# This file is the result of combining several RDB files, specifically # T0316.t06.dssp-ebghstl.rdb (weight 1.53986) # T0316.t06.stride-ebghtl.rdb (weight 1.24869) # T0316.t06.str2.rdb (weight 1.54758) # T0316.t06.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 T0316.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0316 # Using neural net t06-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 T0316.t06-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 2608 # # ============================================ # Comments from T0316.t06.stride-ebghtl.rdb # ============================================ # TARGET T0316 # Using neural net t06-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 T0316.t06-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 2608 # # ============================================ # Comments from T0316.t06.str2.rdb # ============================================ # TARGET T0316 # Using neural net t06-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 T0316.t06-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 2608 # # ============================================ # Comments from T0316.t06.alpha.rdb # ============================================ # TARGET T0316 # Using neural net t06-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 T0316.t06-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 2608 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1020 0.0304 0.8676 2 S 0.1806 0.0727 0.7467 3 D 0.2205 0.1239 0.6555 4 N 0.1323 0.1467 0.7210 5 S 0.0669 0.1494 0.7836 6 K 0.0765 0.0832 0.8404 7 T 0.1575 0.0339 0.8087 8 R 0.6260 0.0064 0.3675 9 V 0.8931 0.0036 0.1033 10 V 0.9330 0.0032 0.0638 11 V 0.9315 0.0034 0.0651 12 G 0.9240 0.0042 0.0717 13 M 0.8801 0.0083 0.1116 14 S 0.5456 0.0188 0.4357 15 G 0.1224 0.0312 0.8464 16 G 0.0714 0.0703 0.8583 17 V 0.0501 0.4038 0.5461 18 D 0.0255 0.6546 0.3200 19 S 0.0062 0.9223 0.0714 20 S 0.0052 0.9545 0.0402 21 V 0.0047 0.9599 0.0354 22 T 0.0049 0.9603 0.0348 23 A 0.0047 0.9607 0.0346 24 L 0.0047 0.9607 0.0346 25 L 0.0046 0.9607 0.0346 26 L 0.0047 0.9595 0.0358 27 K 0.0048 0.9534 0.0418 28 E 0.0059 0.9093 0.0848 29 Q 0.0423 0.3831 0.5746 30 G 0.0355 0.0189 0.9456 31 Y 0.0713 0.0096 0.9191 32 D 0.4173 0.0086 0.5742 33 V 0.8490 0.0033 0.1476 34 I 0.8999 0.0060 0.0942 35 G 0.9274 0.0036 0.0690 36 I 0.9274 0.0035 0.0691 37 F 0.9164 0.0039 0.0797 38 M 0.8218 0.0077 0.1705 39 K 0.5703 0.0304 0.3993 40 N 0.3772 0.0244 0.5984 41 W 0.2222 0.0598 0.7180 42 D 0.1730 0.0693 0.7577 43 D 0.1408 0.1101 0.7491 44 T 0.1217 0.0940 0.7842 45 D 0.0728 0.1100 0.8171 46 E 0.0509 0.1472 0.8019 47 N 0.0960 0.0999 0.8041 48 G 0.1091 0.0760 0.8149 49 V 0.2529 0.0656 0.6815 50 C 0.2553 0.0604 0.6843 51 T 0.1218 0.0721 0.8061 52 A 0.0708 0.0973 0.8319 53 T 0.0261 0.6350 0.3389 54 E 0.0244 0.7207 0.2549 55 D 0.0288 0.7242 0.2469 56 Y 0.0063 0.9204 0.0734 57 K 0.0052 0.9358 0.0590 58 D 0.0049 0.9418 0.0533 59 V 0.0047 0.9559 0.0394 60 V 0.0046 0.9608 0.0345 61 A 0.0047 0.9603 0.0351 62 V 0.0047 0.9609 0.0345 63 A 0.0047 0.9601 0.0352 64 D 0.0048 0.9530 0.0423 65 Q 0.0055 0.9284 0.0661 66 I 0.0446 0.4735 0.4819 67 G 0.0416 0.0154 0.9430 68 I 0.0639 0.0078 0.9283 69 P 0.2752 0.0120 0.7128 70 Y 0.8550 0.0058 0.1392 71 Y 0.9149 0.0044 0.0807 72 S 0.9228 0.0039 0.0733 73 V 0.8676 0.0082 0.1242 74 N 0.5868 0.0059 0.4073 75 F 0.1403 0.1227 0.7370 76 E 0.0481 0.2984 0.6535 77 K 0.0078 0.8350 0.1571 78 E 0.0076 0.8705 0.1218 79 Y 0.0093 0.8751 0.1156 80 W 0.0091 0.9005 0.0904 81 D 0.0074 0.9066 0.0861 82 R 0.0082 0.8950 0.0967 83 V 0.0116 0.9008 0.0876 84 F 0.0168 0.9055 0.0778 85 E 0.0073 0.9443 0.0484 86 Y 0.0056 0.9527 0.0417 87 F 0.0059 0.9485 0.0456 88 L 0.0085 0.9419 0.0496 89 A 0.0093 0.9292 0.0615 90 E 0.0083 0.9198 0.0720 91 Y 0.0176 0.8785 0.1038 92 R 0.0253 0.7976 0.1771 93 A 0.0395 0.4177 0.5428 94 G 0.0306 0.0903 0.8791 95 R 0.0846 0.0480 0.8675 96 T 0.1233 0.0224 0.8543 97 P 0.1172 0.0456 0.8371 98 N 0.1216 0.0304 0.8480 99 P 0.0625 0.2311 0.7065 100 D 0.0952 0.3056 0.5993 101 V 0.1015 0.4732 0.4253 102 M 0.1090 0.3976 0.4934 103 C 0.0718 0.4228 0.5054 104 N 0.0403 0.3856 0.5740 105 K 0.0093 0.7889 0.2018 106 E 0.0105 0.8643 0.1252 107 I 0.0181 0.8876 0.0943 108 K 0.0157 0.9008 0.0835 109 F 0.0074 0.9403 0.0523 110 K 0.0054 0.9528 0.0418 111 A 0.0048 0.9575 0.0378 112 F 0.0047 0.9582 0.0371 113 L 0.0047 0.9608 0.0345 114 D 0.0047 0.9604 0.0349 115 Y 0.0047 0.9601 0.0352 116 A 0.0047 0.9600 0.0354 117 I 0.0048 0.9526 0.0426 118 T 0.0052 0.9305 0.0643 119 L 0.0433 0.4609 0.4957 120 G 0.0540 0.0112 0.9347 121 A 0.0844 0.0070 0.9085 122 D 0.1146 0.0505 0.8348 123 Y 0.9025 0.0049 0.0926 124 V 0.9282 0.0044 0.0674 125 A 0.9167 0.0067 0.0765 126 T 0.8238 0.0188 0.1574 127 G 0.4417 0.0386 0.5197 128 H 0.3179 0.1004 0.5817 129 Y 0.2491 0.1771 0.5738 130 A 0.2527 0.2580 0.4892 131 R 0.2706 0.2700 0.4594 132 V 0.2353 0.2611 0.5036 133 A 0.1904 0.2085 0.6011 134 R 0.1284 0.2240 0.6475 135 D 0.1270 0.2991 0.5739 136 E 0.1185 0.3672 0.5143 137 D 0.1230 0.2973 0.5797 138 G 0.1512 0.2306 0.6182 139 T 0.2874 0.2500 0.4626 140 V 0.3082 0.3958 0.2960 141 H 0.2930 0.3873 0.3197 142 M 0.2655 0.3867 0.3477 143 L 0.1964 0.3178 0.4858 144 R 0.1162 0.2638 0.6200 145 G 0.0927 0.1856 0.7216 146 V 0.0991 0.2453 0.6556 147 D 0.0711 0.2719 0.6570 148 N 0.0551 0.2407 0.7042 149 G 0.0492 0.1691 0.7816 150 K 0.0534 0.1999 0.7467 151 D 0.0852 0.2198 0.6950 152 Q 0.0936 0.3259 0.5805 153 T 0.1011 0.4231 0.4758 154 Y 0.0877 0.5881 0.3242 155 F 0.1010 0.6141 0.2849 156 L 0.0952 0.5645 0.3403 157 S 0.0774 0.4548 0.4678 158 Q 0.0742 0.3915 0.5343 159 L 0.1034 0.1963 0.7004 160 S 0.0752 0.1602 0.7646 161 Q 0.0080 0.8614 0.1306 162 E 0.0100 0.8466 0.1434 163 Q 0.0136 0.8236 0.1628 164 L 0.0343 0.7084 0.2573 165 Q 0.0973 0.5658 0.3369 166 K 0.1952 0.4506 0.3542 167 T 0.3401 0.3549 0.3050 168 M 0.4503 0.2112 0.3386 169 F 0.3594 0.1748 0.4658 170 P 0.2564 0.2016 0.5419 171 L 0.0883 0.4681 0.4436 172 G 0.0494 0.4195 0.5311 173 H 0.0460 0.3211 0.6329 174 L 0.1063 0.0456 0.8481 175 E 0.0574 0.0291 0.9135 176 K 0.0069 0.9286 0.0645 177 P 0.0047 0.9567 0.0386 178 E 0.0047 0.9600 0.0353 179 V 0.0047 0.9608 0.0345 180 R 0.0046 0.9610 0.0343 181 R 0.0046 0.9611 0.0343 182 L 0.0046 0.9615 0.0339 183 A 0.0046 0.9610 0.0344 184 E 0.0048 0.9555 0.0397 185 E 0.0056 0.9331 0.0613 186 A 0.0428 0.4626 0.4946 187 G 0.0430 0.0152 0.9418 188 L 0.0646 0.0078 0.9276 189 S 0.1130 0.0381 0.8489 190 T 0.3715 0.1126 0.5159 191 A 0.3409 0.1451 0.5140 192 K 0.3372 0.1452 0.5176 193 K 0.2595 0.0648 0.6757 194 K 0.1427 0.0886 0.7687 195 D 0.1274 0.0749 0.7977 196 S 0.1032 0.1256 0.7712 197 T 0.0884 0.1422 0.7694 198 G 0.1115 0.1209 0.7676 199 I 0.1798 0.1726 0.6475 200 C 0.2715 0.1871 0.5414 201 F 0.2637 0.2343 0.5020 202 I 0.2082 0.2303 0.5616 203 G 0.1264 0.2149 0.6587 204 E 0.0877 0.3985 0.5138 205 K 0.0876 0.5015 0.4109 206 N 0.0926 0.5654 0.3420 207 F 0.0401 0.7725 0.1873 208 K 0.0239 0.8174 0.1587 209 N 0.0227 0.7878 0.1894 210 F 0.0224 0.8028 0.1748 211 L 0.0369 0.7327 0.2303 212 S 0.0142 0.7495 0.2363 213 N 0.0163 0.6502 0.3334 214 Y 0.0338 0.5626 0.4037 215 L 0.0634 0.2735 0.6631 216 P 0.0533 0.2392 0.7075 217 A 0.0757 0.1687 0.7556 218 Q 0.0808 0.0362 0.8829 219 P 0.0459 0.1248 0.8293 220 G 0.0591 0.1136 0.8273 221 R 0.3017 0.1101 0.5882 222 M 0.6232 0.0662 0.3106 223 M 0.6814 0.0620 0.2566 224 T 0.6671 0.0470 0.2859 225 V 0.5120 0.1071 0.3809 226 D 0.3317 0.0878 0.5805 227 G 0.1839 0.0891 0.7270 228 R 0.2383 0.0983 0.6634 229 D 0.3572 0.1477 0.4951 230 M 0.1834 0.2553 0.5612 231 G 0.1449 0.1757 0.6794 232 E 0.1653 0.2078 0.6269 233 H 0.1991 0.2102 0.5907 234 A 0.1382 0.1527 0.7092 235 G 0.2065 0.0677 0.7258 236 L 0.4529 0.0306 0.5164 237 M 0.7026 0.0330 0.2643 238 Y 0.8724 0.0175 0.1102 239 Y 0.8734 0.0178 0.1088 240 T 0.8798 0.0178 0.1024 241 I 0.7929 0.0496 0.1575 242 G 0.6907 0.0426 0.2668 243 Q 0.5928 0.0672 0.3401 244 R 0.4750 0.0996 0.4254 245 G 0.2454 0.0767 0.6779 246 G 0.2012 0.0561 0.7427 247 L 0.3807 0.0445 0.5747 248 G 0.4981 0.0396 0.4624 249 I 0.5765 0.0534 0.3701 250 G 0.5406 0.0583 0.4011 251 G 0.4885 0.0560 0.4556 252 Q 0.4871 0.0435 0.4694 253 H 0.3793 0.0514 0.5693 254 G 0.1205 0.0474 0.8321 255 G 0.0563 0.0775 0.8661 256 D 0.0742 0.0464 0.8794 257 N 0.0542 0.0702 0.8756 258 A 0.1333 0.0732 0.7935 259 P 0.3366 0.0972 0.5663 260 W 0.3948 0.1580 0.4471 261 F 0.4307 0.1911 0.3782 262 R 0.4091 0.1605 0.4303 263 Y 0.4054 0.1059 0.4887 264 R 0.3730 0.0640 0.5630 265 Q 0.1531 0.0269 0.8200 266 P 0.0738 0.0651 0.8611 267 D 0.0759 0.0593 0.8648 268 S 0.2794 0.0230 0.6976 269 K 0.5902 0.0100 0.3998 270 V 0.8790 0.0040 0.1170 271 T 0.9183 0.0035 0.0782 272 V 0.9212 0.0033 0.0755 273 H 0.8969 0.0043 0.0988 274 V 0.8482 0.0069 0.1449 275 K 0.5629 0.0329 0.4042 276 G 0.1607 0.0557 0.7836 277 E 0.1025 0.0603 0.8372 278 K 0.6019 0.0252 0.3730 279 T 0.8689 0.0050 0.1260 280 E 0.9105 0.0053 0.0841 281 V 0.9186 0.0044 0.0770 282 I 0.8799 0.0103 0.1098 283 F 0.7797 0.0144 0.2059 284 A 0.4370 0.0432 0.5198 285 E 0.2620 0.0428 0.6952 286 P 0.2467 0.1200 0.6334 287 Q 0.3531 0.2041 0.4428 288 R 0.4841 0.1728 0.3431 289 A 0.6407 0.0913 0.2679 290 I 0.5422 0.0664 0.3914 291 T 0.2169 0.0220 0.7611 292 P 0.0477 0.0948 0.8575 293 G 0.0529 0.0530 0.8940 294 Q 0.3571 0.0368 0.6061 295 A 0.7523 0.0097 0.2380 296 V 0.9156 0.0064 0.0780 297 V 0.9218 0.0084 0.0698 298 F 0.9089 0.0127 0.0784 299 Y 0.8261 0.0211 0.1529 300 D 0.4683 0.0403 0.4914 301 G 0.1825 0.1462 0.6713 302 E 0.2593 0.2153 0.5254 303 E 0.4677 0.2268 0.3055 304 C 0.5857 0.1626 0.2517 305 L 0.4311 0.1614 0.4075 306 G 0.2433 0.1204 0.6363 307 G 0.3025 0.1356 0.5619 308 G 0.5797 0.1007 0.3196 309 L 0.7567 0.0922 0.1511 310 I 0.7348 0.1071 0.1581 311 D 0.5809 0.1350 0.2841 312 N 0.2608 0.3278 0.4114 313 A 0.2217 0.3953 0.3830 314 Y 0.2010 0.3565 0.4425 315 R 0.1357 0.3545 0.5098 316 D 0.0739 0.2550 0.6711 317 G 0.0597 0.1674 0.7729 318 Q 0.1685 0.1801 0.6514 319 V 0.2804 0.1966 0.5230 320 C 0.2933 0.2758 0.4309 321 Q 0.3042 0.3094 0.3865 322 Y 0.3274 0.2385 0.4341 323 I 0.1765 0.0483 0.7752