# This file is the result of combining several RDB files, specifically # T0588.t04.dssp-ebghstl.rdb (weight 1.53986) # T0588.t04.stride-ebghtl.rdb (weight 1.24869) # T0588.t04.str2.rdb (weight 1.54758) # T0588.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 T0588.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0588 # 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 T0588.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 455 # # ============================================ # Comments from T0588.t04.stride-ebghtl.rdb # ============================================ # TARGET T0588 # 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 T0588.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 455 # # ============================================ # Comments from T0588.t04.str2.rdb # ============================================ # TARGET T0588 # 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 T0588.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 455 # # ============================================ # Comments from T0588.t04.alpha.rdb # ============================================ # TARGET T0588 # 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 T0588.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 455 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0073 0.9162 0.0765 2 K 0.0063 0.9465 0.0472 3 N 0.0056 0.9542 0.0402 4 L 0.0050 0.9577 0.0373 5 L 0.0047 0.9587 0.0366 6 V 0.0047 0.9594 0.0359 7 C 0.0047 0.9595 0.0358 8 T 0.0047 0.9597 0.0356 9 L 0.0047 0.9584 0.0369 10 L 0.0050 0.9565 0.0385 11 F 0.0048 0.9544 0.0408 12 A 0.0057 0.9500 0.0442 13 Y 0.0058 0.9483 0.0459 14 A 0.0055 0.9508 0.0437 15 F 0.0069 0.9458 0.0472 16 T 0.0098 0.9332 0.0570 17 L 0.0151 0.8886 0.0963 18 N 0.0253 0.7777 0.1970 19 A 0.0278 0.6963 0.2759 20 Q 0.0527 0.6181 0.3292 21 V 0.0715 0.5177 0.4108 22 A 0.0595 0.4667 0.4738 23 N 0.0533 0.4050 0.5417 24 T 0.1244 0.3782 0.4974 25 R 0.2192 0.3279 0.4529 26 I 0.2827 0.2798 0.4376 27 Y 0.2617 0.1921 0.5462 28 A 0.1404 0.1458 0.7138 29 A 0.0158 0.8245 0.1598 30 E 0.0073 0.9151 0.0776 31 K 0.0087 0.9204 0.0709 32 L 0.0122 0.9249 0.0629 33 A 0.0127 0.9222 0.0651 34 K 0.0201 0.9085 0.0714 35 V 0.0257 0.8699 0.1044 36 K 0.0248 0.8555 0.1197 37 E 0.0288 0.8091 0.1620 38 K 0.0283 0.7088 0.2629 39 A 0.0407 0.5150 0.4444 40 D 0.0314 0.2819 0.6867 41 S 0.0607 0.1596 0.7797 42 P 0.0208 0.3194 0.6597 43 L 0.0426 0.3504 0.6070 44 Y 0.0456 0.4070 0.5475 45 A 0.0320 0.7432 0.2247 46 P 0.0055 0.9359 0.0585 47 A 0.0048 0.9468 0.0484 48 V 0.0047 0.9561 0.0392 49 K 0.0047 0.9583 0.0370 50 T 0.0048 0.9514 0.0438 51 L 0.0049 0.9351 0.0600 52 L 0.0053 0.9159 0.0787 53 R 0.0102 0.8754 0.1144 54 D 0.0077 0.8640 0.1283 55 A 0.0052 0.9118 0.0830 56 D 0.0061 0.9005 0.0934 57 K 0.0055 0.9142 0.0804 58 A 0.0073 0.8776 0.1151 59 L 0.0261 0.7184 0.2555 60 K 0.0291 0.3599 0.6110 61 M 0.0621 0.1292 0.8087 62 T 0.0636 0.0345 0.9019 63 P 0.0510 0.2059 0.7431 64 P 0.0268 0.5012 0.4721 65 S 0.0624 0.5437 0.3939 66 V 0.1342 0.5177 0.3482 67 M 0.1999 0.4281 0.3720 68 D 0.2151 0.3164 0.4685 69 K 0.1532 0.3464 0.5004 70 T 0.1830 0.2944 0.5226 71 M 0.1712 0.2350 0.5938 72 T 0.1347 0.1548 0.7106 73 A 0.0680 0.1366 0.7954 74 D 0.0518 0.1875 0.7607 75 S 0.0614 0.1599 0.7788 76 G 0.0475 0.1434 0.8091 77 D 0.0897 0.1559 0.7544 78 K 0.0863 0.3898 0.5239 79 H 0.0897 0.3495 0.5608 80 D 0.1119 0.3569 0.5313 81 Y 0.1146 0.4735 0.4119 82 M 0.1285 0.4679 0.4036 83 S 0.1356 0.3318 0.5326 84 M 0.1235 0.2202 0.6563 85 G 0.0930 0.0647 0.8423 86 P 0.0838 0.2071 0.7091 87 Y 0.1343 0.1841 0.6816 88 W 0.1913 0.1244 0.6844 89 W 0.1487 0.0374 0.8138 90 P 0.1341 0.0452 0.8207 91 D 0.1156 0.0220 0.8624 92 P 0.0354 0.1131 0.8515 93 S 0.0525 0.0843 0.8632 94 K 0.0788 0.0466 0.8746 95 P 0.0810 0.0838 0.8352 96 D 0.1131 0.0711 0.8158 97 G 0.1206 0.0570 0.8223 98 L 0.1826 0.0252 0.7922 99 P 0.3946 0.0268 0.5786 100 Y 0.6831 0.0295 0.2874 101 I 0.8079 0.0176 0.1746 102 R 0.6565 0.0264 0.3172 103 K 0.5629 0.0684 0.3687 104 D 0.1606 0.0385 0.8009 105 G 0.1360 0.0401 0.8238 106 Q 0.3814 0.0335 0.5851 107 R 0.6011 0.0210 0.3779 108 N 0.1948 0.0158 0.7894 109 P 0.0413 0.1879 0.7707 110 E 0.0430 0.1968 0.7602 111 L 0.0812 0.1915 0.7272 112 D 0.0823 0.1157 0.8020 113 K 0.0698 0.4497 0.4805 114 L 0.1032 0.4389 0.4579 115 D 0.0911 0.4475 0.4614 116 R 0.0182 0.8377 0.1440 117 N 0.0213 0.8338 0.1449 118 K 0.0204 0.8156 0.1640 119 L 0.0181 0.8187 0.1632 120 G 0.0132 0.8329 0.1540 121 D 0.0099 0.8830 0.1071 122 M 0.0059 0.9174 0.0767 123 S 0.0049 0.9514 0.0437 124 K 0.0048 0.9560 0.0392 125 A 0.0047 0.9588 0.0365 126 V 0.0047 0.9595 0.0358 127 T 0.0047 0.9603 0.0351 128 T 0.0046 0.9595 0.0359 129 L 0.0047 0.9573 0.0380 130 G 0.0047 0.9568 0.0386 131 L 0.0048 0.9532 0.0421 132 A 0.0050 0.9398 0.0552 133 Y 0.0070 0.8834 0.1096 134 Y 0.0090 0.8135 0.1775 135 F 0.0255 0.6887 0.2858 136 S 0.0646 0.3821 0.5533 137 G 0.0314 0.1076 0.8610 138 D 0.0693 0.2763 0.6544 139 E 0.0060 0.9403 0.0537 140 K 0.0048 0.9561 0.0392 141 Y 0.0048 0.9568 0.0383 142 A 0.0047 0.9587 0.0366 143 Q 0.0047 0.9602 0.0351 144 K 0.0047 0.9585 0.0368 145 A 0.0047 0.9591 0.0362 146 V 0.0047 0.9599 0.0354 147 D 0.0048 0.9590 0.0363 148 F 0.0049 0.9547 0.0404 149 L 0.0048 0.9519 0.0433 150 N 0.0052 0.9401 0.0546 151 V 0.0063 0.9236 0.0700 152 W 0.0085 0.8816 0.1099 153 F 0.0210 0.7959 0.1831 154 L 0.0435 0.6803 0.2762 155 D 0.0756 0.3211 0.6032 156 A 0.0108 0.5649 0.4243 157 K 0.0145 0.4477 0.5378 158 T 0.0669 0.4221 0.5110 159 K 0.1121 0.2805 0.6074 160 M 0.1659 0.1748 0.6593 161 N 0.1154 0.0365 0.8481 162 P 0.0213 0.1446 0.8341 163 H 0.0435 0.1130 0.8435 164 L 0.0798 0.1652 0.7550 165 T 0.0968 0.1948 0.7084 166 Y 0.1400 0.3219 0.5380 167 G 0.1464 0.3424 0.5112 168 Q 0.2010 0.2419 0.5570 169 T 0.3013 0.1497 0.5490 170 I 0.2132 0.0253 0.7616 171 P 0.1224 0.0662 0.8115 172 G 0.0927 0.0566 0.8507 173 K 0.1546 0.0795 0.7659 174 N 0.1104 0.0558 0.8338 175 K 0.0496 0.0912 0.8593 176 G 0.0425 0.0918 0.8657 177 M 0.1127 0.1395 0.7478 178 G 0.1134 0.1452 0.7414 179 R 0.1906 0.2070 0.6024 180 G 0.2472 0.2511 0.5017 181 A 0.2097 0.2930 0.4973 182 G 0.2258 0.2341 0.5401 183 M 0.1738 0.5154 0.3108 184 I 0.1475 0.6136 0.2388 185 D 0.1244 0.6208 0.2548 186 I 0.0467 0.8000 0.1532 187 Y 0.0307 0.8492 0.1201 188 S 0.0255 0.8596 0.1149 189 F 0.0088 0.9241 0.0671 190 T 0.0065 0.9446 0.0488 191 E 0.0057 0.9462 0.0482 192 M 0.0048 0.9521 0.0431 193 I 0.0048 0.9519 0.0434 194 D 0.0047 0.9438 0.0514 195 A 0.0048 0.9479 0.0473 196 M 0.0049 0.9535 0.0416 197 T 0.0048 0.9512 0.0440 198 L 0.0050 0.9446 0.0504 199 M 0.0080 0.8928 0.0992 200 E 0.0113 0.7352 0.2536 201 N 0.0156 0.4517 0.5328 202 S 0.0702 0.2244 0.7054 203 K 0.0157 0.2536 0.7306 204 A 0.0331 0.1877 0.7792 205 F 0.1029 0.0325 0.8646 206 T 0.0557 0.0200 0.9243 207 P 0.0049 0.9426 0.0524 208 K 0.0047 0.9541 0.0412 209 V 0.0049 0.9522 0.0429 210 K 0.0052 0.9542 0.0405 211 K 0.0047 0.9505 0.0447 212 G 0.0048 0.9465 0.0487 213 M 0.0047 0.9554 0.0399 214 K 0.0047 0.9599 0.0354 215 E 0.0047 0.9597 0.0356 216 W 0.0047 0.9574 0.0379 217 F 0.0048 0.9549 0.0404 218 T 0.0047 0.9568 0.0385 219 Q 0.0048 0.9514 0.0438 220 L 0.0050 0.9479 0.0472 221 V 0.0053 0.9479 0.0468 222 E 0.0052 0.9467 0.0481 223 W 0.0060 0.9302 0.0638 224 M 0.0111 0.8854 0.1035 225 Q 0.0258 0.7678 0.2064 226 T 0.0397 0.5612 0.3991 227 S 0.0732 0.0991 0.8277 228 P 0.0136 0.4067 0.5797 229 V 0.0257 0.4655 0.5088 230 A 0.0375 0.5214 0.4411 231 A 0.0235 0.6851 0.2914 232 E 0.0192 0.8179 0.1629 233 E 0.0181 0.8529 0.1289 234 Q 0.0182 0.8472 0.1346 235 R 0.0208 0.8198 0.1594 236 A 0.0147 0.8241 0.1612 237 K 0.0166 0.7066 0.2769 238 N 0.0257 0.5697 0.4046 239 N 0.0367 0.5429 0.4204 240 H 0.0226 0.7028 0.2745 241 G 0.0157 0.8388 0.1455 242 L 0.0100 0.9229 0.0671 243 A 0.0054 0.9516 0.0429 244 Y 0.0048 0.9577 0.0375 245 D 0.0047 0.9606 0.0347 246 V 0.0047 0.9595 0.0358 247 Q 0.0047 0.9605 0.0348 248 L 0.0047 0.9605 0.0348 249 T 0.0047 0.9610 0.0343 250 A 0.0047 0.9595 0.0358 251 Y 0.0051 0.9520 0.0429 252 A 0.0053 0.9408 0.0539 253 L 0.0069 0.9088 0.0843 254 Y 0.0181 0.7793 0.2026 255 T 0.0754 0.4132 0.5114 256 G 0.0366 0.0746 0.8888 257 N 0.0782 0.1618 0.7600 258 Q 0.0068 0.8938 0.0994 259 D 0.0052 0.9453 0.0495 260 L 0.0047 0.9557 0.0396 261 A 0.0047 0.9590 0.0364 262 M 0.0047 0.9589 0.0365 263 K 0.0048 0.9552 0.0400 264 T 0.0048 0.9487 0.0464 265 I 0.0052 0.9397 0.0550 266 Q 0.0060 0.9178 0.0762 267 E 0.0098 0.8353 0.1549 268 F 0.0435 0.3507 0.6057 269 P 0.0212 0.3263 0.6525 270 E 0.0265 0.4701 0.5034 271 K 0.0336 0.5344 0.4321 272 R 0.0668 0.5845 0.3488 273 L 0.1191 0.5720 0.3089 274 F 0.0891 0.6528 0.2581 275 A 0.1081 0.6075 0.2844 276 Q 0.1862 0.4662 0.3477 277 I 0.3041 0.2283 0.4676 278 E 0.0950 0.0620 0.8429 279 P 0.0243 0.1297 0.8460 280 D 0.0526 0.0411 0.9063 281 G 0.0472 0.0474 0.9054 282 K 0.1176 0.0536 0.8288 283 Q 0.2473 0.0486 0.7041 284 P 0.2160 0.1292 0.6547 285 L 0.2796 0.2859 0.4345 286 E 0.3772 0.2609 0.3620 287 L 0.3011 0.2589 0.4400 288 A 0.2258 0.1908 0.5834 289 R 0.1815 0.1548 0.6638 290 T 0.1629 0.1332 0.7039 291 T 0.1231 0.1151 0.7619 292 A 0.1168 0.1127 0.7705 293 L 0.0994 0.2310 0.6697 294 G 0.1538 0.3212 0.5250 295 Y 0.2169 0.4959 0.2872 296 T 0.1981 0.6300 0.1719 297 I 0.1877 0.7161 0.0962 298 F 0.1631 0.7337 0.1032 299 N 0.0924 0.7533 0.1543 300 L 0.0162 0.8949 0.0889 301 G 0.0068 0.9346 0.0586 302 H 0.0050 0.9487 0.0463 303 M 0.0047 0.9577 0.0375 304 L 0.0047 0.9603 0.0350 305 D 0.0046 0.9614 0.0340 306 M 0.0047 0.9610 0.0344 307 C 0.0046 0.9612 0.0341 308 S 0.0046 0.9611 0.0343 309 I 0.0046 0.9603 0.0350 310 A 0.0047 0.9579 0.0374 311 S 0.0048 0.9451 0.0501 312 T 0.0062 0.9014 0.0923 313 L 0.0445 0.4779 0.4776 314 G 0.0428 0.0535 0.9037 315 Q 0.0742 0.0614 0.8645 316 D 0.2244 0.0804 0.6951 317 I 0.1443 0.4055 0.4502 318 Y 0.1164 0.3806 0.5030 319 N 0.1192 0.3761 0.5047 320 A 0.1574 0.2610 0.5816 321 T 0.1621 0.1367 0.7012 322 S 0.0639 0.1512 0.7849 323 Q 0.0264 0.2219 0.7517 324 D 0.0499 0.1355 0.8147 325 G 0.0449 0.2011 0.7540 326 R 0.0190 0.7232 0.2578 327 S 0.0417 0.8374 0.1209 328 I 0.0058 0.9508 0.0434 329 T 0.0049 0.9603 0.0348 330 A 0.0047 0.9601 0.0352 331 A 0.0047 0.9596 0.0357 332 L 0.0048 0.9561 0.0391 333 K 0.0051 0.9542 0.0407 334 F 0.0052 0.9325 0.0622 335 L 0.0064 0.9182 0.0754 336 I 0.0087 0.9147 0.0767 337 P 0.0084 0.8882 0.1034 338 Y 0.0148 0.8123 0.1729 339 I 0.0680 0.5547 0.3773 340 G 0.0547 0.1024 0.8429 341 K 0.0579 0.0434 0.8987 342 P 0.0389 0.1220 0.8390 343 Q 0.0564 0.1489 0.7947 344 S 0.1263 0.0960 0.7776 345 E 0.1653 0.0587 0.7760 346 W 0.1383 0.0305 0.8312 347 P 0.1355 0.0538 0.8107 348 Y 0.0896 0.3057 0.6047 349 Q 0.0868 0.3396 0.5735 350 Q 0.1306 0.3234 0.5460 351 I 0.1574 0.2642 0.5784 352 K 0.1290 0.2431 0.6279 353 E 0.1182 0.2947 0.5871 354 W 0.1210 0.2311 0.6478 355 D 0.1005 0.1416 0.7580 356 K 0.0399 0.4365 0.5235 357 K 0.0491 0.4630 0.4878 358 Q 0.0342 0.6488 0.3170 359 E 0.0223 0.7806 0.1970 360 E 0.0293 0.8387 0.1320 361 A 0.0255 0.8780 0.0965 362 C 0.0164 0.9156 0.0680 363 W 0.0105 0.9388 0.0507 364 I 0.0088 0.9484 0.0429 365 L 0.0072 0.9526 0.0402 366 R 0.0062 0.9505 0.0433 367 R 0.0062 0.9353 0.0585 368 A 0.0095 0.8904 0.1001 369 S 0.0150 0.7604 0.2246 370 F 0.0286 0.4932 0.4782 371 F 0.0562 0.2670 0.6768 372 D 0.0836 0.0663 0.8501 373 P 0.0147 0.2856 0.6998 374 K 0.0305 0.2881 0.6814 375 A 0.0299 0.4447 0.5254 376 G 0.0254 0.4405 0.5341 377 Y 0.0293 0.7315 0.2392 378 E 0.0190 0.8462 0.1348 379 A 0.0247 0.8488 0.1264 380 I 0.0210 0.8717 0.1073 381 G 0.0216 0.8687 0.1097 382 A 0.0201 0.8496 0.1303 383 Q 0.0255 0.7808 0.1937 384 F 0.0642 0.5155 0.4203 385 R 0.0647 0.2212 0.7141 386 E 0.0742 0.1383 0.7875 387 T 0.0892 0.0461 0.8648 388 P 0.0814 0.0541 0.8645 389 A 0.0601 0.1675 0.7724 390 N 0.0590 0.1799 0.7611 391 K 0.0574 0.3154 0.6272 392 R 0.1124 0.3515 0.5360 393 I 0.2619 0.3658 0.3722 394 H 0.3394 0.3368 0.3238 395 L 0.3532 0.3519 0.2949 396 I 0.3262 0.3096 0.3642 397 Y 0.2688 0.1890 0.5422 398 S 0.1635 0.1053 0.7312 399 L 0.0863 0.0691 0.8446 400 E 0.0575 0.0603 0.8822