# This file is the result of combining several RDB files, specifically # T0222.t04.dssp-ebghstl.rdb (weight 1.53986) # T0222.t04.stride-ebghtl.rdb (weight 1.24869) # T0222.t04.str2.rdb (weight 1.54758) # T0222.t04.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 T0222.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0222 # Using neural net t04-2621-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 T0222.t04-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 106.402 # # ============================================ # Comments from T0222.t04.stride-ebghtl.rdb # ============================================ # TARGET T0222 # Using neural net t04-2621-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 T0222.t04-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 106.402 # # ============================================ # Comments from T0222.t04.str2.rdb # ============================================ # TARGET T0222 # Using neural net t04-2621-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 T0222.t04-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 106.402 # # ============================================ # Comments from T0222.t04.alpha.rdb # ============================================ # TARGET T0222 # Using neural net t04-2621-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 T0222.t04-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 106.402 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1378 0.0147 0.8475 2 A 0.3961 0.0150 0.5889 3 A 0.7678 0.0126 0.2196 4 F 0.8605 0.0092 0.1303 5 Q 0.8791 0.0073 0.1136 6 I 0.7514 0.0182 0.2305 7 A 0.2965 0.0354 0.6681 8 N 0.2074 0.0366 0.7560 9 K 0.5856 0.0189 0.3955 10 T 0.7199 0.0153 0.2647 11 V 0.5388 0.0415 0.4198 12 G 0.2072 0.0503 0.7425 13 K 0.0418 0.1120 0.8462 14 D 0.0447 0.0736 0.8817 15 A 0.0893 0.0224 0.8882 16 P 0.1851 0.0099 0.8051 17 V 0.7023 0.0055 0.2922 18 F 0.9148 0.0035 0.0816 19 I 0.9329 0.0032 0.0640 20 I 0.9323 0.0033 0.0645 21 A 0.9158 0.0043 0.0799 22 E 0.7850 0.0067 0.2083 23 A 0.4299 0.0310 0.5391 24 G 0.2151 0.0368 0.7481 25 I 0.1604 0.1066 0.7330 26 N 0.1065 0.1307 0.7627 27 H 0.0574 0.1924 0.7502 28 D 0.0528 0.1443 0.8029 29 G 0.0481 0.0890 0.8630 30 K 0.0778 0.1360 0.7863 31 L 0.0048 0.9515 0.0437 32 D 0.0047 0.9612 0.0342 33 Q 0.0047 0.9608 0.0346 34 A 0.0047 0.9611 0.0342 35 F 0.0046 0.9612 0.0341 36 A 0.0046 0.9612 0.0342 37 L 0.0047 0.9599 0.0354 38 I 0.0047 0.9608 0.0346 39 D 0.0046 0.9614 0.0340 40 A 0.0046 0.9615 0.0339 41 A 0.0047 0.9608 0.0346 42 A 0.0047 0.9559 0.0393 43 E 0.0051 0.9221 0.0728 44 A 0.0378 0.5195 0.4427 45 G 0.0464 0.0556 0.8979 46 A 0.0557 0.0770 0.8673 47 D 0.0535 0.1948 0.7517 48 A 0.3314 0.3492 0.3194 49 V 0.5829 0.2373 0.1798 50 K 0.5865 0.2585 0.1549 51 F 0.4914 0.2752 0.2333 52 Q 0.3725 0.2673 0.3602 53 M 0.2998 0.2595 0.4407 54 F 0.2493 0.2548 0.4959 55 Q 0.2003 0.3238 0.4759 56 A 0.0930 0.6152 0.2917 57 D 0.1003 0.5954 0.3043 58 R 0.1520 0.6201 0.2279 59 M 0.2186 0.5355 0.2459 60 Y 0.2224 0.3991 0.3785 61 Q 0.1671 0.2374 0.5955 62 K 0.0947 0.1289 0.7763 63 D 0.0891 0.0522 0.8588 64 P 0.0506 0.1942 0.7552 65 G 0.1411 0.1865 0.6724 66 L 0.4279 0.1405 0.4316 67 Y 0.5223 0.0818 0.3959 68 K 0.4809 0.1083 0.4108 69 T 0.2680 0.1359 0.5961 70 A 0.1291 0.1510 0.7199 71 A 0.0755 0.1234 0.8012 72 G 0.0579 0.0825 0.8596 73 K 0.0763 0.0469 0.8769 74 D 0.1056 0.0530 0.8415 75 V 0.1521 0.0765 0.7714 76 S 0.2061 0.0994 0.6944 77 I 0.1689 0.4570 0.3741 78 F 0.1316 0.5550 0.3135 79 S 0.1074 0.5782 0.3144 80 L 0.0603 0.7176 0.2221 81 V 0.0647 0.6841 0.2512 82 Q 0.0582 0.6411 0.3006 83 S 0.0597 0.4437 0.4967 84 M 0.0828 0.2431 0.6740 85 E 0.0697 0.1167 0.8136 86 M 0.0738 0.0234 0.9027 87 P 0.0579 0.0572 0.8850 88 A 0.0065 0.8452 0.1483 89 E 0.0052 0.8935 0.1012 90 W 0.0067 0.8864 0.1069 91 I 0.0079 0.9152 0.0769 92 L 0.0067 0.9444 0.0490 93 P 0.0065 0.9453 0.0482 94 L 0.0050 0.9542 0.0408 95 L 0.0047 0.9571 0.0381 96 D 0.0047 0.9567 0.0386 97 Y 0.0048 0.9557 0.0395 98 C 0.0053 0.9521 0.0426 99 R 0.0056 0.9350 0.0594 100 E 0.0097 0.8717 0.1185 101 K 0.0470 0.3623 0.5906 102 Q 0.0478 0.0214 0.9308 103 V 0.1712 0.0073 0.8215 104 I 0.6812 0.0056 0.3132 105 F 0.8845 0.0048 0.1107 106 L 0.8799 0.0059 0.1142 107 S 0.7969 0.0110 0.1921 108 T 0.5876 0.0157 0.3967 109 V 0.2408 0.0297 0.7295 110 C 0.1514 0.0346 0.8140 111 D 0.0850 0.0256 0.8894 112 E 0.0116 0.6451 0.3433 113 G 0.0175 0.6339 0.3486 114 S 0.0276 0.8025 0.1698 115 A 0.0218 0.8891 0.0890 116 D 0.0169 0.9074 0.0756 117 L 0.0127 0.9267 0.0606 118 L 0.0113 0.9223 0.0664 119 Q 0.0150 0.8734 0.1115 120 S 0.0177 0.7116 0.2707 121 T 0.0621 0.3473 0.5905 122 S 0.0932 0.0224 0.8844 123 P 0.0687 0.0616 0.8697 124 S 0.1540 0.1221 0.7239 125 A 0.6263 0.1883 0.1854 126 F 0.7707 0.1170 0.1123 127 K 0.8236 0.0626 0.1138 128 I 0.6930 0.0720 0.2350 129 A 0.2567 0.1128 0.6304 130 S 0.0916 0.3827 0.5257 131 Y 0.0423 0.5407 0.4170 132 E 0.0481 0.5658 0.3861 133 I 0.0472 0.5938 0.3590 134 N 0.0471 0.3920 0.5609 135 H 0.0296 0.3303 0.6401 136 L 0.0399 0.5163 0.4438 137 P 0.0092 0.8686 0.1222 138 L 0.0050 0.9460 0.0490 139 L 0.0047 0.9591 0.0362 140 K 0.0047 0.9594 0.0359 141 Y 0.0047 0.9595 0.0359 142 V 0.0047 0.9589 0.0363 143 A 0.0050 0.9501 0.0449 144 R 0.0064 0.8778 0.1157 145 L 0.0454 0.4621 0.4925 146 N 0.0360 0.0268 0.9372 147 R 0.0660 0.0091 0.9249 148 P 0.2911 0.0067 0.7022 149 M 0.8507 0.0058 0.1435 150 I 0.9041 0.0047 0.0912 151 F 0.8684 0.0085 0.1231 152 S 0.6458 0.0334 0.3209 153 T 0.2564 0.0451 0.6985 154 A 0.0933 0.0614 0.8452 155 G 0.0954 0.0531 0.8515 156 A 0.1594 0.0164 0.8242 157 E 0.0871 0.0146 0.8984 158 I 0.0049 0.9462 0.0489 159 S 0.0047 0.9590 0.0363 160 D 0.0047 0.9588 0.0365 161 V 0.0047 0.9601 0.0352 162 H 0.0047 0.9605 0.0348 163 E 0.0046 0.9613 0.0341 164 A 0.0046 0.9609 0.0345 165 W 0.0047 0.9611 0.0343 166 R 0.0046 0.9617 0.0337 167 T 0.0046 0.9613 0.0340 168 I 0.0047 0.9604 0.0350 169 R 0.0048 0.9529 0.0422 170 A 0.0064 0.9152 0.0783 171 E 0.0408 0.5307 0.4285 172 G 0.0340 0.0772 0.8889 173 N 0.0668 0.0275 0.9056 174 N 0.0592 0.0841 0.8567 175 Q 0.2645 0.0398 0.6956 176 I 0.8834 0.0042 0.1124 177 A 0.9263 0.0034 0.0703 178 I 0.9273 0.0034 0.0693 179 M 0.8884 0.0065 0.1051 180 H 0.6750 0.0234 0.3015 181 C 0.3879 0.0340 0.5781 182 V 0.2932 0.0868 0.6200 183 A 0.2154 0.1124 0.6722 184 K 0.1377 0.1302 0.7320 185 Y 0.1222 0.0305 0.8472 186 P 0.1056 0.0335 0.8610 187 A 0.0783 0.0203 0.9014 188 P 0.0739 0.0223 0.9038 189 P 0.0439 0.3020 0.6541 190 E 0.0458 0.4195 0.5348 191 Y 0.0916 0.4437 0.4647 192 S 0.1415 0.3305 0.5280 193 N 0.1358 0.2776 0.5865 194 L 0.0109 0.8430 0.1461 195 S 0.0162 0.8178 0.1660 196 V 0.0144 0.8619 0.1238 197 I 0.0123 0.9128 0.0749 198 P 0.0068 0.9430 0.0502 199 M 0.0064 0.9525 0.0411 200 L 0.0051 0.9505 0.0444 201 A 0.0053 0.9386 0.0561 202 A 0.0079 0.8657 0.1264 203 A 0.0163 0.6472 0.3364 204 F 0.0674 0.0708 0.8618 205 P 0.0424 0.0542 0.9034 206 E 0.0942 0.0586 0.8472 207 A 0.3939 0.0239 0.5821 208 V 0.7262 0.0104 0.2633 209 I 0.7608 0.0311 0.2081 210 G 0.6047 0.0195 0.3758 211 F 0.2995 0.0550 0.6455 212 S 0.1885 0.0766 0.7349 213 D 0.1326 0.0987 0.7688 214 H 0.0870 0.0990 0.8140 215 S 0.0625 0.1221 0.8154 216 E 0.0663 0.1168 0.8169 217 H 0.0742 0.0710 0.8547 218 P 0.0496 0.1920 0.7583 219 T 0.0842 0.2650 0.6509 220 E 0.1047 0.4274 0.4679 221 A 0.0740 0.4827 0.4433 222 P 0.0560 0.7274 0.2166 223 C 0.0628 0.8216 0.1156 224 A 0.0686 0.8622 0.0692 225 A 0.0690 0.8744 0.0566 226 V 0.0837 0.8429 0.0734 227 R 0.0897 0.7807 0.1296 228 L 0.0918 0.5116 0.3966 229 G 0.0773 0.2070 0.7157 230 A 0.2704 0.1744 0.5553 231 K 0.6190 0.1562 0.2248 232 L 0.8130 0.0913 0.0957 233 I 0.8305 0.0728 0.0967 234 E 0.8016 0.0510 0.1474 235 K 0.6705 0.0746 0.2549 236 H 0.3594 0.0264 0.6141 237 F 0.1528 0.0531 0.7942 238 T 0.1459 0.0354 0.8188 239 I 0.0357 0.4901 0.4742 240 D 0.0391 0.5656 0.3953 241 K 0.0349 0.5177 0.4474 242 N 0.1018 0.1677 0.7306 243 L 0.1109 0.0553 0.8338 244 P 0.0665 0.0917 0.8419 245 G 0.0699 0.0969 0.8332 246 A 0.1014 0.1092 0.7894 247 D 0.0933 0.1233 0.7835 248 H 0.0675 0.2321 0.7004 249 S 0.0388 0.3605 0.6007 250 F 0.0618 0.3117 0.6265 251 A 0.1884 0.1485 0.6632 252 L 0.2658 0.0297 0.7045 253 N 0.1012 0.0096 0.8892 254 P 0.0051 0.8721 0.1228 255 D 0.0047 0.9134 0.0819 256 E 0.0051 0.9366 0.0583 257 L 0.0047 0.9542 0.0411 258 K 0.0047 0.9600 0.0353 259 E 0.0047 0.9583 0.0370 260 M 0.0047 0.9562 0.0390 261 V 0.0047 0.9564 0.0389 262 D 0.0047 0.9549 0.0404 263 G 0.0047 0.9412 0.0540 264 I 0.0048 0.9435 0.0517 265 R 0.0048 0.9441 0.0511 266 K 0.0050 0.9454 0.0496 267 T 0.0048 0.9476 0.0476 268 E 0.0049 0.9549 0.0403 269 A 0.0048 0.9537 0.0415 270 E 0.0052 0.9443 0.0505 271 L 0.0202 0.8664 0.1134 272 K 0.0142 0.7183 0.2675 273 Q 0.0437 0.4484 0.5079 274 G 0.0400 0.2758 0.6842 275 I 0.0755 0.2028 0.7216 276 T 0.0884 0.2345 0.6771 277 K 0.0674 0.3877 0.5449 278 P 0.0643 0.5237 0.4120 279 V 0.0716 0.6516 0.2768 280 S 0.0656 0.6996 0.2349 281 E 0.0619 0.7409 0.1973 282 K 0.0819 0.7122 0.2059 283 L 0.1163 0.6495 0.2343 284 L 0.1105 0.4645 0.4249 285 G 0.0736 0.2223 0.7041 286 S 0.0809 0.1358 0.7833 287 S 0.0475 0.1880 0.7645 288 Y 0.0948 0.1591 0.7461 289 K 0.1670 0.1119 0.7211 290 T 0.2057 0.0545 0.7397 291 T 0.2146 0.0541 0.7313 292 T 0.1348 0.0901 0.7751 293 A 0.0664 0.5699 0.3636 294 I 0.0570 0.6947 0.2484 295 E 0.0615 0.7462 0.1923 296 G 0.0456 0.7791 0.1753 297 E 0.0409 0.7951 0.1640 298 I 0.0365 0.8108 0.1527 299 R 0.0424 0.7966 0.1609 300 N 0.0593 0.7345 0.2062 301 F 0.0937 0.6507 0.2556 302 A 0.1793 0.4880 0.3327 303 Y 0.2653 0.3261 0.4086 304 R 0.3318 0.2725 0.3958 305 G 0.5456 0.1188 0.3356 306 I 0.8082 0.0485 0.1433 307 F 0.8712 0.0271 0.1018 308 T 0.8444 0.0197 0.1359 309 T 0.6939 0.0330 0.2731 310 A 0.4734 0.0212 0.5054 311 P 0.4076 0.0271 0.5653 312 I 0.1861 0.0560 0.7578 313 Q 0.1120 0.0587 0.8293 314 K 0.0456 0.1317 0.8227 315 G 0.0547 0.0839 0.8615 316 E 0.3140 0.0542 0.6318 317 A 0.6672 0.0182 0.3146 318 F 0.5965 0.0130 0.3904 319 S 0.3289 0.0167 0.6544 320 E 0.0526 0.6315 0.3160 321 D 0.0600 0.4946 0.4454 322 N 0.1322 0.4236 0.4443 323 I 0.6112 0.1052 0.2835 324 A 0.7945 0.0617 0.1437 325 V 0.8630 0.0234 0.1135 326 L 0.7931 0.0193 0.1877 327 R 0.4090 0.0137 0.5774 328 P 0.0834 0.0817 0.8350 329 G 0.0575 0.0573 0.8853 330 Q 0.1553 0.0499 0.7948 331 K 0.1344 0.0310 0.8346 332 P 0.1117 0.1189 0.7693 333 Q 0.0674 0.1153 0.8173 334 G 0.0773 0.0714 0.8512 335 L 0.1442 0.0234 0.8324 336 H 0.0917 0.0155 0.8927 337 P 0.0148 0.8210 0.1642 338 R 0.0113 0.8749 0.1137 339 F 0.0098 0.8914 0.0988 340 F 0.0065 0.9374 0.0561 341 E 0.0070 0.9338 0.0592 342 L 0.0129 0.9179 0.0692 343 L 0.0204 0.8912 0.0883 344 T 0.0287 0.8096 0.1617 345 S 0.0496 0.4456 0.5048 346 G 0.0539 0.1763 0.7698 347 V 0.2745 0.1434 0.5821 348 R 0.6492 0.0861 0.2647 349 A 0.6474 0.0814 0.2713 350 V 0.6141 0.0710 0.3149 351 R 0.5333 0.0556 0.4111 352 D 0.4186 0.0329 0.5485 353 I 0.2419 0.0155 0.7426 354 P 0.1076 0.0236 0.8689 355 A 0.0250 0.1197 0.8553 356 D 0.0227 0.0771 0.9002 357 T 0.1003 0.0516 0.8481 358 G 0.2874 0.0284 0.6841 359 I 0.5231 0.0164 0.4604 360 V 0.4682 0.0216 0.5103 361 W 0.1302 0.6293 0.2405 362 D 0.0686 0.6913 0.2401 363 D 0.0589 0.7424 0.1987 364 I 0.1731 0.6184 0.2085 365 L 0.2188 0.4840 0.2972 366 L 0.2268 0.3391 0.4341 367 K 0.1182 0.1809 0.7009 368 D 0.0802 0.0654 0.8545 369 S 0.1016 0.0492 0.8492 370 P 0.1551 0.0661 0.7788 371 F 0.1923 0.0658 0.7419 372 H 0.1568 0.0418 0.8013 373 E 0.1076 0.0510 0.8414