# This file is the result of combining several RDB files, specifically # T0372.t06.dssp-ebghstl.rdb (weight 1.53986) # T0372.t06.stride-ebghtl.rdb (weight 1.24869) # T0372.t06.str2.rdb (weight 1.54758) # T0372.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 T0372.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0372 # 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 T0372.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 112 # # ============================================ # Comments from T0372.t06.stride-ebghtl.rdb # ============================================ # TARGET T0372 # 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 T0372.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 112 # # ============================================ # Comments from T0372.t06.str2.rdb # ============================================ # TARGET T0372 # 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 T0372.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 112 # # ============================================ # Comments from T0372.t06.alpha.rdb # ============================================ # TARGET T0372 # 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 T0372.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 112 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0667 0.0393 0.8940 2 I 0.0934 0.0288 0.8778 3 P 0.1162 0.0677 0.8162 4 F 0.1343 0.0902 0.7756 5 K 0.1636 0.0892 0.7472 6 D 0.1849 0.0553 0.7597 7 I 0.1954 0.0247 0.7799 8 T 0.2073 0.0241 0.7685 9 L 0.0703 0.4154 0.5143 10 A 0.0361 0.3411 0.6227 11 D 0.0470 0.3207 0.6322 12 R 0.0103 0.8691 0.1207 13 D 0.0078 0.9000 0.0922 14 T 0.0082 0.9257 0.0662 15 I 0.0141 0.9281 0.0578 16 T 0.0128 0.9287 0.0585 17 A 0.0174 0.9249 0.0577 18 F 0.0205 0.9088 0.0706 19 T 0.0387 0.8604 0.1009 20 M 0.0417 0.7944 0.1638 21 K 0.0415 0.6747 0.2838 22 S 0.0646 0.3927 0.5428 23 D 0.0523 0.1696 0.7781 24 R 0.0591 0.1688 0.7721 25 R 0.0905 0.1856 0.7238 26 N 0.0964 0.2119 0.6918 27 C 0.1090 0.2410 0.6500 28 D 0.0998 0.4337 0.4665 29 L 0.0695 0.6360 0.2944 30 S 0.0784 0.6915 0.2302 31 F 0.0607 0.8139 0.1255 32 S 0.0666 0.8152 0.1183 33 N 0.0798 0.7920 0.1282 34 L 0.0846 0.7841 0.1314 35 C 0.1304 0.7017 0.1679 36 S 0.1653 0.6143 0.2203 37 W 0.1888 0.5596 0.2516 38 R 0.1871 0.4633 0.3496 39 F 0.1584 0.3158 0.5258 40 L 0.1757 0.1539 0.6704 41 Y 0.1446 0.0977 0.7576 42 D 0.1836 0.0633 0.7530 43 T 0.5792 0.0351 0.3857 44 Q 0.8334 0.0128 0.1538 45 F 0.8990 0.0078 0.0933 46 A 0.8992 0.0065 0.0943 47 V 0.8660 0.0071 0.1269 48 I 0.6443 0.0408 0.3149 49 D 0.1501 0.0489 0.8011 50 D 0.1147 0.0576 0.8278 51 F 0.7027 0.0135 0.2838 52 L 0.9102 0.0034 0.0864 53 V 0.9242 0.0036 0.0721 54 F 0.9268 0.0034 0.0697 55 K 0.9081 0.0109 0.0810 56 F 0.9076 0.0060 0.0863 57 W 0.8616 0.0140 0.1243 58 A 0.6788 0.0340 0.2872 59 G 0.2110 0.0535 0.7355 60 E 0.2127 0.0637 0.7236 61 Q 0.6386 0.0328 0.3286 62 L 0.8274 0.0178 0.1548 63 A 0.8635 0.0196 0.1169 64 Y 0.8095 0.0287 0.1618 65 M 0.6006 0.0319 0.3675 66 M 0.2996 0.0398 0.6607 67 P 0.1709 0.0644 0.7647 68 V 0.1416 0.0943 0.7641 69 G 0.0867 0.0588 0.8545 70 N 0.0467 0.1005 0.8528 71 G 0.0307 0.2114 0.7579 72 D 0.0480 0.2975 0.6545 73 L 0.0081 0.8450 0.1470 74 K 0.0049 0.9454 0.0497 75 A 0.0047 0.9541 0.0411 76 V 0.0047 0.9556 0.0396 77 L 0.0047 0.9579 0.0374 78 R 0.0047 0.9607 0.0346 79 K 0.0047 0.9596 0.0358 80 L 0.0048 0.9562 0.0390 81 I 0.0047 0.9563 0.0390 82 E 0.0048 0.9471 0.0481 83 D 0.0051 0.9267 0.0682 84 A 0.0064 0.9095 0.0841 85 D 0.0064 0.8737 0.1199 86 K 0.0072 0.7727 0.2201 87 E 0.0394 0.4459 0.5147 88 K 0.0360 0.1221 0.8419 89 H 0.0598 0.0630 0.8773 90 N 0.1595 0.0422 0.7983 91 F 0.5156 0.0319 0.4526 92 C 0.7225 0.0410 0.2365 93 M 0.8499 0.0387 0.1114 94 L 0.7611 0.0651 0.1738 95 G 0.6496 0.0287 0.3218 96 V 0.3818 0.0232 0.5950 97 C 0.1231 0.0317 0.8452 98 S 0.0079 0.7440 0.2481 99 N 0.0065 0.7572 0.2364 100 M 0.0069 0.8483 0.1448 101 R 0.0076 0.8951 0.0973 102 A 0.0075 0.9109 0.0815 103 D 0.0063 0.9182 0.0755 104 L 0.0074 0.9049 0.0876 105 E 0.0080 0.8789 0.1132 106 A 0.0095 0.8138 0.1767 107 I 0.0187 0.6712 0.3101 108 L 0.0736 0.1921 0.7343 109 P 0.0311 0.2971 0.6717 110 E 0.0353 0.4046 0.5601 111 R 0.1367 0.3814 0.4819 112 F 0.3916 0.2721 0.3363 113 I 0.5146 0.2212 0.2641 114 F 0.5495 0.1890 0.2615 115 T 0.3284 0.2920 0.3795 116 E 0.1851 0.3092 0.5058 117 D 0.1404 0.4817 0.3779 118 R 0.1128 0.5626 0.3246 119 A 0.1466 0.5516 0.3018 120 Y 0.1507 0.6057 0.2437 121 A 0.1781 0.5683 0.2536 122 D 0.1217 0.6246 0.2537 123 Y 0.1923 0.5714 0.2364 124 I 0.2017 0.5025 0.2959 125 Y 0.2105 0.3683 0.4212 126 L 0.1501 0.2588 0.5911 127 R 0.0341 0.6069 0.3589 128 S 0.0166 0.6860 0.2974 129 D 0.0286 0.6833 0.2882 130 L 0.0431 0.7129 0.2440 131 A 0.0425 0.6417 0.3158 132 T 0.0599 0.5640 0.3760 133 L 0.0997 0.2227 0.6776 134 K 0.0597 0.2354 0.7048 135 G 0.0374 0.4387 0.5239 136 K 0.0142 0.7882 0.1976 137 K 0.0139 0.8488 0.1372 138 F 0.0124 0.8867 0.1009 139 Q 0.0082 0.9177 0.0741 140 A 0.0121 0.9032 0.0847 141 K 0.0069 0.9313 0.0618 142 R 0.0058 0.9425 0.0517 143 N 0.0057 0.9353 0.0591 144 H 0.0055 0.9378 0.0567 145 I 0.0066 0.9438 0.0496 146 N 0.0066 0.9364 0.0570 147 R 0.0078 0.9260 0.0662 148 F 0.0102 0.9068 0.0830 149 R 0.0188 0.8711 0.1101 150 N 0.0237 0.7397 0.2366 151 T 0.0410 0.4168 0.5422 152 Y 0.0685 0.0245 0.9070 153 P 0.0787 0.0579 0.8633 154 D 0.3660 0.0407 0.5933 155 Y 0.7515 0.0148 0.2337 156 E 0.8523 0.0064 0.1413 157 Y 0.8752 0.0047 0.1202 158 T 0.7774 0.0064 0.2162 159 P 0.5471 0.0069 0.4459 160 I 0.1551 0.0253 0.8196 161 T 0.0738 0.0109 0.9152 162 P 0.0074 0.7700 0.2226 163 D 0.0056 0.8403 0.1541 164 R 0.0058 0.8917 0.1025 165 I 0.0049 0.9330 0.0620 166 Q 0.0049 0.9480 0.0472 167 E 0.0049 0.9450 0.0501 168 C 0.0054 0.9435 0.0511 169 L 0.0054 0.9439 0.0507 170 D 0.0070 0.9280 0.0650 171 L 0.0068 0.9201 0.0731 172 E 0.0086 0.9280 0.0634 173 A 0.0057 0.9378 0.0566 174 E 0.0060 0.9326 0.0614 175 W 0.0080 0.9116 0.0803 176 C 0.0193 0.8543 0.1263 177 K 0.0300 0.7408 0.2291 178 V 0.0417 0.6477 0.3106 179 N 0.0593 0.3992 0.5415 180 N 0.0686 0.2172 0.7142 181 C 0.0801 0.2452 0.6747 182 D 0.0919 0.2864 0.6217 183 Q 0.0824 0.2801 0.6375 184 Q 0.0901 0.2267 0.6832 185 E 0.0935 0.2152 0.6913 186 G 0.1346 0.2000 0.6654 187 T 0.1024 0.2649 0.6327 188 G 0.0661 0.4337 0.5002 189 N 0.0572 0.5265 0.4163 190 E 0.0494 0.6688 0.2818 191 R 0.0590 0.7309 0.2100 192 R 0.0775 0.7348 0.1878 193 A 0.0980 0.7101 0.1919 194 L 0.1120 0.7413 0.1467 195 I 0.1050 0.7724 0.1226 196 Y 0.0829 0.7752 0.1419 197 A 0.0572 0.7861 0.1567 198 L 0.0375 0.7786 0.1839 199 H 0.0328 0.7274 0.2397 200 N 0.0335 0.6876 0.2789 201 F 0.0169 0.7578 0.2252 202 E 0.0133 0.7509 0.2358 203 A 0.0183 0.6985 0.2833 204 L 0.0801 0.3366 0.5833 205 G 0.0956 0.0702 0.8342 206 L 0.2623 0.0758 0.6618 207 T 0.3711 0.0655 0.5634 208 G 0.5727 0.0377 0.3896 209 G 0.8314 0.0138 0.1548 210 I 0.9132 0.0055 0.0813 211 L 0.9008 0.0063 0.0930 212 H 0.8032 0.0094 0.1875 213 V 0.4705 0.0466 0.4829 214 N 0.0480 0.0185 0.9335 215 G 0.0584 0.0290 0.9126 216 K 0.6803 0.0068 0.3129 217 I 0.9149 0.0029 0.0822 218 V 0.8697 0.0177 0.1126 219 A 0.9281 0.0035 0.0684 220 F 0.9312 0.0031 0.0657 221 T 0.9169 0.0040 0.0791 222 F 0.8610 0.0064 0.1326 223 G 0.7198 0.0125 0.2677 224 M 0.6415 0.0132 0.3454 225 P 0.6012 0.0161 0.3826 226 I 0.4027 0.0466 0.5507 227 N 0.2301 0.0377 0.7322 228 H 0.0398 0.1197 0.8405 229 E 0.1137 0.0712 0.8151 230 T 0.7144 0.0172 0.2683 231 F 0.8832 0.0059 0.1109 232 G 0.9277 0.0036 0.0687 233 V 0.9226 0.0041 0.0732 234 H 0.8866 0.0058 0.1075 235 V 0.7519 0.0309 0.2172 236 E 0.6479 0.0768 0.2753 237 K 0.4956 0.1376 0.3668 238 A 0.2916 0.1187 0.5897 239 D 0.1452 0.0331 0.8218 240 T 0.0278 0.1333 0.8389 241 S 0.0454 0.0941 0.8606 242 I 0.0541 0.2095 0.7364 243 D 0.0237 0.4665 0.5098 244 G 0.0288 0.7129 0.2584 245 A 0.0101 0.9245 0.0654 246 Y 0.0053 0.9534 0.0413 247 A 0.0050 0.9586 0.0365 248 M 0.0050 0.9576 0.0375 249 I 0.0049 0.9549 0.0401 250 N 0.0047 0.9557 0.0396 251 Y 0.0047 0.9560 0.0393 252 E 0.0048 0.9547 0.0405 253 F 0.0050 0.9449 0.0501 254 A 0.0051 0.9265 0.0684 255 N 0.0064 0.8468 0.1468 256 R 0.0127 0.6920 0.2953 257 I 0.0625 0.1675 0.7700 258 P 0.0339 0.2703 0.6958 259 E 0.0306 0.2876 0.6818 260 Q 0.0864 0.1845 0.7292 261 Y 0.4524 0.0453 0.5023 262 I 0.6936 0.0381 0.2683 263 Y 0.8515 0.0147 0.1339 264 I 0.7186 0.0244 0.2569 265 N 0.3711 0.0208 0.6081 266 R 0.0547 0.4418 0.5035 267 E 0.0215 0.5845 0.3941 268 E 0.0211 0.6015 0.3774 269 D 0.0468 0.5413 0.4119 270 L 0.0841 0.4127 0.5031 271 G 0.0490 0.2005 0.7504 272 I 0.0550 0.4049 0.5401 273 E 0.0256 0.6589 0.3155 274 G 0.0276 0.6411 0.3313 275 L 0.0251 0.7284 0.2465 276 R 0.0183 0.7008 0.2809 277 K 0.0196 0.5359 0.4445 278 A 0.0663 0.2956 0.6381 279 K 0.0816 0.2153 0.7031 280 L 0.0975 0.1763 0.7262 281 S 0.0924 0.1366 0.7710 282 Y 0.0890 0.1240 0.7870 283 Q 0.0876 0.0694 0.8431 284 P 0.0554 0.2310 0.7136 285 V 0.0431 0.6186 0.3383 286 T 0.0432 0.7871 0.1698 287 I 0.0169 0.9169 0.0661 288 L 0.0203 0.9246 0.0551 289 E 0.0317 0.9145 0.0538 290 K 0.0384 0.9076 0.0540 291 Y 0.0423 0.8920 0.0657 292 M 0.0441 0.8888 0.0672 293 A 0.0420 0.8761 0.0819 294 C 0.0575 0.8404 0.1020 295 L 0.0977 0.7330 0.1694 296 K 0.1093 0.5322 0.3586 297 D 0.0882 0.3649 0.5468 298 H 0.1024 0.1191 0.7785 299 P 0.0466 0.4415 0.5119 300 M 0.0474 0.4990 0.4537 301 D 0.1282 0.4890 0.3828 302 M 0.2670 0.3957 0.3373 303 V 0.3949 0.2416 0.3635 304 R 0.3103 0.1613 0.5283 305 W 0.0909 0.0473 0.8618