# This file is the result of combining several RDB files, specifically # T0296.t06.dssp-ebghstl.rdb (weight 1.53986) # T0296.t06.stride-ebghtl.rdb (weight 1.24869) # T0296.t06.str2.rdb (weight 1.54758) # T0296.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 T0296.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.4078 # # ============================================ # Comments from T0296.t06.stride-ebghtl.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.4078 # # ============================================ # Comments from T0296.t06.str2.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.4078 # # ============================================ # Comments from T0296.t06.alpha.rdb # ============================================ # TARGET T0296 # 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 T0296.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 11.4078 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 T 0.0906 0.0224 0.8870 2 P 0.2130 0.1007 0.6863 3 I 0.4622 0.1812 0.3566 4 S 0.6292 0.1771 0.1937 5 L 0.6525 0.2156 0.1319 6 I 0.6483 0.1793 0.1724 7 G 0.5501 0.1724 0.2775 8 A 0.3139 0.1857 0.5005 9 A 0.1981 0.1665 0.6354 10 T 0.1276 0.1120 0.7604 11 D 0.0806 0.0864 0.8330 12 A 0.0266 0.4488 0.5247 13 T 0.0275 0.5726 0.3999 14 D 0.0332 0.6676 0.2992 15 Y 0.0146 0.9052 0.0802 16 V 0.0069 0.9471 0.0460 17 V 0.0062 0.9536 0.0401 18 L 0.0053 0.9548 0.0399 19 A 0.0050 0.9529 0.0421 20 K 0.0049 0.9533 0.0419 21 A 0.0048 0.9477 0.0474 22 L 0.0051 0.9449 0.0500 23 D 0.0052 0.9516 0.0432 24 K 0.0047 0.9546 0.0407 25 A 0.0047 0.9541 0.0412 26 A 0.0048 0.9520 0.0432 27 K 0.0049 0.9391 0.0560 28 E 0.0055 0.9197 0.0748 29 I 0.0463 0.5584 0.3953 30 G 0.0478 0.0376 0.9147 31 V 0.1473 0.0138 0.8389 32 D 0.4337 0.0479 0.5184 33 F 0.5908 0.0636 0.3456 34 I 0.5059 0.1076 0.3865 35 G 0.3440 0.1510 0.5051 36 G 0.2034 0.1790 0.6176 37 F 0.1402 0.4656 0.3942 38 S 0.1038 0.6567 0.2395 39 A 0.1223 0.7188 0.1590 40 L 0.1941 0.6855 0.1204 41 V 0.2096 0.6371 0.1533 42 Q 0.1989 0.5589 0.2422 43 K 0.1060 0.3369 0.5571 44 G 0.0613 0.0972 0.8416 45 Y 0.1092 0.0691 0.8216 46 Q 0.1117 0.0805 0.8078 47 K 0.0500 0.2636 0.6863 48 G 0.0440 0.2436 0.7124 49 D 0.0834 0.4183 0.4983 50 E 0.0970 0.6716 0.2314 51 I 0.1143 0.7161 0.1696 52 L 0.0830 0.7782 0.1388 53 I 0.0650 0.7916 0.1435 54 N 0.0379 0.7200 0.2421 55 S 0.0318 0.6916 0.2766 56 I 0.0246 0.7524 0.2230 57 P 0.0110 0.8790 0.1100 58 R 0.0083 0.9144 0.0774 59 A 0.0093 0.9125 0.0782 60 L 0.0120 0.8865 0.1015 61 A 0.0100 0.7892 0.2009 62 E 0.0193 0.5768 0.4039 63 T 0.0635 0.2620 0.6745 64 D 0.0807 0.1407 0.7786 65 K 0.3882 0.1163 0.4955 66 V 0.7187 0.0484 0.2328 67 C 0.7461 0.0382 0.2157 68 S 0.7737 0.0269 0.1994 69 S 0.8405 0.0186 0.1410 70 V 0.8391 0.0152 0.1457 71 N 0.8161 0.0154 0.1685 72 I 0.7092 0.0444 0.2464 73 G 0.5103 0.0532 0.4365 74 S 0.3329 0.0769 0.5902 75 T 0.1502 0.1365 0.7133 76 K 0.0734 0.2305 0.6961 77 S 0.0560 0.1445 0.7995 78 G 0.0616 0.0926 0.8458 79 I 0.1935 0.0565 0.7500 80 N 0.2052 0.0617 0.7331 81 M 0.0181 0.8674 0.1145 82 T 0.0091 0.9136 0.0773 83 A 0.0125 0.9185 0.0690 84 V 0.0162 0.9207 0.0631 85 A 0.0107 0.9258 0.0635 86 D 0.0102 0.9117 0.0782 87 M 0.0110 0.8869 0.1021 88 G 0.0131 0.8749 0.1120 89 R 0.0148 0.9061 0.0791 90 I 0.0300 0.9037 0.0664 91 I 0.0379 0.8875 0.0746 92 K 0.0554 0.8351 0.1095 93 E 0.0644 0.7744 0.1612 94 T 0.0453 0.7065 0.2482 95 A 0.0461 0.5802 0.3737 96 N 0.0626 0.4254 0.5120 97 L 0.0845 0.2677 0.6478 98 S 0.0542 0.1627 0.7832 99 D 0.0433 0.2379 0.7188 100 M 0.0774 0.2407 0.6819 101 G 0.1058 0.2073 0.6869 102 V 0.2497 0.2633 0.4871 103 A 0.5061 0.1409 0.3530 104 K 0.5623 0.1743 0.2634 105 L 0.7971 0.0959 0.1071 106 V 0.8283 0.0888 0.0829 107 V 0.8201 0.0924 0.0875 108 F 0.7355 0.1137 0.1507 109 A 0.4980 0.1192 0.3829 110 N 0.2254 0.1342 0.6404 111 A 0.1565 0.1467 0.6968 112 V 0.1112 0.2290 0.6597 113 E 0.0516 0.2481 0.7003 114 D 0.0506 0.1735 0.7759 115 N 0.0924 0.0406 0.8671 116 P 0.0480 0.1823 0.7697 117 F 0.0922 0.1918 0.7160 118 M 0.1941 0.2192 0.5867 119 A 0.2473 0.2680 0.4847 120 G 0.3274 0.2955 0.3771 121 A 0.4571 0.2894 0.2535 122 F 0.5376 0.2306 0.2318 123 H 0.4830 0.1454 0.3716 124 G 0.3641 0.0919 0.5440 125 V 0.2794 0.0712 0.6494 126 G 0.2093 0.0512 0.7395 127 E 0.1797 0.1006 0.7197 128 A 0.1960 0.1130 0.6910 129 D 0.3106 0.1004 0.5890 130 V 0.7875 0.0241 0.1884 131 I 0.9070 0.0080 0.0850 132 I 0.8886 0.0148 0.0966 133 N 0.8044 0.0122 0.1834 134 V 0.5590 0.0604 0.3806 135 G 0.4320 0.0522 0.5158 136 V 0.3435 0.0531 0.6034 137 S 0.1674 0.0609 0.7717 138 G 0.0744 0.1123 0.8133 139 P 0.0320 0.5107 0.4574 140 G 0.0303 0.7066 0.2631 141 V 0.0383 0.8452 0.1165 142 V 0.0195 0.9124 0.0681 143 K 0.0100 0.9425 0.0475 144 R 0.0119 0.9379 0.0502 145 A 0.0101 0.9362 0.0537 146 L 0.0096 0.9265 0.0638 147 E 0.0117 0.9136 0.0747 148 K 0.0123 0.8562 0.1314 149 V 0.0376 0.7300 0.2324 150 R 0.0287 0.4807 0.4906 151 G 0.0297 0.2186 0.7516 152 Q 0.0538 0.1959 0.7503 153 S 0.0908 0.2387 0.6705 154 F 0.0292 0.7392 0.2316 155 D 0.0182 0.8526 0.1292 156 V 0.0277 0.8990 0.0733 157 V 0.0186 0.9136 0.0679 158 A 0.0104 0.9344 0.0552 159 E 0.0079 0.9422 0.0499 160 T 0.0073 0.9399 0.0528 161 V 0.0099 0.9241 0.0661 162 K 0.0110 0.9088 0.0802 163 K 0.0126 0.8684 0.1190 164 T 0.0135 0.8463 0.1402 165 A 0.0156 0.8772 0.1072 166 F 0.0182 0.8772 0.1045 167 K 0.0271 0.8708 0.1021 168 I 0.0419 0.8578 0.1003 169 T 0.0416 0.8452 0.1131 170 R 0.0326 0.8779 0.0895 171 I 0.0156 0.9010 0.0834 172 G 0.0132 0.9066 0.0801 173 Q 0.0095 0.9377 0.0528 174 L 0.0078 0.9505 0.0417 175 V 0.0060 0.9504 0.0436 176 G 0.0074 0.9502 0.0424 177 Q 0.0058 0.9571 0.0371 178 M 0.0059 0.9545 0.0396 179 A 0.0048 0.9541 0.0411 180 S 0.0050 0.9535 0.0415 181 E 0.0051 0.9441 0.0508 182 R 0.0061 0.9216 0.0723 183 L 0.0497 0.5880 0.3623 184 G 0.0454 0.0303 0.9243 185 V 0.1188 0.0088 0.8724 186 E 0.3460 0.0309 0.6231 187 F 0.7358 0.0172 0.2470 188 G 0.8270 0.0151 0.1579 189 I 0.8922 0.0093 0.0985 190 V 0.8441 0.0149 0.1410 191 D 0.6532 0.0202 0.3265 192 L 0.3272 0.1009 0.5719 193 S 0.2166 0.0830 0.7004 194 L 0.2086 0.0890 0.7025 195 A 0.1986 0.0324 0.7690 196 P 0.1860 0.0409 0.7732 197 T 0.1277 0.0237 0.8486 198 P 0.0500 0.1180 0.8320 199 A 0.0479 0.1275 0.8246 200 V 0.0659 0.1652 0.7690 201 G 0.0426 0.1208 0.8365 202 D 0.0459 0.3266 0.6275 203 S 0.1068 0.5756 0.3176 204 V 0.0089 0.9371 0.0540 205 A 0.0059 0.9571 0.0370 206 R 0.0051 0.9597 0.0351 207 V 0.0050 0.9600 0.0350 208 L 0.0052 0.9572 0.0376 209 E 0.0058 0.9510 0.0432 210 E 0.0082 0.9120 0.0798 211 M 0.0387 0.6891 0.2722 212 G 0.0388 0.3203 0.6409 213 L 0.0731 0.3385 0.5884 214 E 0.1390 0.4328 0.4283 215 T 0.1882 0.4243 0.3875 216 V 0.1656 0.2650 0.5694 217 G 0.0846 0.0945 0.8209 218 T 0.0691 0.1313 0.7995 219 H 0.0572 0.3084 0.6344 220 G 0.0420 0.5359 0.4221 221 T 0.0187 0.8753 0.1060 222 T 0.0052 0.9543 0.0404 223 A 0.0047 0.9596 0.0357 224 A 0.0049 0.9607 0.0344 225 L 0.0047 0.9605 0.0349 226 A 0.0047 0.9594 0.0359 227 L 0.0047 0.9538 0.0415 228 L 0.0049 0.9447 0.0504 229 N 0.0318 0.8730 0.0952 230 D 0.0059 0.9221 0.0719 231 Q 0.0063 0.9213 0.0724 232 V 0.0099 0.9039 0.0862 233 K 0.0121 0.8425 0.1453 234 K 0.0178 0.6576 0.3246 235 G 0.0513 0.3220 0.6267 236 G 0.0902 0.1715 0.7383 237 V 0.3795 0.2042 0.4164 238 M 0.5648 0.1759 0.2593 239 A 0.6358 0.1118 0.2523 240 C 0.5274 0.0998 0.3728 241 N 0.2969 0.1085 0.5946 242 Q 0.2024 0.1319 0.6657 243 V 0.2427 0.1161 0.6412 244 G 0.2018 0.0838 0.7143 245 G 0.1804 0.1007 0.7188 246 L 0.2680 0.1197 0.6123 247 S 0.2553 0.1580 0.5867 248 G 0.2796 0.1851 0.5354 249 A 0.4992 0.1110 0.3899 250 F 0.6610 0.0634 0.2756 251 I 0.5514 0.0351 0.4135 252 P 0.4003 0.0420 0.5577 253 V 0.1605 0.4279 0.4116 254 S 0.0786 0.5801 0.3413 255 E 0.0594 0.5848 0.3559 256 D 0.0492 0.6723 0.2785 257 E 0.0056 0.9245 0.0699 258 G 0.0051 0.9377 0.0571 259 M 0.0048 0.9522 0.0430 260 I 0.0047 0.9563 0.0390 261 A 0.0050 0.9570 0.0380 262 A 0.0048 0.9550 0.0401 263 V 0.0055 0.9444 0.0501 264 Q 0.0079 0.9037 0.0885 265 N 0.0435 0.4343 0.5223 266 G 0.0283 0.0425 0.9291 267 S 0.1062 0.0508 0.8430 268 L 0.3837 0.0148 0.6015 269 N 0.2947 0.0104 0.6948 270 L 0.0123 0.8868 0.1009 271 E 0.0082 0.9136 0.0782 272 K 0.0083 0.9074 0.0843 273 L 0.0112 0.9105 0.0783 274 E 0.0148 0.8916 0.0936 275 A 0.0228 0.8213 0.1559 276 M 0.0607 0.7499 0.1893 277 T 0.0880 0.7202 0.1918 278 A 0.1233 0.6905 0.1862 279 I 0.1298 0.6777 0.1924 280 C 0.1636 0.5304 0.3060 281 S 0.1409 0.3766 0.4825 282 V 0.1527 0.2347 0.6126 283 G 0.2263 0.1709 0.6028 284 L 0.4148 0.0808 0.5045 285 D 0.4244 0.0779 0.4977 286 M 0.7768 0.0480 0.1752 287 I 0.8012 0.0253 0.1736 288 A 0.7134 0.0212 0.2654 289 I 0.4270 0.0148 0.5582 290 P 0.0988 0.0601 0.8411 291 E 0.0312 0.0997 0.8691 292 D 0.0519 0.0658 0.8823 293 T 0.0618 0.0218 0.9165 294 P 0.0649 0.1414 0.7937 295 A 0.0057 0.9226 0.0716 296 E 0.0049 0.9467 0.0484 297 T 0.0048 0.9546 0.0406 298 I 0.0047 0.9569 0.0384 299 A 0.0047 0.9569 0.0384 300 A 0.0047 0.9511 0.0442 301 M 0.0048 0.9481 0.0471 302 I 0.0048 0.9467 0.0485 303 A 0.0053 0.9400 0.0547 304 D 0.0055 0.9341 0.0604 305 E 0.0075 0.9313 0.0612 306 A 0.0095 0.9212 0.0693 307 A 0.0123 0.9222 0.0654 308 I 0.0166 0.9101 0.0733 309 G 0.0359 0.8649 0.0992 310 V 0.0409 0.8474 0.1117 311 I 0.0581 0.7708 0.1711 312 N 0.0729 0.3787 0.5484 313 M 0.0592 0.1072 0.8336 314 K 0.1460 0.0270 0.8270 315 T 0.3392 0.0119 0.6488 316 T 0.7227 0.0123 0.2650 317 A 0.9033 0.0040 0.0927 318 V 0.9203 0.0036 0.0762 319 R 0.9216 0.0037 0.0747 320 I 0.9112 0.0043 0.0846 321 I 0.7411 0.0064 0.2524 322 P 0.4217 0.0106 0.5677 323 K 0.1078 0.0589 0.8333 324 G 0.0577 0.0339 0.9084 325 K 0.0808 0.0346 0.8846 326 E 0.0956 0.0516 0.8528 327 G 0.1288 0.0417 0.8295 328 D 0.3465 0.0348 0.6187 329 M 0.7702 0.0287 0.2011 330 I 0.8296 0.0231 0.1473 331 E 0.7984 0.0248 0.1768 332 F 0.5828 0.0626 0.3546 333 G 0.1788 0.0801 0.7411 334 G 0.1145 0.1327 0.7528 335 L 0.2497 0.1933 0.5569 336 L 0.2207 0.1587 0.6206 337 G 0.1801 0.0628 0.7571 338 T 0.2990 0.0461 0.6549 339 A 0.3146 0.0189 0.6665 340 P 0.3944 0.0183 0.5873 341 V 0.6882 0.0182 0.2935 342 M 0.7646 0.0104 0.2250 343 K 0.7321 0.0096 0.2584 344 V 0.5111 0.0362 0.4527 345 N 0.2374 0.0712 0.6914 346 G 0.1068 0.0610 0.8323 347 A 0.1533 0.0581 0.7886 348 S 0.1780 0.0512 0.7707 349 S 0.0902 0.5113 0.3985 350 V 0.0366 0.7741 0.1893 351 D 0.0634 0.7850 0.1516 352 F 0.0760 0.7956 0.1284 353 I 0.1492 0.6932 0.1576 354 S 0.1316 0.6258 0.2426 355 R 0.0913 0.3746 0.5340 356 G 0.0739 0.0828 0.8433 357 G 0.1084 0.0315 0.8601 358 Q 0.2675 0.0246 0.7079 359 I 0.1713 0.0120 0.8167 360 P 0.0596 0.0153 0.9251