# This file is the result of combining several RDB files, specifically # T0203.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0203.t2k.stride-ebghtl.rdb (weight 1.24869) # T0203.t2k.str2.rdb (weight 1.54758) # T0203.t2k.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 T0203.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0203 # Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0203.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 62 # # ============================================ # Comments from T0203.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0203 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0203.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 62 # # ============================================ # Comments from T0203.t2k.str2.rdb # ============================================ # TARGET T0203 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str2-from-empty.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0203.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 62 # # ============================================ # Comments from T0203.t2k.alpha.rdb # ============================================ # TARGET T0203 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0203.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 62 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0813 0.0830 0.8357 2 E 0.1418 0.2241 0.6340 3 E 0.1744 0.2090 0.6166 4 S 0.1400 0.1844 0.6756 5 R 0.1120 0.1213 0.7667 6 E 0.1153 0.0719 0.8128 7 S 0.1025 0.0438 0.8536 8 P 0.0919 0.1798 0.7283 9 A 0.0639 0.3069 0.6292 10 E 0.0697 0.3465 0.5838 11 H 0.0717 0.1829 0.7454 12 G 0.1055 0.0921 0.8024 13 Y 0.2778 0.0489 0.6733 14 Y 0.3434 0.0491 0.6076 15 M 0.3137 0.0463 0.6399 16 P 0.1828 0.1003 0.7169 17 A 0.0831 0.3777 0.5392 18 E 0.0914 0.3589 0.5498 19 W 0.0940 0.3380 0.5680 20 D 0.1132 0.1990 0.6878 21 S 0.1099 0.2956 0.5946 22 H 0.1974 0.2677 0.5349 23 A 0.3343 0.2585 0.4072 24 Q 0.5243 0.2104 0.2653 25 T 0.6951 0.1511 0.1538 26 W 0.7691 0.1108 0.1201 27 I 0.7109 0.1064 0.1827 28 G 0.5685 0.0962 0.3353 29 W 0.3054 0.0347 0.6599 30 P 0.2118 0.0440 0.7442 31 E 0.1198 0.0670 0.8131 32 R 0.0795 0.0930 0.8274 33 Q 0.0398 0.2853 0.6749 34 D 0.0258 0.3933 0.5809 35 N 0.0331 0.4230 0.5440 36 W 0.0341 0.5115 0.4544 37 R 0.0200 0.6290 0.3510 38 H 0.0155 0.6322 0.3523 39 N 0.0221 0.5619 0.4159 40 A 0.0190 0.6745 0.3064 41 L 0.0101 0.8630 0.1269 42 P 0.0071 0.9088 0.0841 43 A 0.0058 0.9330 0.0612 44 Q 0.0050 0.9489 0.0461 45 R 0.0049 0.9553 0.0399 46 V 0.0047 0.9567 0.0386 47 F 0.0047 0.9584 0.0369 48 A 0.0047 0.9601 0.0353 49 D 0.0047 0.9596 0.0357 50 V 0.0047 0.9592 0.0361 51 A 0.0047 0.9572 0.0381 52 K 0.0047 0.9563 0.0390 53 A 0.0051 0.9479 0.0470 54 I 0.0074 0.8990 0.0936 55 S 0.0201 0.7173 0.2627 56 K 0.0199 0.4045 0.5756 57 F 0.0521 0.0599 0.8880 58 E 0.0989 0.0144 0.8866 59 P 0.2879 0.0089 0.7032 60 V 0.8018 0.0055 0.1927 61 T 0.8937 0.0045 0.1018 62 V 0.9173 0.0036 0.0791 63 C 0.9017 0.0038 0.0946 64 A 0.7083 0.0062 0.2855 65 S 0.2030 0.0100 0.7870 66 P 0.0129 0.6546 0.3326 67 A 0.0063 0.8490 0.1447 68 Q 0.0057 0.8912 0.1031 69 W 0.0062 0.9072 0.0865 70 E 0.0101 0.9032 0.0867 71 N 0.0112 0.8914 0.0975 72 A 0.0141 0.8574 0.1285 73 R 0.0222 0.7903 0.1874 74 K 0.0210 0.6564 0.3226 75 Q 0.0448 0.4714 0.4838 76 L 0.0765 0.1881 0.7354 77 P 0.0519 0.1625 0.7856 78 E 0.0262 0.1985 0.7753 79 D 0.0725 0.1118 0.8157 80 I 0.5814 0.0077 0.4109 81 R 0.8712 0.0040 0.1248 82 V 0.9209 0.0031 0.0761 83 V 0.9012 0.0052 0.0936 84 E 0.8815 0.0043 0.1142 85 M 0.6365 0.0085 0.3550 86 S 0.2668 0.0227 0.7105 87 M 0.1069 0.0666 0.8265 88 N 0.0805 0.0920 0.8275 89 D 0.1602 0.2073 0.6325 90 S 0.2464 0.3151 0.4385 91 W 0.3785 0.3074 0.3141 92 F 0.4668 0.2322 0.3010 93 R 0.4850 0.1660 0.3490 94 D 0.3424 0.1664 0.4912 95 S 0.2464 0.1359 0.6177 96 G 0.1832 0.0704 0.7464 97 P 0.1905 0.0916 0.7179 98 T 0.4397 0.1002 0.4600 99 F 0.7462 0.0561 0.1977 100 I 0.7776 0.0473 0.1751 101 V 0.6914 0.0562 0.2523 102 R 0.4538 0.0462 0.4999 103 K 0.1493 0.0957 0.7550 104 R 0.1424 0.1022 0.7554 105 P 0.1525 0.1452 0.7022 106 V 0.1208 0.1697 0.7095 107 K 0.0869 0.2478 0.6652 108 L 0.0871 0.2085 0.7044 109 S 0.1208 0.1831 0.6960 110 S 0.1204 0.1827 0.6970 111 L 0.0934 0.2343 0.6723 112 N 0.0955 0.1760 0.7285 113 R 0.1173 0.0950 0.7877 114 N 0.2731 0.0466 0.6803 115 I 0.5969 0.0178 0.3853 116 A 0.8033 0.0163 0.1805 117 G 0.8787 0.0096 0.1117 118 I 0.8674 0.0093 0.1234 119 D 0.7728 0.0153 0.2119 120 W 0.6641 0.0580 0.2779 121 N 0.6341 0.0677 0.2982 122 F 0.5075 0.0854 0.4071 123 N 0.3240 0.1033 0.5727 124 A 0.2129 0.1680 0.6191 125 W 0.1598 0.2149 0.6253 126 G 0.1040 0.2243 0.6717 127 G 0.1015 0.2393 0.6592 128 A 0.1106 0.2428 0.6466 129 N 0.1150 0.2380 0.6471 130 D 0.0806 0.2666 0.6529 131 G 0.1000 0.2726 0.6274 132 C 0.1031 0.2815 0.6154 133 Y 0.1118 0.2186 0.6696 134 N 0.0824 0.1448 0.7727 135 D 0.0515 0.2761 0.6724 136 W 0.0421 0.4671 0.4908 137 S 0.0328 0.5017 0.4655 138 H 0.0290 0.5369 0.4341 139 D 0.0267 0.6354 0.3379 140 L 0.0071 0.8622 0.1307 141 L 0.0069 0.9035 0.0896 142 V 0.0055 0.9249 0.0696 143 S 0.0048 0.9440 0.0512 144 R 0.0053 0.9440 0.0507 145 K 0.0049 0.9478 0.0473 146 I 0.0049 0.9502 0.0449 147 L 0.0049 0.9397 0.0554 148 A 0.0053 0.9143 0.0803 149 L 0.0079 0.8543 0.1378 150 E 0.0479 0.4285 0.5237 151 R 0.0392 0.0579 0.9028 152 I 0.0777 0.0280 0.8943 153 P 0.1865 0.0651 0.7485 154 R 0.3720 0.0879 0.5401 155 F 0.4709 0.0650 0.4641 156 Q 0.4014 0.0430 0.5556 157 H 0.2913 0.0319 0.6768 158 S 0.2908 0.0564 0.6529 159 M 0.7187 0.0279 0.2534 160 I 0.8473 0.0170 0.1357 161 L 0.7553 0.0289 0.2158 162 E 0.5953 0.0540 0.3508 163 G 0.3631 0.0476 0.5893 164 G 0.3428 0.0433 0.6140 165 S 0.5747 0.0374 0.3879 166 I 0.7046 0.0383 0.2571 167 H 0.6568 0.0271 0.3161 168 V 0.4982 0.0252 0.4766 169 D 0.1570 0.0237 0.8193 170 G 0.0698 0.0833 0.8469 171 E 0.2184 0.0985 0.6831 172 G 0.5436 0.0683 0.3881 173 T 0.7639 0.0493 0.1868 174 C 0.8391 0.0478 0.1130 175 L 0.8320 0.0393 0.1287 176 V 0.7604 0.0521 0.1875 177 T 0.4976 0.0528 0.4496 178 E 0.2127 0.3425 0.4448 179 E 0.1368 0.4545 0.4087 180 C 0.1907 0.4753 0.3340 181 L 0.2014 0.3315 0.4671 182 L 0.1666 0.2084 0.6251 183 N 0.0890 0.0650 0.8460 184 K 0.0276 0.1685 0.8039 185 N 0.0382 0.1454 0.8164 186 R 0.0881 0.1228 0.7891 187 N 0.1189 0.0501 0.8310 188 P 0.0294 0.1728 0.7978 189 H 0.0375 0.1233 0.8392 190 M 0.1237 0.0541 0.8222 191 S 0.0904 0.0495 0.8600 192 K 0.0049 0.9390 0.0561 193 E 0.0047 0.9516 0.0437 194 Q 0.0047 0.9575 0.0378 195 I 0.0047 0.9606 0.0348 196 E 0.0047 0.9604 0.0349 197 E 0.0047 0.9598 0.0355 198 E 0.0047 0.9590 0.0363 199 L 0.0047 0.9570 0.0383 200 K 0.0048 0.9529 0.0423 201 K 0.0071 0.9222 0.0707 202 Y 0.0095 0.8273 0.1632 203 L 0.0486 0.3159 0.6355 204 G 0.0526 0.0163 0.9311 205 V 0.1313 0.0078 0.8609 206 Q 0.3550 0.0318 0.6132 207 S 0.7479 0.0094 0.2426 208 F 0.9098 0.0045 0.0856 209 I 0.9129 0.0037 0.0834 210 W 0.8896 0.0041 0.1063 211 L 0.5757 0.0167 0.4076 212 P 0.1919 0.0632 0.7449 213 R 0.0762 0.0419 0.8819 214 G 0.1281 0.0529 0.8190 215 L 0.2286 0.0655 0.7059 216 Y 0.2757 0.0753 0.6490 217 G 0.1181 0.0892 0.7927 218 D 0.0864 0.0925 0.8212 219 E 0.1176 0.1069 0.7755 220 D 0.1067 0.1418 0.7515 221 T 0.1059 0.1421 0.7520 222 N 0.0823 0.2314 0.6863 223 G 0.1211 0.2540 0.6249 224 H 0.2121 0.2626 0.5252 225 I 0.1899 0.4995 0.3106 226 D 0.1479 0.5259 0.3261 227 N 0.1673 0.5626 0.2701 228 M 0.2377 0.5359 0.2264 229 C 0.3090 0.4811 0.2099 230 C 0.4174 0.3840 0.1985 231 F 0.4977 0.1899 0.3124 232 A 0.4495 0.0597 0.4908 233 R 0.1122 0.0259 0.8619 234 P 0.0216 0.0630 0.9154 235 G 0.0309 0.0380 0.9311 236 V 0.6522 0.0087 0.3391 237 V 0.9156 0.0032 0.0812 238 L 0.9220 0.0044 0.0736 239 L 0.9020 0.0059 0.0921 240 S 0.8010 0.0083 0.1907 241 W 0.5229 0.0174 0.4597 242 T 0.2421 0.0239 0.7341 243 D 0.1056 0.0450 0.8494 244 D 0.0803 0.0322 0.8874 245 E 0.0140 0.1757 0.8104 246 T 0.0216 0.1238 0.8546 247 D 0.0873 0.0946 0.8181 248 P 0.0106 0.3520 0.6375 249 Q 0.0137 0.3650 0.6213 250 Y 0.0135 0.6678 0.3187 251 E 0.0099 0.8900 0.1001 252 R 0.0061 0.9096 0.0843 253 S 0.0056 0.9374 0.0571 254 V 0.0051 0.9490 0.0459 255 E 0.0059 0.9508 0.0433 256 A 0.0049 0.9517 0.0434 257 L 0.0047 0.9552 0.0400 258 S 0.0047 0.9550 0.0403 259 V 0.0048 0.9533 0.0419 260 L 0.0050 0.9399 0.0551 261 S 0.0053 0.9112 0.0835 262 N 0.0075 0.8333 0.1591 263 S 0.0209 0.6425 0.3366 264 I 0.1139 0.3739 0.5121 265 D 0.0915 0.1113 0.7972 266 A 0.0487 0.1641 0.7872 267 R 0.0502 0.0575 0.8923 268 G 0.0375 0.0424 0.9201 269 R 0.1898 0.0143 0.7959 270 K 0.4953 0.0071 0.4976 271 I 0.7057 0.0071 0.2872 272 Q 0.8571 0.0043 0.1386 273 V 0.9006 0.0036 0.0958 274 I 0.8643 0.0058 0.1298 275 K 0.7694 0.0052 0.2254 276 L 0.4149 0.0085 0.5766 277 Y 0.2150 0.0132 0.7718 278 I 0.1200 0.0237 0.8562 279 P 0.1195 0.0374 0.8431 280 E 0.1130 0.0516 0.8354 281 P 0.1956 0.0700 0.7344 282 L 0.3181 0.0563 0.6256 283 Y 0.4602 0.0507 0.4890 284 M 0.4638 0.0537 0.4825 285 T 0.2583 0.0570 0.6847 286 E 0.0811 0.5254 0.3935 287 E 0.0589 0.6025 0.3386 288 E 0.0619 0.5955 0.3425 289 S 0.0802 0.4930 0.4269 290 S 0.0590 0.2861 0.6549 291 G 0.0672 0.0881 0.8447 292 I 0.2690 0.0439 0.6871 293 T 0.3886 0.0346 0.5767 294 Q 0.3053 0.1019 0.5928 295 D 0.1804 0.1424 0.6772 296 G 0.0953 0.1407 0.7640 297 E 0.0927 0.1032 0.8041 298 A 0.2148 0.0769 0.7082 299 I 0.2605 0.0586 0.6809 300 P 0.2477 0.0748 0.6774 301 R 0.1520 0.1079 0.7401 302 L 0.0844 0.1883 0.7273 303 A 0.0592 0.2159 0.7249 304 G 0.0669 0.1655 0.7675 305 T 0.1843 0.1118 0.7040 306 R 0.3431 0.1414 0.5156 307 L 0.2906 0.1163 0.5931 308 A 0.2363 0.2579 0.5058 309 A 0.2945 0.3012 0.4043 310 S 0.4469 0.2818 0.2713 311 Y 0.6893 0.1481 0.1627 312 V 0.7525 0.0901 0.1573 313 N 0.7488 0.0938 0.1574 314 F 0.7872 0.1007 0.1122 315 Y 0.8147 0.0798 0.1054 316 I 0.7666 0.0992 0.1342 317 A 0.6328 0.0713 0.2959 318 N 0.1568 0.0423 0.8009 319 G 0.1082 0.0522 0.8396 320 G 0.7390 0.0073 0.2537 321 I 0.8949 0.0038 0.1013 322 I 0.9000 0.0053 0.0947 323 A 0.8185 0.0080 0.1734 324 P 0.5479 0.0220 0.4300 325 Q 0.2505 0.0601 0.6893 326 F 0.0813 0.0715 0.8473 327 G 0.0511 0.0441 0.9048 328 D 0.0830 0.0390 0.8780 329 P 0.0267 0.5252 0.4481 330 I 0.0170 0.6673 0.3157 331 R 0.0163 0.7169 0.2668 332 D 0.0121 0.8188 0.1690 333 K 0.0051 0.9408 0.0541 334 E 0.0048 0.9435 0.0517 335 A 0.0053 0.9444 0.0502 336 I 0.0047 0.9546 0.0407 337 R 0.0048 0.9504 0.0448 338 V 0.0047 0.9500 0.0453 339 L 0.0051 0.9357 0.0592 340 S 0.0052 0.9097 0.0850 341 D 0.0073 0.8426 0.1502 342 T 0.0171 0.6626 0.3202 343 F 0.0742 0.0790 0.8468 344 P 0.0189 0.1096 0.8715 345 H 0.0379 0.0719 0.8902 346 H 0.2868 0.0454 0.6679 347 S 0.7539 0.0148 0.2313 348 V 0.8854 0.0070 0.1075 349 V 0.8277 0.0186 0.1537 350 G 0.7414 0.0089 0.2497 351 I 0.4627 0.0329 0.5044 352 E 0.2577 0.0452 0.6972 353 N 0.1911 0.0330 0.7760 354 A 0.0924 0.5270 0.3806 355 R 0.0389 0.6958 0.2653 356 E 0.0583 0.7530 0.1888 357 I 0.1105 0.7184 0.1711 358 V 0.1897 0.5923 0.2181 359 L 0.1380 0.4891 0.3728 360 A 0.0915 0.2645 0.6440 361 G 0.0793 0.1320 0.7887 362 G 0.1261 0.0962 0.7777 363 N 0.2807 0.1698 0.5495 364 I 0.5029 0.1501 0.3471 365 H 0.5625 0.1412 0.2963 366 C 0.5756 0.1571 0.2673 367 I 0.5038 0.2125 0.2837 368 T 0.4970 0.1733 0.3297 369 Q 0.4532 0.1386 0.4081 370 Q 0.4469 0.0846 0.4685 371 Q 0.3799 0.0400 0.5801 372 P 0.2233 0.0315 0.7452 373 A 0.1707 0.0749 0.7545 374 E 0.1243 0.0725 0.8032 375 P 0.1072 0.1730 0.7199 376 T 0.1171 0.2311 0.6518 377 S 0.1678 0.2259 0.6063 378 V 0.1044 0.5131 0.3825 379 A 0.1022 0.4893 0.4086 380 E 0.1050 0.4014 0.4936 381 N 0.0895 0.2293 0.6812 382 H 0.0426 0.0531 0.9043