# This file is the result of combining several RDB files, specifically # T0168.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0168.t2k.stride-ebghtl.rdb (weight 1.24869) # T0168.t2k.str.rdb (weight 1.53983) # T0168.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 T0168.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0168 # 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 T0168.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 36 # # ============================================ # Comments from T0168.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0168 # 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 T0168.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 36 # # ============================================ # Comments from T0168.t2k.str.rdb # ============================================ # TARGET T0168 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str ) # The input amino acid frequencies were determined from # alignment T0168.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 36 # # ============================================ # Comments from T0168.t2k.alpha.rdb # ============================================ # TARGET T0168 # 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 T0168.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 36 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0209 0.3422 0.6369 2 K 0.0330 0.6830 0.2840 3 E 0.0365 0.6858 0.2777 4 L 0.0445 0.6876 0.2679 5 I 0.0602 0.6518 0.2880 6 K 0.0780 0.5827 0.3392 7 E 0.1218 0.4857 0.3925 8 H 0.1658 0.3345 0.4997 9 Q 0.1704 0.2135 0.6161 10 K 0.0910 0.2158 0.6931 11 D 0.0901 0.1797 0.7302 12 I 0.0417 0.4009 0.5575 13 N 0.0576 0.4393 0.5031 14 P 0.0519 0.4950 0.4531 15 A 0.0434 0.6657 0.2909 16 L 0.0279 0.7488 0.2232 17 Q 0.0375 0.7764 0.1861 18 L 0.0129 0.9032 0.0839 19 H 0.0088 0.9380 0.0532 20 D 0.0081 0.9432 0.0487 21 W 0.0083 0.9410 0.0507 22 V 0.0105 0.9254 0.0640 23 E 0.0122 0.9030 0.0848 24 Y 0.0158 0.8316 0.1526 25 Y 0.0303 0.7158 0.2539 26 R 0.0978 0.4940 0.4082 27 P 0.0922 0.4610 0.4468 28 F 0.1187 0.3802 0.5011 29 A 0.0789 0.2668 0.6543 30 A 0.0409 0.2089 0.7502 31 N 0.0484 0.1248 0.8268 32 G 0.0804 0.0752 0.8444 33 Q 0.2658 0.0816 0.6526 34 S 0.3195 0.1799 0.5006 35 A 0.1468 0.4287 0.4245 36 N 0.1379 0.4952 0.3669 37 Y 0.1182 0.5156 0.3662 38 I 0.1562 0.4444 0.3994 39 P 0.0694 0.6540 0.2766 40 A 0.0373 0.7372 0.2255 41 L 0.0277 0.7899 0.1824 42 G 0.0422 0.6223 0.3355 43 K 0.0728 0.3901 0.5371 44 V 0.1408 0.0836 0.7755 45 N 0.1003 0.0251 0.8747 46 D 0.0143 0.2149 0.7708 47 S 0.0175 0.2057 0.7768 48 Q 0.1225 0.2019 0.6756 49 L 0.5217 0.0243 0.4540 50 G 0.8044 0.0111 0.1846 51 I 0.9054 0.0044 0.0901 52 C 0.9177 0.0041 0.0782 53 V 0.9200 0.0038 0.0761 54 L 0.9079 0.0047 0.0874 55 E 0.6156 0.0086 0.3758 56 P 0.1896 0.1075 0.7029 57 D 0.0540 0.0179 0.9281 58 G 0.0831 0.0304 0.8864 59 T 0.5983 0.0109 0.3908 60 M 0.9029 0.0041 0.0930 61 I 0.8418 0.0112 0.1470 62 H 0.8374 0.0091 0.1535 63 A 0.5883 0.0549 0.3568 64 G 0.2728 0.0503 0.6769 65 D 0.1715 0.0655 0.7630 66 W 0.1440 0.0955 0.7605 67 N 0.1268 0.0771 0.7961 68 V 0.1725 0.0304 0.7971 69 S 0.3320 0.0291 0.6389 70 F 0.5106 0.0255 0.4640 71 T 0.6129 0.0301 0.3571 72 M 0.5388 0.1444 0.3168 73 Q 0.3645 0.2275 0.4080 74 S 0.3641 0.1843 0.4516 75 I 0.2255 0.4001 0.3744 76 S 0.1668 0.4425 0.3907 77 K 0.1466 0.6549 0.1985 78 V 0.0284 0.9201 0.0515 79 I 0.0093 0.9528 0.0379 80 S 0.0062 0.9592 0.0346 81 F 0.0056 0.9589 0.0355 82 I 0.0047 0.9588 0.0365 83 A 0.0045 0.9586 0.0369 84 A 0.0049 0.9511 0.0440 85 C 0.0053 0.9259 0.0688 86 M 0.0068 0.8753 0.1179 87 S 0.0125 0.7742 0.2133 88 R 0.0496 0.5684 0.3821 89 G 0.0497 0.3285 0.6218 90 I 0.0101 0.7961 0.1938 91 P 0.0076 0.8743 0.1180 92 Y 0.0087 0.9080 0.0832 93 V 0.0109 0.9101 0.0790 94 L 0.0193 0.8838 0.0969 95 D 0.0256 0.8470 0.1274 96 R 0.0357 0.7699 0.1944 97 V 0.0856 0.4066 0.5078 98 D 0.0744 0.0897 0.8359 99 V 0.1462 0.0719 0.7819 100 E 0.1557 0.0505 0.7937 101 P 0.1183 0.0596 0.8221 102 T 0.0904 0.0662 0.8434 103 G 0.0545 0.0549 0.8906 104 D 0.0699 0.0951 0.8350 105 A 0.0726 0.2758 0.6516 106 F 0.0888 0.4417 0.4695 107 N 0.0990 0.4833 0.4177 108 S 0.1215 0.5532 0.3253 109 I 0.1628 0.6302 0.2069 110 I 0.2033 0.6094 0.1873 111 R 0.2439 0.5564 0.1998 112 L 0.2668 0.4786 0.2545 113 E 0.2704 0.4450 0.2846 114 I 0.2151 0.3925 0.3924 115 N 0.1243 0.2450 0.6306 116 K 0.0596 0.1391 0.8014 117 P 0.0396 0.0826 0.8778 118 G 0.0343 0.0506 0.9152 119 K 0.0992 0.0243 0.8766 120 P 0.1728 0.0274 0.7998 121 F 0.1331 0.0460 0.8209 122 N 0.0981 0.0620 0.8399 123 P 0.0511 0.4640 0.4849 124 M 0.1646 0.4875 0.3479 125 I 0.2335 0.5255 0.2410 126 N 0.2284 0.5507 0.2209 127 A 0.1891 0.6047 0.2062 128 G 0.2406 0.5764 0.1830 129 A 0.2730 0.6169 0.1101 130 L 0.2938 0.6408 0.0655 131 T 0.2792 0.6567 0.0641 132 I 0.3104 0.5882 0.1013 133 A 0.2625 0.5291 0.2084 134 S 0.1775 0.4521 0.3704 135 I 0.1426 0.4054 0.4520 136 L 0.1109 0.1520 0.7371 137 P 0.0315 0.1228 0.8457 138 G 0.0308 0.0634 0.9057 139 E 0.0821 0.0534 0.8645 140 S 0.1003 0.0530 0.8467 141 A 0.0145 0.8069 0.1785 142 Y 0.0064 0.8874 0.1063 143 E 0.0060 0.9113 0.0827 144 K 0.0049 0.9297 0.0653 145 L 0.0045 0.9456 0.0499 146 E 0.0045 0.9498 0.0458 147 F 0.0044 0.9512 0.0443 148 L 0.0044 0.9574 0.0382 149 Y 0.0044 0.9593 0.0363 150 S 0.0044 0.9578 0.0378 151 V 0.0044 0.9569 0.0387 152 M 0.0046 0.9536 0.0419 153 E 0.0048 0.9467 0.0485 154 T 0.0072 0.9143 0.0784 155 L 0.0134 0.8435 0.1431 156 I 0.0347 0.4937 0.4716 157 G 0.0361 0.1121 0.8519 158 K 0.0531 0.0787 0.8682 159 R 0.1554 0.0602 0.7845 160 P 0.3374 0.0350 0.6276 161 R 0.3463 0.0301 0.6235 162 I 0.3780 0.0478 0.5742 163 H 0.1540 0.0600 0.7860 164 E 0.0244 0.7839 0.1917 165 E 0.0291 0.8356 0.1352 166 V 0.0553 0.8011 0.1436 167 F 0.0719 0.7411 0.1871 168 R 0.0911 0.6395 0.2694 169 S 0.0942 0.5933 0.3125 170 E 0.0400 0.6427 0.3173 171 W 0.0398 0.5911 0.3691 172 E 0.0398 0.5620 0.3981 173 T 0.0331 0.5543 0.4126 174 A 0.0309 0.6166 0.3525 175 H 0.0206 0.7694 0.2099 176 R 0.0075 0.9193 0.0732 177 N 0.0077 0.9401 0.0523 178 R 0.0059 0.9513 0.0428 179 A 0.0057 0.9562 0.0381 180 L 0.0044 0.9580 0.0376 181 A 0.0044 0.9585 0.0371 182 Y 0.0044 0.9593 0.0363 183 Y 0.0044 0.9583 0.0373 184 L 0.0046 0.9537 0.0417 185 K 0.0054 0.9363 0.0584 186 E 0.0068 0.8611 0.1322 187 T 0.0419 0.3775 0.5806 188 N 0.0364 0.0579 0.9058 189 F 0.0876 0.0555 0.8569 190 L 0.1378 0.0773 0.7849 191 E 0.0597 0.1401 0.8002 192 A 0.0350 0.1901 0.7749 193 E 0.0612 0.2363 0.7026 194 V 0.0069 0.8974 0.0957 195 E 0.0046 0.9379 0.0574 196 E 0.0045 0.9483 0.0472 197 T 0.0045 0.9527 0.0428 198 L 0.0045 0.9501 0.0454 199 E 0.0046 0.9478 0.0477 200 V 0.0048 0.9464 0.0489 201 Y 0.0052 0.9433 0.0514 202 L 0.0062 0.9217 0.0720 203 K 0.0076 0.9073 0.0850 204 Q 0.0129 0.8884 0.0987 205 C 0.0231 0.8712 0.1056 206 A 0.0284 0.8516 0.1201 207 M 0.0375 0.8444 0.1181 208 E 0.0641 0.7840 0.1520 209 S 0.0773 0.6300 0.2927 210 T 0.0887 0.5247 0.3866 211 T 0.0078 0.9029 0.0893 212 E 0.0051 0.9373 0.0576 213 D 0.0048 0.9456 0.0497 214 I 0.0044 0.9532 0.0424 215 A 0.0044 0.9559 0.0398 216 L 0.0044 0.9538 0.0418 217 I 0.0044 0.9511 0.0446 218 G 0.0053 0.9502 0.0445 219 L 0.0065 0.9503 0.0431 220 I 0.0075 0.9413 0.0512 221 L 0.0080 0.9115 0.0806 222 A 0.0097 0.8321 0.1582 223 H 0.0137 0.5010 0.4853 224 D 0.0462 0.1477 0.8061 225 G 0.0750 0.0405 0.8844 226 Y 0.2339 0.0239 0.7422 227 H 0.2385 0.0260 0.7355 228 P 0.0898 0.1204 0.7898 229 I 0.0781 0.1470 0.7749 230 R 0.0826 0.0875 0.8299 231 H 0.0669 0.0845 0.8486 232 E 0.2654 0.0488 0.6859 233 Q 0.5245 0.0288 0.4467 234 V 0.4275 0.0316 0.5409 235 I 0.2688 0.0171 0.7141 236 P 0.0895 0.0190 0.8916 237 K 0.0061 0.8051 0.1888 238 D 0.0055 0.8658 0.1287 239 V 0.0047 0.9321 0.0632 240 A 0.0049 0.9467 0.0484 241 K 0.0055 0.9501 0.0444 242 L 0.0049 0.9518 0.0433 243 A 0.0060 0.9461 0.0479 244 K 0.0060 0.9394 0.0546 245 A 0.0073 0.9339 0.0588 246 L 0.0093 0.9244 0.0662 247 M 0.0164 0.8804 0.1032 248 L 0.0226 0.8590 0.1184 249 T 0.0282 0.8070 0.1649 250 C 0.0490 0.6898 0.2612 251 G 0.0508 0.5156 0.4336 252 M 0.0612 0.5615 0.3773 253 Y 0.0882 0.4877 0.4241 254 N 0.0562 0.5579 0.3859 255 A 0.0355 0.5567 0.4078 256 S 0.0501 0.5318 0.4180 257 G 0.0429 0.5699 0.3873 258 K 0.0650 0.6510 0.2840 259 Y 0.1226 0.6870 0.1904 260 A 0.1647 0.6471 0.1882 261 A 0.2158 0.5867 0.1975 262 F 0.2175 0.5441 0.2384 263 V 0.1887 0.3300 0.4813 264 G 0.1228 0.0873 0.7899 265 V 0.1438 0.0404 0.8158 266 P 0.1609 0.0576 0.7814 267 A 0.1969 0.0838 0.7193 268 K 0.1885 0.0862 0.7252 269 S 0.1732 0.0824 0.7444 270 G 0.1432 0.0726 0.7842 271 V 0.1767 0.0601 0.7632 272 S 0.2368 0.0633 0.6999 273 G 0.3899 0.0407 0.5694 274 G 0.7990 0.0205 0.1804 275 I 0.8803 0.0152 0.1045 276 M 0.8922 0.0145 0.0933 277 A 0.8951 0.0078 0.0971 278 L 0.8378 0.0116 0.1507 279 V 0.7119 0.0103 0.2778 280 P 0.3073 0.0153 0.6774 281 P 0.0549 0.3094 0.6357 282 S 0.0300 0.4535 0.5164 283 A 0.0431 0.5475 0.4094 284 R 0.0535 0.5198 0.4267 285 R 0.0781 0.3986 0.5233 286 E 0.1003 0.3267 0.5730 287 Q 0.1042 0.1620 0.7337 288 P 0.1098 0.1677 0.7224 289 F 0.1457 0.1576 0.6967 290 Q 0.0886 0.1692 0.7422 291 S 0.1343 0.0790 0.7867 292 G 0.2863 0.0453 0.6684 293 C 0.5730 0.0176 0.4094 294 G 0.8544 0.0079 0.1376 295 I 0.9113 0.0057 0.0830 296 G 0.9092 0.0058 0.0850 297 I 0.8821 0.0119 0.1059 298 Y 0.7123 0.0212 0.2665 299 G 0.3622 0.0206 0.6172 300 P 0.2000 0.0588 0.7412 301 A 0.1835 0.0872 0.7294 302 I 0.2163 0.0812 0.7025 303 D 0.0953 0.0696 0.8352 304 E 0.0252 0.1926 0.7822 305 Y 0.0388 0.1549 0.8063 306 G 0.0355 0.1602 0.8044 307 N 0.0769 0.2479 0.6751 308 S 0.1132 0.4378 0.4489 309 L 0.0205 0.8271 0.1524 310 T 0.0099 0.9021 0.0880 311 G 0.0047 0.9436 0.0517 312 G 0.0044 0.9590 0.0366 313 M 0.0044 0.9609 0.0347 314 L 0.0043 0.9607 0.0350 315 L 0.0044 0.9599 0.0357 316 K 0.0044 0.9600 0.0356 317 H 0.0044 0.9584 0.0372 318 M 0.0045 0.9544 0.0411 319 A 0.0046 0.9486 0.0468 320 Q 0.0052 0.9166 0.0782 321 E 0.0086 0.8577 0.1337 322 W 0.0473 0.5624 0.3903 323 E 0.0359 0.1008 0.8634 324 L 0.0735 0.0777 0.8489 325 S 0.1468 0.0977 0.7555 326 I 0.1593 0.1151 0.7257 327 F 0.0602 0.0246 0.9153