# This file is the result of combining several RDB files, specifically # T0237.t04.dssp-ebghstl.rdb (weight 1.53986) # T0237.t04.stride-ebghtl.rdb (weight 1.24869) # T0237.t04.str2.rdb (weight 1.54758) # T0237.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 T0237.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0237 # 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 T0237.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 15.5514 # # ============================================ # Comments from T0237.t04.stride-ebghtl.rdb # ============================================ # TARGET T0237 # 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 T0237.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 15.5514 # # ============================================ # Comments from T0237.t04.str2.rdb # ============================================ # TARGET T0237 # 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 T0237.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 15.5514 # # ============================================ # Comments from T0237.t04.alpha.rdb # ============================================ # TARGET T0237 # 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 T0237.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 15.5514 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 P 0.0568 0.0557 0.8875 2 T 0.1427 0.0840 0.7732 3 V 0.2188 0.1558 0.6255 4 E 0.2469 0.1869 0.5662 5 R 0.1970 0.2019 0.6011 6 S 0.0856 0.3756 0.5389 7 T 0.0723 0.4558 0.4720 8 R 0.0782 0.4850 0.4368 9 M 0.0864 0.4078 0.5058 10 S 0.0495 0.3513 0.5992 11 N 0.0848 0.2177 0.6975 12 P 0.0268 0.5747 0.3985 13 W 0.0324 0.7255 0.2421 14 K 0.0254 0.8375 0.1371 15 A 0.0341 0.7892 0.1767 16 F 0.0558 0.6547 0.2895 17 M 0.0982 0.5644 0.3374 18 E 0.0889 0.4612 0.4499 19 K 0.1669 0.2832 0.5499 20 Y 0.2002 0.0943 0.7056 21 D 0.1856 0.0328 0.7816 22 I 0.1813 0.1112 0.7075 23 E 0.2034 0.1309 0.6657 24 R 0.2087 0.1719 0.6195 25 T 0.1716 0.1449 0.6835 26 H 0.1563 0.1320 0.7118 27 S 0.1539 0.1085 0.7377 28 S 0.2702 0.0739 0.6559 29 G 0.5055 0.0944 0.4001 30 V 0.7138 0.0836 0.2025 31 R 0.7977 0.0637 0.1386 32 V 0.7040 0.0830 0.2129 33 D 0.5282 0.0608 0.4110 34 L 0.1646 0.1079 0.7276 35 G 0.0767 0.0678 0.8555 36 E 0.0988 0.1156 0.7856 37 D 0.1227 0.1798 0.6975 38 A 0.1210 0.2477 0.6313 39 E 0.1887 0.2461 0.5652 40 V 0.2562 0.2616 0.4822 41 E 0.1829 0.2419 0.5752 42 N 0.1223 0.1951 0.6826 43 A 0.1562 0.1511 0.6927 44 K 0.2596 0.1474 0.5931 45 Y 0.4036 0.0791 0.5174 46 R 0.3555 0.0564 0.5881 47 I 0.2617 0.0357 0.7026 48 P 0.1924 0.0619 0.7457 49 A 0.0959 0.1175 0.7866 50 G 0.1222 0.0855 0.7923 51 R 0.1695 0.0635 0.7669 52 C 0.2109 0.0379 0.7512 53 P 0.2403 0.1050 0.6547 54 V 0.3109 0.1305 0.5586 55 F 0.3272 0.1049 0.5679 56 G 0.2146 0.0695 0.7159 57 K 0.2416 0.0521 0.7063 58 G 0.4363 0.0372 0.5265 59 I 0.7235 0.0150 0.2615 60 V 0.8278 0.0113 0.1609 61 I 0.7439 0.0239 0.2322 62 E 0.5754 0.0622 0.3623 63 N 0.2855 0.0564 0.6581 64 S 0.1795 0.0708 0.7498 65 D 0.2480 0.0485 0.7035 66 V 0.3561 0.0718 0.5721 67 S 0.3636 0.1033 0.5332 68 F 0.5295 0.0705 0.3999 69 L 0.5055 0.0350 0.4596 70 R 0.5217 0.0227 0.4556 71 P 0.5041 0.0509 0.4451 72 V 0.4969 0.0690 0.4341 73 A 0.4706 0.0606 0.4688 74 T 0.2576 0.0721 0.6704 75 G 0.1465 0.0789 0.7745 76 D 0.1664 0.1088 0.7248 77 Q 0.2366 0.1768 0.5867 78 K 0.2916 0.1646 0.5438 79 L 0.3320 0.1717 0.4963 80 K 0.1966 0.1770 0.6264 81 D 0.1353 0.1378 0.7268 82 G 0.1246 0.0884 0.7870 83 G 0.1803 0.0803 0.7394 84 F 0.2346 0.0810 0.6844 85 A 0.2398 0.0765 0.6837 86 F 0.1323 0.0364 0.8313 87 P 0.0918 0.0774 0.8308 88 N 0.0772 0.0916 0.8312 89 A 0.0932 0.1300 0.7769 90 N 0.0823 0.1360 0.7817 91 D 0.0644 0.1513 0.7843 92 H 0.1327 0.0996 0.7676 93 I 0.2167 0.0513 0.7320 94 S 0.1284 0.0265 0.8451 95 P 0.0947 0.2804 0.6248 96 M 0.1580 0.3127 0.5293 97 T 0.1709 0.3260 0.5032 98 L 0.0947 0.5310 0.3743 99 A 0.0560 0.4694 0.4746 100 N 0.0702 0.3816 0.5482 101 L 0.1220 0.4599 0.4180 102 K 0.1118 0.5791 0.3091 103 E 0.0884 0.6590 0.2526 104 R 0.0708 0.6171 0.3121 105 Y 0.0653 0.4789 0.4558 106 K 0.0594 0.3581 0.5825 107 D 0.0674 0.2048 0.7278 108 N 0.0474 0.4717 0.4809 109 V 0.0143 0.8239 0.1618 110 E 0.0271 0.8245 0.1485 111 M 0.0602 0.7810 0.1588 112 M 0.0714 0.7101 0.2185 113 K 0.0822 0.5011 0.4167 114 L 0.0248 0.7251 0.2501 115 N 0.0192 0.7585 0.2224 116 D 0.0296 0.7705 0.1998 117 I 0.0398 0.7996 0.1605 118 A 0.0288 0.8238 0.1474 119 L 0.0361 0.8070 0.1570 120 C 0.0355 0.7912 0.1733 121 R 0.0281 0.8156 0.1563 122 T 0.0266 0.7624 0.2110 123 H 0.0504 0.6557 0.2939 124 A 0.0596 0.6040 0.3365 125 A 0.0530 0.5934 0.3536 126 S 0.0387 0.6245 0.3368 127 F 0.0787 0.5982 0.3232 128 V 0.1574 0.4241 0.4184 129 M 0.1325 0.3374 0.5301 130 A 0.0581 0.2714 0.6705 131 G 0.0439 0.1221 0.8340 132 D 0.0851 0.1155 0.7994 133 Q 0.0660 0.1765 0.7575 134 N 0.0888 0.1552 0.7561 135 S 0.0888 0.2126 0.6986 136 S 0.1524 0.1659 0.6817 137 Y 0.3163 0.0766 0.6071 138 R 0.3482 0.0403 0.6115 139 H 0.2975 0.0184 0.6841 140 P 0.3842 0.0241 0.5917 141 A 0.6898 0.0193 0.2909 142 V 0.8931 0.0071 0.0998 143 Y 0.8837 0.0090 0.1074 144 D 0.6966 0.0107 0.2928 145 E 0.0616 0.1599 0.7786 146 K 0.0289 0.1422 0.8288 147 E 0.0866 0.0753 0.8381 148 K 0.1780 0.0525 0.7695 149 T 0.6160 0.0786 0.3054 150 C 0.8047 0.0791 0.1162 151 H 0.7726 0.1343 0.0931 152 M 0.7413 0.1857 0.0730 153 L 0.6558 0.2613 0.0829 154 Y 0.5858 0.3066 0.1076 155 L 0.4088 0.4579 0.1333 156 S 0.2312 0.5922 0.1766 157 A 0.0943 0.6824 0.2233 158 Q 0.0568 0.7393 0.2039 159 E 0.0636 0.6776 0.2589 160 N 0.0417 0.4404 0.5179 161 M 0.0576 0.2103 0.7320 162 G 0.0542 0.0276 0.9182 163 P 0.0628 0.1169 0.8203 164 R 0.1459 0.1584 0.6957 165 Y 0.2252 0.1132 0.6617 166 C 0.2249 0.0469 0.7281 167 S 0.0891 0.0267 0.8842 168 P 0.0163 0.2622 0.7215 169 D 0.0385 0.1986 0.7628 170 A 0.0595 0.2493 0.6912 171 Q 0.1010 0.1775 0.7215 172 N 0.1064 0.1204 0.7733 173 R 0.0659 0.1699 0.7642 174 D 0.0836 0.1203 0.7961 175 A 0.1574 0.1401 0.7024 176 V 0.2054 0.1323 0.6623 177 F 0.3111 0.1099 0.5790 178 C 0.3099 0.0622 0.6279 179 F 0.2589 0.0350 0.7062 180 K 0.2596 0.0222 0.7183 181 P 0.2119 0.0401 0.7479 182 D 0.2344 0.0532 0.7125 183 K 0.2379 0.0777 0.6845 184 N 0.1693 0.0607 0.7700 185 E 0.0898 0.2133 0.6969 186 S 0.1097 0.1696 0.7208 187 F 0.1175 0.1993 0.6832 188 E 0.0879 0.1829 0.7292 189 N 0.2338 0.1363 0.6298 190 L 0.6192 0.1007 0.2801 191 V 0.7450 0.0919 0.1631 192 Y 0.7942 0.0658 0.1401 193 L 0.6538 0.0934 0.2528 194 S 0.3619 0.1365 0.5016 195 K 0.0976 0.2528 0.6496 196 N 0.0693 0.1930 0.7377 197 V 0.2073 0.1324 0.6603 198 R 0.1893 0.0902 0.7206 199 N 0.1203 0.1569 0.7228 200 D 0.1177 0.1054 0.7770 201 W 0.0295 0.5286 0.4420 202 D 0.0511 0.4968 0.4521 203 K 0.1206 0.4012 0.4782 204 K 0.2147 0.1968 0.5885 205 C 0.1423 0.0607 0.7970 206 P 0.0694 0.1103 0.8203 207 R 0.0719 0.1215 0.8066 208 K 0.1645 0.0962 0.7393 209 N 0.1425 0.0679 0.7896 210 L 0.0956 0.1734 0.7310 211 G 0.0844 0.1311 0.7845 212 N 0.0939 0.1193 0.7868 213 A 0.1603 0.1307 0.7090 214 K 0.3344 0.1304 0.5352 215 F 0.4511 0.0988 0.4502 216 G 0.5203 0.0423 0.4374 217 L 0.7401 0.0233 0.2367 218 W 0.6807 0.0287 0.2906 219 V 0.4794 0.0430 0.4776 220 D 0.1567 0.0542 0.7891 221 G 0.1441 0.0384 0.8174 222 N 0.2827 0.0393 0.6780 223 C 0.3160 0.2411 0.4428 224 E 0.2826 0.2548 0.4627 225 E 0.3123 0.2292 0.4585 226 I 0.2248 0.0824 0.6928 227 P 0.2013 0.0980 0.7007 228 Y 0.2795 0.1119 0.6086 229 V 0.2961 0.1247 0.5792 230 K 0.3337 0.1270 0.5393 231 E 0.5096 0.1158 0.3746 232 V 0.4972 0.0862 0.4166 233 E 0.3578 0.0723 0.5699 234 A 0.1134 0.4460 0.4406 235 E 0.0670 0.4797 0.4532 236 D 0.0808 0.4805 0.4387 237 L 0.0218 0.8102 0.1681 238 R 0.0107 0.8845 0.1048 239 E 0.0152 0.8891 0.0957 240 C 0.0249 0.8664 0.1086 241 N 0.0357 0.8487 0.1156 242 R 0.0425 0.8776 0.0799 243 I 0.0515 0.8698 0.0787 244 V 0.0749 0.8052 0.1199 245 F 0.1467 0.5116 0.3416 246 G 0.1002 0.2040 0.6959 247 A 0.1134 0.0603 0.8263 248 S 0.0862 0.0317 0.8821 249 A 0.0095 0.7127 0.2779 250 S 0.0108 0.6694 0.3197 251 D 0.0227 0.5744 0.4029 252 Q 0.0514 0.1869 0.7618 253 P 0.0403 0.2612 0.6985 254 T 0.0803 0.2903 0.6293 255 Q 0.1249 0.3192 0.5559 256 Y 0.1026 0.3979 0.4995 257 E 0.0541 0.5876 0.3584 258 E 0.0260 0.6826 0.2915 259 E 0.0390 0.6884 0.2726 260 M 0.0739 0.6517 0.2744 261 T 0.0355 0.6460 0.3185 262 D 0.0457 0.6239 0.3304 263 Y 0.0364 0.8436 0.1201 264 Q 0.0211 0.9052 0.0737 265 K 0.0364 0.9009 0.0627 266 I 0.0285 0.9063 0.0652 267 Q 0.0210 0.9076 0.0714 268 Q 0.0169 0.8523 0.1308 269 G 0.0229 0.6959 0.2812 270 F 0.0361 0.6967 0.2673 271 R 0.0686 0.7015 0.2300 272 Q 0.0421 0.7206 0.2373 273 N 0.0333 0.6470 0.3197 274 N 0.0485 0.5309 0.4207 275 R 0.0083 0.8885 0.1032 276 E 0.0108 0.9052 0.0839 277 M 0.0149 0.9091 0.0760 278 I 0.0196 0.8850 0.0953 279 K 0.0168 0.8514 0.1318 280 S 0.0169 0.7392 0.2440 281 A 0.0310 0.6201 0.3489 282 F 0.0921 0.3932 0.5147 283 L 0.1020 0.1393 0.7587 284 P 0.1049 0.1857 0.7094 285 V 0.1106 0.2368 0.6526 286 G 0.1693 0.1901 0.6405 287 A 0.2772 0.2165 0.5063 288 F 0.3813 0.1990 0.4197 289 N 0.3418 0.1379 0.5203 290 S 0.2181 0.1730 0.6089 291 D 0.1355 0.1674 0.6971 292 N 0.1659 0.1778 0.6563 293 F 0.2263 0.1960 0.5777 294 K 0.2406 0.1635 0.5959 295 S 0.2260 0.1162 0.6578 296 K 0.0988 0.0903 0.8109 297 G 0.0798 0.0446 0.8757 298 R 0.1816 0.0729 0.7455 299 G 0.3055 0.0637 0.6308 300 F 0.3497 0.0762 0.5741 301 N 0.2974 0.0885 0.6141 302 W 0.1244 0.3361 0.5395 303 A 0.0864 0.3507 0.5630 304 N 0.1310 0.3071 0.5618 305 F 0.1874 0.2769 0.5356 306 D 0.2035 0.2807 0.5158 307 S 0.0772 0.4420 0.4808 308 V 0.0918 0.3882 0.5200 309 K 0.0882 0.1560 0.7558 310 K 0.1238 0.0847 0.7916 311 K 0.4359 0.1130 0.4512 312 C 0.7477 0.0512 0.2011 313 Y 0.7596 0.0627 0.1777 314 I 0.7807 0.0863 0.1330 315 F 0.7118 0.0854 0.2028 316 N 0.5868 0.0610 0.3522 317 T 0.4978 0.0365 0.4658 318 K 0.3386 0.0288 0.6326 319 P 0.2871 0.0506 0.6623 320 T 0.3995 0.0930 0.5075 321 C 0.6061 0.1069 0.2870 322 L 0.6612 0.1041 0.2348 323 I 0.6185 0.0856 0.2958 324 N 0.3528 0.0728 0.5745 325 D 0.1259 0.0964 0.7778 326 K 0.0989 0.2150 0.6861 327 N 0.2097 0.1331 0.6572 328 F 0.6264 0.1163 0.2572 329 I 0.7614 0.1038 0.1348 330 A 0.7586 0.1431 0.0983 331 T 0.7042 0.1926 0.1031 332 T 0.5717 0.2715 0.1567 333 A 0.4249 0.3178 0.2573 334 L 0.2486 0.2765 0.4749 335 S 0.1780 0.1652 0.6568 336 H 0.0802 0.0421 0.8777 337 P 0.0506 0.2163 0.7330 338 Q 0.0719 0.3201 0.6080 339 E 0.1786 0.3676 0.4539 340 V 0.2431 0.2528 0.5042 341 D 0.2411 0.1459 0.6130 342 L 0.1304 0.1414 0.7282 343 E 0.1117 0.0890 0.7992 344 F 0.1549 0.0320 0.8131 345 P 0.1895 0.0360 0.7745 346 C 0.3461 0.0641 0.5898 347 S 0.3476 0.0944 0.5580 348 I 0.2722 0.1656 0.5623 349 Y 0.2094 0.1557 0.6349 350 K 0.0638 0.6634 0.2728 351 D 0.0184 0.8624 0.1192 352 E 0.0103 0.9169 0.0729 353 I 0.0133 0.9167 0.0700 354 E 0.0128 0.9230 0.0642 355 R 0.0120 0.9186 0.0694 356 E 0.0171 0.9025 0.0804 357 I 0.0302 0.8647 0.1051 358 K 0.0421 0.7873 0.1706 359 K 0.0419 0.7587 0.1994 360 Q 0.0392 0.5986 0.3621 361 S 0.0740 0.3314 0.5945 362 R 0.0865 0.2271 0.6865 363 N 0.1976 0.1379 0.6645 364 M 0.3240 0.0850 0.5910 365 N 0.4159 0.0722 0.5119 366 L 0.4556 0.1427 0.4016 367 Y 0.4044 0.1278 0.4678 368 S 0.2920 0.1189 0.5891 369 V 0.2134 0.1593 0.6273 370 D 0.0777 0.0778 0.8445 371 G 0.0526 0.0656 0.8818 372 E 0.1940 0.0618 0.7442 373 R 0.4968 0.0485 0.4546 374 I 0.5651 0.0283 0.4066 375 V 0.5564 0.0228 0.4208 376 L 0.4068 0.0151 0.5781 377 P 0.3936 0.0487 0.5577 378 R 0.6657 0.0592 0.2750 379 I 0.7542 0.0531 0.1927 380 F 0.7564 0.0544 0.1892 381 I 0.6686 0.0645 0.2668 382 S 0.4356 0.0690 0.4954 383 N 0.1799 0.0822 0.7379 384 D 0.1418 0.0693 0.7889 385 K 0.0686 0.3564 0.5749 386 E 0.0727 0.3234 0.6039 387 S 0.1309 0.3286 0.5405 388 I 0.2164 0.1109 0.6728 389 K 0.1918 0.0634 0.7448 390 C 0.1187 0.0273 0.8540 391 P 0.1025 0.0383 0.8592 392 C 0.1198 0.0341 0.8460 393 E 0.1112 0.0242 0.8645 394 P 0.0959 0.2129 0.6912 395 E 0.2351 0.2493 0.5156 396 R 0.3934 0.1743 0.4323 397 I 0.4698 0.1136 0.4166 398 S 0.3310 0.1168 0.5522 399 N 0.1551 0.0656 0.7793 400 S 0.2467 0.0589 0.6945 401 T 0.3552 0.0691 0.5756 402 C 0.3100 0.0886 0.6014 403 N 0.3369 0.1059 0.5572 404 F 0.5972 0.0883 0.3146 405 Y 0.7085 0.0797 0.2118 406 V 0.6456 0.1298 0.2246 407 C 0.3053 0.3673 0.3274 408 N 0.1286 0.4020 0.4693 409 C 0.1883 0.4857 0.3260 410 V 0.1976 0.5914 0.2111 411 E 0.1815 0.5687 0.2498 412 K 0.1408 0.6236 0.2356 413 R 0.0611 0.7480 0.1908 414 A 0.0793 0.7056 0.2150 415 E 0.1279 0.7225 0.1496 416 I 0.1806 0.6578 0.1616 417 K 0.1394 0.6172 0.2434 418 E 0.0968 0.4795 0.4237 419 N 0.0774 0.2493 0.6732 420 N 0.0990 0.1106 0.7903 421 Q 0.3408 0.1235 0.5357 422 V 0.6772 0.0860 0.2367 423 V 0.7301 0.0810 0.1888 424 I 0.7055 0.0829 0.2116 425 K 0.3770 0.2912 0.3318 426 E 0.1579 0.6241 0.2180 427 E 0.0948 0.6970 0.2082 428 F 0.0697 0.7427 0.1875 429 R 0.0549 0.7914 0.1538 430 D 0.0456 0.8188 0.1357 431 Y 0.0454 0.8141 0.1404 432 Y 0.0706 0.7299 0.1994 433 E 0.0571 0.6235 0.3194 434 N 0.0494 0.3561 0.5945 435 G 0.0353 0.2016 0.7632 436 E 0.0656 0.2480 0.6864 437 E 0.1223 0.2894 0.5883 438 K 0.1410 0.3183 0.5407 439 S 0.1527 0.3273 0.5200 440 N 0.2119 0.3537 0.4345 441 K 0.3373 0.3468 0.3159 442 Q 0.4618 0.2864 0.2518 443 M 0.4376 0.2602 0.3022 444 L 0.3011 0.1860 0.5129 445 L 0.1232 0.0737 0.8031