# This file is the result of combining several RDB files, specifically # T0220.t04.dssp-ebghstl.rdb (weight 1.53986) # T0220.t04.stride-ebghtl.rdb (weight 1.24869) # T0220.t04.str2.rdb (weight 1.54758) # T0220.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 T0220.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0220 # 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 T0220.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 864 # # ============================================ # Comments from T0220.t04.stride-ebghtl.rdb # ============================================ # TARGET T0220 # 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 T0220.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 864 # # ============================================ # Comments from T0220.t04.str2.rdb # ============================================ # TARGET T0220 # 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 T0220.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 864 # # ============================================ # Comments from T0220.t04.alpha.rdb # ============================================ # TARGET T0220 # 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 T0220.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 864 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1450 0.0219 0.8331 2 E 0.3463 0.0275 0.6262 3 T 0.5913 0.0243 0.3844 4 L 0.7789 0.0228 0.1983 5 I 0.7796 0.0152 0.2052 6 L 0.5727 0.0155 0.4118 7 T 0.1707 0.0108 0.8185 8 Q 0.0055 0.9343 0.0602 9 E 0.0049 0.9506 0.0445 10 E 0.0053 0.9507 0.0439 11 V 0.0061 0.9468 0.0471 12 E 0.0070 0.9343 0.0587 13 S 0.0082 0.8676 0.1243 14 L 0.0192 0.7360 0.2448 15 I 0.0793 0.3637 0.5570 16 S 0.0634 0.1678 0.7688 17 M 0.0105 0.7828 0.2067 18 D 0.0068 0.8629 0.1303 19 E 0.0071 0.8536 0.1393 20 A 0.0099 0.8299 0.1602 21 M 0.0083 0.8728 0.1190 22 N 0.0052 0.9244 0.0704 23 A 0.0051 0.9383 0.0566 24 V 0.0051 0.9451 0.0498 25 E 0.0047 0.9536 0.0417 26 E 0.0047 0.9540 0.0412 27 A 0.0050 0.9501 0.0448 28 F 0.0053 0.9418 0.0529 29 R 0.0078 0.9275 0.0648 30 L 0.0116 0.9066 0.0817 31 Y 0.0256 0.8145 0.1599 32 A 0.0387 0.6501 0.3113 33 L 0.0508 0.3488 0.6004 34 G 0.0458 0.1781 0.7761 35 K 0.1094 0.2044 0.6862 36 A 0.2648 0.1755 0.5598 37 Q 0.2760 0.0836 0.6404 38 M 0.2330 0.0347 0.7323 39 P 0.1377 0.0222 0.8402 40 P 0.1411 0.2914 0.5675 41 K 0.2791 0.3074 0.4135 42 V 0.4739 0.2816 0.2445 43 Y 0.5957 0.1676 0.2367 44 L 0.5978 0.1180 0.2843 45 E 0.4793 0.1189 0.4018 46 F 0.2223 0.1644 0.6133 47 E 0.1308 0.2077 0.6615 48 K 0.0665 0.1995 0.7340 49 G 0.0729 0.1446 0.7824 50 D 0.2537 0.1558 0.5905 51 L 0.5146 0.1556 0.3298 52 R 0.4738 0.1557 0.3706 53 A 0.4070 0.1590 0.4340 54 M 0.2620 0.1470 0.5910 55 P 0.1480 0.3590 0.4930 56 A 0.0985 0.4981 0.4034 57 H 0.1298 0.5150 0.3552 58 L 0.1253 0.4921 0.3826 59 M 0.0754 0.4218 0.5028 60 G 0.1063 0.3370 0.5566 61 Y 0.2619 0.2903 0.4478 62 A 0.3004 0.1841 0.5156 63 G 0.4291 0.1006 0.4703 64 L 0.6818 0.0426 0.2756 65 K 0.7650 0.0454 0.1896 66 W 0.7730 0.0293 0.1977 67 V 0.6334 0.0511 0.3155 68 N 0.5249 0.0435 0.4316 69 S 0.3342 0.0465 0.6193 70 H 0.1585 0.0302 0.8114 71 P 0.0686 0.0866 0.8448 72 G 0.0748 0.0571 0.8681 73 N 0.1018 0.0303 0.8679 74 P 0.0356 0.1741 0.7903 75 D 0.0440 0.1877 0.7683 76 K 0.0874 0.1425 0.7701 77 G 0.0835 0.0794 0.8371 78 L 0.1170 0.1553 0.7277 79 P 0.1091 0.3828 0.5082 80 T 0.1586 0.5101 0.3313 81 V 0.2028 0.6182 0.1790 82 M 0.1931 0.6589 0.1480 83 A 0.2030 0.6640 0.1329 84 L 0.2383 0.6564 0.1053 85 M 0.2900 0.6101 0.0998 86 I 0.2962 0.5585 0.1453 87 L 0.2406 0.5047 0.2547 88 N 0.1709 0.2650 0.5641 89 S 0.1243 0.0486 0.8271 90 P 0.0182 0.2926 0.6892 91 E 0.0313 0.2932 0.6755 92 T 0.0733 0.2105 0.7162 93 G 0.0718 0.0419 0.8863 94 F 0.1962 0.0156 0.7882 95 P 0.4437 0.0128 0.5435 96 L 0.5100 0.0229 0.4671 97 A 0.6242 0.0221 0.3537 98 V 0.6727 0.0399 0.2874 99 M 0.5788 0.0474 0.3737 100 D 0.3480 0.0433 0.6086 101 A 0.1602 0.1871 0.6527 102 T 0.1546 0.2124 0.6330 103 Y 0.2628 0.2167 0.5205 104 T 0.3381 0.2146 0.4473 105 T 0.3301 0.2458 0.4241 106 S 0.2681 0.3266 0.4053 107 L 0.1995 0.4011 0.3994 108 R 0.1675 0.4536 0.3790 109 T 0.1283 0.6070 0.2647 110 G 0.0756 0.7374 0.1870 111 A 0.0396 0.8652 0.0952 112 A 0.0176 0.9184 0.0639 113 G 0.0142 0.9247 0.0611 114 G 0.0129 0.9337 0.0534 115 I 0.0110 0.9350 0.0540 116 A 0.0093 0.9338 0.0569 117 A 0.0124 0.9155 0.0722 118 K 0.0142 0.8704 0.1154 119 Y 0.0200 0.8100 0.1700 120 L 0.0434 0.6813 0.2753 121 A 0.0737 0.4841 0.4423 122 R 0.0727 0.2719 0.6553 123 K 0.0456 0.2377 0.7167 124 N 0.0493 0.1128 0.8379 125 S 0.0736 0.0500 0.8764 126 S 0.2829 0.0215 0.6956 127 V 0.8612 0.0047 0.1341 128 F 0.9297 0.0034 0.0668 129 G 0.9327 0.0033 0.0640 130 F 0.9302 0.0032 0.0667 131 I 0.8234 0.0295 0.1471 132 G 0.3196 0.0191 0.6613 133 C 0.0910 0.0865 0.8225 134 G 0.0386 0.2698 0.6916 135 T 0.0129 0.8674 0.1197 136 Q 0.0060 0.9405 0.0535 137 A 0.0047 0.9580 0.0373 138 Y 0.0047 0.9603 0.0350 139 F 0.0046 0.9589 0.0364 140 Q 0.0047 0.9578 0.0375 141 L 0.0047 0.9607 0.0346 142 E 0.0046 0.9612 0.0342 143 A 0.0047 0.9577 0.0376 144 L 0.0049 0.9464 0.0487 145 R 0.0050 0.9125 0.0825 146 R 0.0072 0.8016 0.1912 147 V 0.0221 0.5316 0.4464 148 F 0.0735 0.1606 0.7659 149 D 0.0864 0.0444 0.8692 150 I 0.1373 0.1642 0.6984 151 G 0.1730 0.1395 0.6875 152 E 0.8004 0.0446 0.1551 153 V 0.9221 0.0036 0.0744 154 K 0.9265 0.0040 0.0695 155 A 0.9177 0.0038 0.0785 156 Y 0.7760 0.0330 0.1910 157 D 0.4212 0.0112 0.5676 158 V 0.1419 0.0299 0.8282 159 R 0.0792 0.0203 0.9005 160 E 0.0048 0.9304 0.0647 161 K 0.0047 0.9477 0.0476 162 A 0.0047 0.9509 0.0443 163 A 0.0047 0.9576 0.0378 164 K 0.0047 0.9591 0.0362 165 K 0.0048 0.9564 0.0388 166 F 0.0050 0.9485 0.0465 167 V 0.0049 0.9450 0.0501 168 S 0.0051 0.9182 0.0766 169 Y 0.0066 0.8901 0.1033 170 C 0.0194 0.5371 0.4435 171 E 0.0077 0.4828 0.5095 172 D 0.0093 0.3646 0.6262 173 R 0.0649 0.2351 0.7000 174 G 0.1325 0.0256 0.8419 175 I 0.3794 0.0138 0.6068 176 S 0.7795 0.0145 0.2060 177 A 0.8053 0.0101 0.1846 178 S 0.7080 0.0146 0.2774 179 V 0.4363 0.0183 0.5454 180 Q 0.1314 0.0115 0.8572 181 P 0.0246 0.7487 0.2267 182 A 0.0067 0.8676 0.1257 183 E 0.0074 0.8853 0.1073 184 E 0.0135 0.8369 0.1495 185 A 0.0348 0.7498 0.2154 186 S 0.0169 0.6104 0.3727 187 R 0.0360 0.2107 0.7533 188 C 0.1500 0.0303 0.8197 189 D 0.1562 0.0442 0.7995 190 V 0.9077 0.0037 0.0887 191 L 0.9323 0.0032 0.0645 192 V 0.9301 0.0036 0.0662 193 T 0.8831 0.0052 0.1116 194 T 0.4842 0.0137 0.5021 195 T 0.1793 0.0169 0.8038 196 P 0.0676 0.0926 0.8398 197 S 0.0546 0.0855 0.8599 198 R 0.0500 0.0953 0.8547 199 K 0.0891 0.0607 0.8502 200 P 0.1551 0.0939 0.7510 201 V 0.3021 0.0937 0.6041 202 V 0.3936 0.0439 0.5625 203 K 0.2284 0.0388 0.7328 204 A 0.0099 0.8558 0.1343 205 E 0.0156 0.8161 0.1683 206 W 0.0265 0.7482 0.2253 207 V 0.1316 0.2274 0.6410 208 E 0.0741 0.0812 0.8448 209 E 0.0256 0.0996 0.8748 210 G 0.0337 0.0359 0.9304 211 T 0.3629 0.0116 0.6256 212 H 0.8672 0.0036 0.1292 213 I 0.9219 0.0042 0.0740 214 N 0.9169 0.0051 0.0780 215 A 0.8596 0.0087 0.1317 216 I 0.6022 0.0313 0.3665 217 G 0.2668 0.0608 0.6723 218 A 0.1580 0.0759 0.7661 219 D 0.1136 0.0716 0.8148 220 G 0.0731 0.0352 0.8917 221 P 0.0576 0.1093 0.8332 222 G 0.0567 0.1400 0.8033 223 K 0.0893 0.1864 0.7243 224 Q 0.1162 0.2804 0.6034 225 E 0.1592 0.3189 0.5219 226 L 0.1681 0.2669 0.5650 227 D 0.1336 0.2511 0.6153 228 V 0.0085 0.9252 0.0662 229 E 0.0092 0.9318 0.0590 230 I 0.0105 0.9216 0.0680 231 L 0.0222 0.8673 0.1105 232 K 0.0191 0.6939 0.2870 233 K 0.0217 0.3481 0.6302 234 A 0.1351 0.1795 0.6854 235 K 0.5021 0.0685 0.4294 236 I 0.8080 0.0288 0.1632 237 V 0.8387 0.0385 0.1227 238 V 0.7220 0.0586 0.2194 239 D 0.3560 0.0946 0.5495 240 D 0.1501 0.1747 0.6752 241 L 0.0429 0.7176 0.2394 242 E 0.0266 0.8036 0.1698 243 Q 0.0424 0.8149 0.1426 244 A 0.0742 0.7646 0.1612 245 K 0.0449 0.7242 0.2309 246 H 0.0369 0.6139 0.3492 247 G 0.0469 0.4308 0.5222 248 G 0.0337 0.4269 0.5395 249 E 0.0695 0.6615 0.2690 250 I 0.0519 0.8422 0.1059 251 N 0.0381 0.8807 0.0812 252 V 0.0212 0.9206 0.0583 253 A 0.0196 0.9238 0.0566 254 V 0.0165 0.9183 0.0652 255 S 0.0174 0.8758 0.1068 256 K 0.0461 0.5567 0.3973 257 G 0.0380 0.2074 0.7545 258 V 0.0874 0.1263 0.7863 259 I 0.1157 0.0901 0.7942 260 G 0.0825 0.0563 0.8612 261 V 0.0198 0.7952 0.1849 262 E 0.0084 0.9025 0.0891 263 D 0.0099 0.9229 0.0672 264 V 0.0091 0.9355 0.0554 265 H 0.0083 0.9379 0.0538 266 A 0.0076 0.9365 0.0559 267 T 0.0071 0.9322 0.0607 268 I 0.0049 0.9492 0.0458 269 G 0.0052 0.9551 0.0398 270 E 0.0055 0.9557 0.0388 271 V 0.0066 0.9514 0.0420 272 I 0.0100 0.9299 0.0601 273 A 0.0186 0.8210 0.1604 274 G 0.0229 0.5734 0.4037 275 L 0.0641 0.4391 0.4968 276 K 0.0870 0.3588 0.5541 277 D 0.0752 0.2682 0.6566 278 G 0.0739 0.1913 0.7349 279 R 0.1487 0.1289 0.7224 280 E 0.1841 0.1054 0.7105 281 S 0.1540 0.0848 0.7613 282 D 0.0982 0.2103 0.6915 283 E 0.1159 0.3270 0.5571 284 E 0.2883 0.3350 0.3767 285 I 0.5471 0.2003 0.2526 286 T 0.6341 0.1588 0.2072 287 I 0.6231 0.2057 0.1712 288 F 0.4540 0.2846 0.2614 289 D 0.2615 0.2901 0.4485 290 S 0.1616 0.4020 0.4364 291 T 0.1853 0.4041 0.4106 292 G 0.2186 0.4124 0.3690 293 L 0.1954 0.5317 0.2729 294 A 0.1203 0.7117 0.1680 295 I 0.0268 0.9106 0.0626 296 Q 0.0183 0.9140 0.0676 297 D 0.0104 0.9346 0.0550 298 V 0.0051 0.9577 0.0373 299 A 0.0047 0.9600 0.0353 300 V 0.0047 0.9603 0.0350 301 A 0.0047 0.9609 0.0344 302 K 0.0046 0.9616 0.0337 303 V 0.0046 0.9612 0.0342 304 V 0.0047 0.9598 0.0355 305 Y 0.0047 0.9594 0.0359 306 E 0.0048 0.9565 0.0387 307 N 0.0048 0.9476 0.0476 308 A 0.0049 0.9239 0.0712 309 L 0.0071 0.8427 0.1502 310 S 0.0088 0.7366 0.2546 311 K 0.0415 0.4552 0.5032 312 N 0.0362 0.1814 0.7824 313 V 0.0565 0.3020 0.6415 314 G 0.0710 0.2569 0.6721 315 S 0.2680 0.1931 0.5389 316 K 0.4636 0.1937 0.3426 317 I 0.4612 0.2771 0.2617 318 K 0.3183 0.3530 0.3286 319 F 0.3652 0.2959 0.3389 320 F 0.4029 0.1100 0.4871 321 R 0.2834 0.0599 0.6567 322 I 0.1352 0.0564 0.8083