# This file is the result of combining several RDB files, specifically # T0216.t04.dssp-ebghstl.rdb (weight 1.53986) # T0216.t04.stride-ebghtl.rdb (weight 1.24869) # T0216.t04.str2.rdb (weight 1.54758) # T0216.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 T0216.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0216 # 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 T0216.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 305 # # ============================================ # Comments from T0216.t04.stride-ebghtl.rdb # ============================================ # TARGET T0216 # 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 T0216.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 305 # # ============================================ # Comments from T0216.t04.str2.rdb # ============================================ # TARGET T0216 # 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 T0216.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 305 # # ============================================ # Comments from T0216.t04.alpha.rdb # ============================================ # TARGET T0216 # 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 T0216.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 305 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0844 0.0138 0.9018 2 T 0.0791 0.0186 0.9023 3 F 0.0058 0.9163 0.0779 4 E 0.0047 0.9516 0.0437 5 E 0.0048 0.9534 0.0418 6 F 0.0047 0.9561 0.0392 7 K 0.0047 0.9599 0.0354 8 D 0.0047 0.9606 0.0347 9 R 0.0047 0.9587 0.0365 10 L 0.0047 0.9583 0.0370 11 F 0.0047 0.9595 0.0359 12 A 0.0047 0.9597 0.0356 13 L 0.0048 0.9556 0.0397 14 A 0.0048 0.9367 0.0585 15 K 0.0058 0.8210 0.1732 16 K 0.0088 0.5470 0.4442 17 N 0.0422 0.1986 0.7592 18 G 0.0510 0.0262 0.9228 19 V 0.1240 0.0364 0.8396 20 E 0.6277 0.0258 0.3464 21 V 0.8554 0.0064 0.1382 22 Q 0.9191 0.0033 0.0776 23 I 0.9237 0.0032 0.0730 24 S 0.9218 0.0039 0.0743 25 F 0.9235 0.0036 0.0730 26 L 0.8929 0.0080 0.0991 27 E 0.8854 0.0063 0.1083 28 T 0.7639 0.0173 0.2189 29 R 0.7160 0.0250 0.2590 30 E 0.7456 0.0251 0.2293 31 F 0.8305 0.0102 0.1593 32 S 0.8962 0.0049 0.0989 33 L 0.9231 0.0039 0.0730 34 R 0.9234 0.0042 0.0724 35 L 0.8986 0.0081 0.0933 36 A 0.6751 0.0318 0.2931 37 N 0.1095 0.0248 0.8657 38 G 0.1353 0.0309 0.8339 39 D 0.5756 0.0265 0.3980 40 L 0.8073 0.0211 0.1716 41 D 0.7152 0.0609 0.2239 42 Q 0.7757 0.0454 0.1789 43 Y 0.7414 0.0374 0.2212 44 T 0.7136 0.0543 0.2321 45 D 0.6418 0.0516 0.3066 46 A 0.3777 0.0866 0.5357 47 G 0.3043 0.0887 0.6070 48 K 0.3866 0.0955 0.5179 49 F 0.5789 0.0436 0.3774 50 N 0.7581 0.0097 0.2322 51 V 0.8989 0.0038 0.0973 52 E 0.9281 0.0033 0.0686 53 I 0.9329 0.0030 0.0641 54 K 0.9309 0.0034 0.0657 55 V 0.9289 0.0035 0.0676 56 L 0.9043 0.0050 0.0907 57 K 0.7129 0.0212 0.2659 58 D 0.0708 0.0218 0.9074 59 G 0.0713 0.0311 0.8976 60 K 0.6480 0.0101 0.3419 61 T 0.8914 0.0048 0.1038 62 G 0.8893 0.0075 0.1031 63 T 0.9193 0.0040 0.0766 64 F 0.8927 0.0051 0.1023 65 R 0.8072 0.0084 0.1844 66 T 0.5819 0.0410 0.3770 67 Q 0.2693 0.1205 0.6102 68 V 0.1540 0.1670 0.6790 69 L 0.0854 0.1805 0.7341 70 E 0.0463 0.1522 0.8015 71 N 0.0875 0.1256 0.7869 72 P 0.0082 0.7441 0.2477 73 E 0.0052 0.9152 0.0796 74 K 0.0049 0.9373 0.0578 75 C 0.0049 0.9452 0.0499 76 F 0.0047 0.9594 0.0359 77 E 0.0047 0.9607 0.0346 78 E 0.0047 0.9591 0.0362 79 A 0.0048 0.9572 0.0380 80 L 0.0048 0.9554 0.0398 81 S 0.0053 0.9449 0.0498 82 N 0.0063 0.9056 0.0881 83 L 0.0101 0.8062 0.1837 84 Q 0.0140 0.4693 0.5166 85 V 0.0347 0.2719 0.6934 86 K 0.0577 0.1361 0.8061 87 D 0.0539 0.1329 0.8132 88 S 0.0142 0.5852 0.4007 89 E 0.0222 0.6656 0.3122 90 E 0.0277 0.7303 0.2420 91 K 0.0477 0.7242 0.2281 92 E 0.0612 0.6973 0.2415 93 Y 0.0655 0.6647 0.2698 94 F 0.0875 0.5462 0.3662 95 F 0.0857 0.4238 0.4905 96 E 0.0690 0.3453 0.5856 97 G 0.0567 0.2268 0.7165 98 G 0.0596 0.1562 0.7843 99 K 0.0937 0.2067 0.6996 100 E 0.1297 0.2244 0.6459 101 Y 0.1313 0.3190 0.5497 102 R 0.1513 0.3207 0.5280 103 E 0.1798 0.3641 0.4560 104 M 0.1001 0.5122 0.3877 105 E 0.0764 0.5641 0.3595 106 T 0.0783 0.5177 0.4041 107 Y 0.0899 0.4544 0.4558 108 V 0.0876 0.2975 0.6149 109 G 0.0818 0.1621 0.7562 110 R 0.0914 0.1235 0.7851 111 F 0.0424 0.5558 0.4017 112 E 0.0302 0.5245 0.4453 113 K 0.0754 0.4064 0.5183 114 L 0.1387 0.0415 0.8199 115 S 0.0736 0.0225 0.9039 116 V 0.0050 0.9406 0.0545 117 K 0.0047 0.9553 0.0400 118 E 0.0047 0.9520 0.0433 119 K 0.0047 0.9540 0.0412 120 M 0.0047 0.9581 0.0372 121 D 0.0047 0.9575 0.0378 122 M 0.0047 0.9544 0.0409 123 A 0.0047 0.9564 0.0389 124 K 0.0047 0.9576 0.0377 125 K 0.0047 0.9525 0.0428 126 A 0.0048 0.9490 0.0462 127 H 0.0049 0.9480 0.0471 128 E 0.0052 0.9370 0.0578 129 S 0.0064 0.9097 0.0838 130 A 0.0125 0.8360 0.1515 131 A 0.0135 0.6592 0.3274 132 K 0.0209 0.4779 0.5012 133 D 0.0658 0.0916 0.8425 134 E 0.0215 0.2802 0.6983 135 R 0.0700 0.2310 0.6990 136 V 0.3676 0.1883 0.4442 137 V 0.6078 0.0910 0.3013 138 M 0.6345 0.0475 0.3180 139 V 0.4037 0.0243 0.5719 140 P 0.2781 0.0738 0.6480 141 T 0.4160 0.0904 0.4937 142 V 0.5929 0.0635 0.3436 143 M 0.6575 0.0609 0.2816 144 Y 0.5573 0.1519 0.2908 145 K 0.4145 0.1847 0.4008 146 D 0.3452 0.2100 0.4448 147 M 0.5747 0.1209 0.3044 148 V 0.7815 0.0610 0.1575 149 I 0.8625 0.0296 0.1078 150 K 0.8862 0.0216 0.0922 151 K 0.9061 0.0197 0.0742 152 I 0.9073 0.0227 0.0700 153 I 0.8992 0.0291 0.0717 154 T 0.8764 0.0232 0.1004 155 N 0.6635 0.0371 0.2994 156 T 0.3303 0.0661 0.6035 157 L 0.1313 0.0821 0.7867 158 G 0.1304 0.0665 0.8031 159 L 0.3092 0.0504 0.6405 160 D 0.5454 0.0487 0.4059 161 V 0.5070 0.1946 0.2984 162 E 0.4948 0.2025 0.3027 163 S 0.5361 0.1678 0.2961 164 Q 0.5592 0.0986 0.3422 165 M 0.5327 0.0478 0.4195 166 D 0.3601 0.0769 0.5630 167 G 0.4074 0.0455 0.5471 168 G 0.7663 0.0149 0.2188 169 F 0.8900 0.0065 0.1036 170 L 0.9158 0.0037 0.0805 171 F 0.9224 0.0040 0.0737 172 A 0.9251 0.0035 0.0714 173 M 0.9259 0.0035 0.0705 174 A 0.9262 0.0036 0.0702 175 I 0.9203 0.0043 0.0754 176 A 0.8716 0.0090 0.1194 177 R 0.5604 0.0454 0.3941 178 D 0.1755 0.0276 0.7969 179 A 0.0838 0.0480 0.8683 180 N 0.2243 0.0181 0.7576 181 P 0.3646 0.0405 0.5948 182 R 0.4065 0.0565 0.5370 183 S 0.3678 0.0789 0.5533 184 G 0.2306 0.0928 0.6766 185 S 0.3218 0.1393 0.5389 186 W 0.3887 0.2418 0.3695 187 Y 0.3468 0.2764 0.3768 188 E 0.2917 0.2738 0.4345 189 L 0.2776 0.2207 0.5017 190 A 0.2757 0.1153 0.6090 191 R 0.2118 0.0849 0.7033 192 T 0.1223 0.0299 0.8478 193 P 0.0190 0.5728 0.4081 194 E 0.0153 0.5538 0.4309 195 D 0.0435 0.4930 0.4636 196 L 0.1364 0.0912 0.7724 197 N 0.0986 0.0244 0.8770 198 P 0.0052 0.9323 0.0626 199 E 0.0047 0.9545 0.0407 200 E 0.0047 0.9564 0.0389 201 I 0.0052 0.9525 0.0423 202 G 0.0047 0.9551 0.0402 203 K 0.0047 0.9601 0.0353 204 R 0.0047 0.9600 0.0353 205 A 0.0047 0.9595 0.0358 206 A 0.0047 0.9607 0.0346 207 E 0.0047 0.9611 0.0342 208 E 0.0047 0.9594 0.0359 209 A 0.0047 0.9577 0.0376 210 I 0.0049 0.9543 0.0408 211 S 0.0059 0.9382 0.0559 212 L 0.0108 0.8650 0.1242 213 I 0.0461 0.5772 0.3766 214 G 0.0329 0.0825 0.8846 215 S 0.0617 0.0386 0.8997 216 K 0.0991 0.0325 0.8684 217 T 0.2162 0.0263 0.7575 218 I 0.1294 0.0126 0.8581 219 P 0.0835 0.0161 0.9004 220 S 0.0524 0.0979 0.8497 221 G 0.0773 0.0662 0.8565 222 K 0.2935 0.0321 0.6744 223 Y 0.4997 0.0094 0.4908 224 P 0.5786 0.0080 0.4134 225 V 0.8599 0.0060 0.1342 226 L 0.8833 0.0084 0.1083 227 M 0.7329 0.0211 0.2460 228 R 0.2339 0.0282 0.7379 229 N 0.0385 0.4237 0.5378 230 T 0.0137 0.8409 0.1454 231 A 0.0099 0.8905 0.0996 232 L 0.0054 0.9390 0.0557 233 L 0.0050 0.9524 0.0426 234 D 0.0055 0.9521 0.0424 235 L 0.0051 0.9509 0.0440 236 M 0.0055 0.9444 0.0502 237 E 0.0061 0.9150 0.0789 238 M 0.0093 0.8207 0.1700 239 F 0.0209 0.6920 0.2871 240 I 0.0291 0.6281 0.3428 241 P 0.0273 0.6141 0.3586 242 M 0.0287 0.6830 0.2883 243 I 0.0896 0.5389 0.3715 244 S 0.0980 0.4403 0.4617 245 A 0.0064 0.8721 0.1215 246 E 0.0067 0.8886 0.1048 247 N 0.0077 0.9035 0.0888 248 V 0.0174 0.8826 0.1000 249 Q 0.0274 0.7834 0.1892 250 K 0.0372 0.5486 0.4142 251 N 0.0354 0.1981 0.7664 252 L 0.0790 0.1371 0.7838 253 S 0.0912 0.1915 0.7173 254 P 0.0320 0.5992 0.3687 255 L 0.0378 0.6087 0.3535 256 K 0.0537 0.5166 0.4296 257 G 0.0246 0.4378 0.5377 258 K 0.0712 0.4134 0.5155 259 L 0.0817 0.2056 0.7126 260 G 0.0617 0.0599 0.8784 261 E 0.3056 0.0455 0.6489 262 Q 0.6720 0.0281 0.2999 263 V 0.5822 0.0356 0.3822 264 G 0.3631 0.0245 0.6124 265 N 0.1739 0.0228 0.8034 266 P 0.0696 0.1067 0.8237 267 A 0.1778 0.0579 0.7643 268 V 0.6205 0.0187 0.3608 269 S 0.6975 0.0107 0.2918 270 I 0.6980 0.0506 0.2513 271 K 0.5764 0.0726 0.3510 272 D 0.4621 0.0751 0.4628 273 L 0.2057 0.0446 0.7497 274 P 0.0979 0.1252 0.7769 275 Y 0.1348 0.1001 0.7651 276 H 0.0811 0.0492 0.8697 277 P 0.0441 0.1508 0.8051 278 K 0.0501 0.1391 0.8107 279 G 0.1158 0.1299 0.7544 280 L 0.1695 0.1134 0.7171 281 S 0.2294 0.0776 0.6930 282 S 0.2145 0.0581 0.7275 283 T 0.1519 0.0342 0.8138 284 P 0.1508 0.0562 0.7931 285 F 0.2176 0.0806 0.7017 286 D 0.1315 0.0756 0.7930 287 D 0.0382 0.1827 0.7790 288 E 0.0740 0.0807 0.8454 289 G 0.1027 0.0748 0.8224 290 V 0.1195 0.0379 0.8426 291 P 0.1679 0.0386 0.7935 292 T 0.1856 0.0847 0.7297 293 T 0.2177 0.1647 0.6176 294 E 0.3637 0.2039 0.4324 295 K 0.5764 0.1305 0.2931 296 F 0.8122 0.0567 0.1311 297 V 0.8509 0.0522 0.0969 298 L 0.7570 0.0936 0.1494 299 E 0.5143 0.1472 0.3385 300 N 0.0703 0.1152 0.8145 301 G 0.1966 0.0371 0.7663 302 V 0.7712 0.0295 0.1993 303 L 0.8781 0.0283 0.0936 304 K 0.7495 0.0980 0.1525 305 T 0.6350 0.1304 0.2346 306 F 0.5224 0.2281 0.2495 307 L 0.3981 0.2996 0.3023 308 H 0.2181 0.3688 0.4131 309 N 0.1274 0.3162 0.5564 310 L 0.0088 0.8982 0.0930 311 K 0.0066 0.9205 0.0729 312 T 0.0056 0.9393 0.0551 313 A 0.0064 0.9439 0.0497 314 R 0.0077 0.9308 0.0615 315 K 0.0099 0.8953 0.0948 316 E 0.0441 0.4600 0.4959 317 G 0.0385 0.0366 0.9249 318 V 0.0909 0.0121 0.8970 319 E 0.1637 0.0146 0.8217 320 P 0.1906 0.0524 0.7570 321 T 0.2031 0.0590 0.7379 322 G 0.1871 0.1068 0.7061 323 N 0.1843 0.0871 0.7286 324 G 0.1350 0.0935 0.7715 325 F 0.1628 0.0769 0.7603 326 V 0.1251 0.0899 0.7850 327 G 0.0940 0.0937 0.8123 328 G 0.1429 0.0782 0.7789 329 I 0.2118 0.0828 0.7054 330 R 0.2246 0.0543 0.7211 331 P 0.3072 0.0954 0.5975 332 V 0.3841 0.1045 0.5114 333 N 0.5593 0.0798 0.3609 334 L 0.7069 0.0532 0.2399 335 M 0.7690 0.0300 0.2011 336 L 0.6881 0.0230 0.2889 337 M 0.2928 0.0166 0.6906 338 P 0.0772 0.0852 0.8376 339 G 0.0350 0.0491 0.9159 340 E 0.1069 0.0356 0.8574 341 K 0.1232 0.0231 0.8537 342 S 0.1148 0.0233 0.8619 343 F 0.0048 0.9490 0.0462 344 E 0.0047 0.9597 0.0356 345 E 0.0047 0.9584 0.0369 346 L 0.0050 0.9571 0.0380 347 L 0.0050 0.9435 0.0515 348 K 0.0059 0.8678 0.1263 349 E 0.0083 0.7216 0.2701 350 M 0.0742 0.3339 0.5918 351 D 0.0254 0.2822 0.6924 352 R 0.0846 0.1810 0.7344 353 G 0.4643 0.0519 0.4838 354 V 0.8653 0.0071 0.1276 355 V 0.9175 0.0048 0.0777 356 I 0.9093 0.0051 0.0856 357 T 0.7600 0.0393 0.2007 358 E 0.6134 0.0237 0.3629 359 V 0.4940 0.0568 0.4492 360 E 0.3670 0.1021 0.5309 361 G 0.3040 0.1326 0.5634 362 M 0.3362 0.1616 0.5021 363 H 0.3264 0.1426 0.5310 364 A 0.1789 0.1467 0.6744 365 G 0.1630 0.0886 0.7485 366 A 0.3079 0.0979 0.5941 367 N 0.3078 0.0909 0.6013 368 S 0.2513 0.1341 0.6146 369 I 0.2851 0.1278 0.5871 370 S 0.2497 0.0807 0.6695 371 G 0.2422 0.0510 0.7068 372 E 0.4973 0.0409 0.4617 373 F 0.7922 0.0190 0.1888 374 S 0.8367 0.0168 0.1465 375 L 0.8606 0.0144 0.1250 376 F 0.8464 0.0108 0.1428 377 A 0.8027 0.0104 0.1869 378 K 0.7201 0.0190 0.2609 379 G 0.8289 0.0089 0.1622 380 Y 0.9141 0.0040 0.0819 381 W 0.9249 0.0036 0.0714 382 V 0.8911 0.0079 0.1011 383 E 0.7176 0.0252 0.2572 384 N 0.0698 0.0290 0.9012 385 G 0.0950 0.0308 0.8741 386 E 0.8085 0.0086 0.1829 387 I 0.9136 0.0032 0.0832 388 A 0.8056 0.0241 0.1703 389 H 0.6880 0.0176 0.2944 390 G 0.5829 0.0219 0.3952 391 V 0.5381 0.0303 0.4316 392 E 0.4083 0.0698 0.5220 393 D 0.4404 0.0578 0.5018 394 I 0.5854 0.0436 0.3709 395 T 0.7986 0.0369 0.1645 396 I 0.7427 0.0650 0.1923 397 S 0.4666 0.1254 0.4079 398 G 0.1637 0.1049 0.7314 399 N 0.1497 0.1859 0.6644 400 F 0.0071 0.9290 0.0639 401 L 0.0055 0.9530 0.0414 402 D 0.0049 0.9574 0.0376 403 L 0.0051 0.9535 0.0414 404 L 0.0061 0.9382 0.0557 405 R 0.0065 0.8940 0.0995 406 K 0.0104 0.7968 0.1928 407 I 0.0613 0.7580 0.1806 408 V 0.0885 0.7050 0.2065 409 L 0.2357 0.5327 0.2315 410 V 0.2522 0.3807 0.3671 411 G 0.1683 0.2000 0.6317 412 N 0.1016 0.1960 0.7025 413 D 0.1828 0.1800 0.6371 414 V 0.4384 0.1167 0.4449 415 K 0.6380 0.0559 0.3061 416 V 0.6399 0.0531 0.3070 417 S 0.3584 0.0539 0.5877 418 Q 0.1164 0.1094 0.7741 419 H 0.1153 0.1005 0.7841 420 T 0.3231 0.0678 0.6091 421 I 0.3825 0.0357 0.5818 422 A 0.2927 0.0280 0.6792 423 P 0.3273 0.0566 0.6161 424 S 0.5871 0.0536 0.3593 425 V 0.8306 0.0152 0.1542 426 L 0.8664 0.0095 0.1241 427 V 0.8209 0.0102 0.1688 428 E 0.6686 0.0598 0.2716 429 V 0.7421 0.0184 0.2395 430 L 0.8381 0.0089 0.1530 431 D 0.8754 0.0108 0.1139 432 V 0.7856 0.0201 0.1942 433 A 0.3208 0.0425 0.6367 434 G 0.1375 0.0271 0.8354 435 K 0.0859 0.0271 0.8870