0.3005 0.0185 0.6810 352 P 0.1323 0.0776 0.7901 353 S 0.1613 0.0528 0.7859 354 G 0.4064 0.0361 0.5575 355 T 0.7660 0.0110 0.2230 356 L 0.9013 0.0046 0.0940 357 R 0.9131 0.0046 0.0823 358 V 0.9099 0.0053 0.0849 359 G 0.8906 0.0083 0.1011 360 A 0.8855 0.0075 0.1070 361 E 0.8890 0.0085 0.1026 362 A 0.8656 0.0132 0.1212 363 S 0.7668 0.0198 0.2134 364 Q 0.5626 0.0861 0.3512 365 A 0.2893 0.1046 0.6061 366 N 0.0814 0.0516 0.8670 367 G 0.0773 0.0438 0.8789 368 E 0.3900 0.0368 0.5732 369 W 0.7024 0.0157 0.2819 370 T 0.8138 0.0160 0.1702 371 V 0.8455 0.0252 0.1293 372 T 0.7521 0.0701 0.1778 373 K 0.7526 0.0944 0.1530 374 A 0.7145 0.1636 0.1218 375 I 0.6921 0.2098 0.0981 376 M 0.5513 0.3424 0.1064 377 S 0.3525 0.4960 0.1516 378 R 0.1726 0.5943 0.2332 379 S 0.1304 0.6501 0.2195 380 A 0.0559 0.8277 0.1164 381 R 0.0786 0.8162 0.1052 382 I 0.1012 0.8065 0.0923 383 L 0.1753 0.6966 0.1281 384 M 0.2838 0.5293 0.1870 385 E 0.3113 0.3332 0.3555 386 G 0.3669 0.2091 0.4239 387 W 0.6305 0.1276 0.2419 388 V 0.7964 0.0401 0.1635 389 R 0.7648 0.0232 0.2119 390 V 0.5056 0.0133 0.4811 391 P 0.2181 0.0327 0.7492 392 G 0.0661 0.2019 0.7320 393 D 0.0663 0.2378 0.6959 394 A 0.0768 0.2453 0.6778 395 F 0.0592 0.0484 0.8924