# This file is the result of combining several RDB files, specifically # T0189.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0189.t2k.stride-ebghtl.rdb (weight 1.24869) # T0189.t2k.str.rdb (weight 1.53983) # T0189.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 T0189.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0189 # 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 T0189.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 188 # # ============================================ # Comments from T0189.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0189 # 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 T0189.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 188 # # ============================================ # Comments from T0189.t2k.str.rdb # ============================================ # TARGET T0189 # 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 T0189.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 188 # # ============================================ # Comments from T0189.t2k.alpha.rdb # ============================================ # TARGET T0189 # 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 T0189.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 188 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1015 0.0148 0.8837 2 V 0.5928 0.0093 0.3979 3 L 0.8747 0.0053 0.1200 4 T 0.9200 0.0053 0.0747 5 V 0.9206 0.0046 0.0748 6 T 0.7816 0.0268 0.1916 7 L 0.3885 0.0254 0.5860 8 N 0.2181 0.0741 0.7078 9 P 0.3219 0.1170 0.5612 10 A 0.4887 0.1038 0.4074 11 L 0.6649 0.0681 0.2670 12 D 0.7218 0.0489 0.2292 13 R 0.7339 0.0606 0.2055 14 E 0.7603 0.0497 0.1900 15 I 0.6929 0.0494 0.2577 16 F 0.6144 0.0454 0.3402 17 I 0.3896 0.0807 0.5298 18 E 0.1528 0.1384 0.7088 19 D 0.1292 0.0952 0.7756 20 F 0.1653 0.0383 0.7963 21 Q 0.0954 0.0316 0.8731 22 V 0.0500 0.1589 0.7911 23 N 0.0446 0.1519 0.8035 24 R 0.1405 0.1492 0.7103 25 L 0.3623 0.0933 0.5444 26 Y 0.4052 0.0861 0.5087 27 R 0.3663 0.0896 0.5441 28 I 0.2348 0.1782 0.5870 29 N 0.1854 0.2088 0.6058 30 D 0.1631 0.1974 0.6395 31 L 0.1565 0.1677 0.6758 32 S 0.1096 0.1199 0.7705 33 K 0.1685 0.1673 0.6642 34 T 0.2876 0.1729 0.5395 35 Q 0.3633 0.1458 0.4909 36 M 0.4129 0.1345 0.4526 37 S 0.2309 0.0922 0.6769 38 P 0.0789 0.1239 0.7972 39 G 0.0456 0.1163 0.8381 40 G 0.0451 0.2196 0.7353 41 K 0.0232 0.7023 0.2745 42 G 0.0078 0.9001 0.0921 43 I 0.0047 0.9460 0.0493 44 N 0.0044 0.9569 0.0387 45 V 0.0044 0.9596 0.0360 46 S 0.0044 0.9605 0.0351 47 I 0.0044 0.9606 0.0350 48 A 0.0044 0.9611 0.0346 49 L 0.0045 0.9576 0.0379 50 S 0.0049 0.9476 0.0476 51 K 0.0063 0.8982 0.0956 52 L 0.0424 0.3977 0.5598 53 G 0.0396 0.0236 0.9368 54 V 0.0749 0.0189 0.9062 55 P 0.2399 0.0331 0.7270 56 S 0.7573 0.0154 0.2273 57 V 0.8835 0.0181 0.0984 58 A 0.9160 0.0091 0.0749 59 T 0.8761 0.0205 0.1034 60 G 0.7508 0.0225 0.2267 61 F 0.5871 0.0523 0.3606 62 V 0.3413 0.0586 0.6000 63 G 0.1056 0.0650 0.8294 64 G 0.0443 0.1824 0.7733 65 Y 0.0497 0.2673 0.6829 66 M 0.0250 0.5626 0.4124 67 G 0.0140 0.7997 0.1864 68 K 0.0087 0.9243 0.0670 69 I 0.0060 0.9430 0.0510 70 L 0.0064 0.9481 0.0455 71 V 0.0069 0.9509 0.0423 72 E 0.0047 0.9510 0.0443 73 E 0.0046 0.9421 0.0534 74 L 0.0058 0.9198 0.0744 75 R 0.0050 0.8964 0.0986 76 K 0.0074 0.7874 0.2052 77 I 0.0261 0.5665 0.4073 78 S 0.0396 0.2970 0.6634 79 K 0.0486 0.1841 0.7673 80 L 0.0649 0.0943 0.8409 81 I 0.1631 0.0402 0.7967 82 T 0.2105 0.0298 0.7597 83 T 0.2876 0.1280 0.5844 84 N 0.2670 0.1518 0.5812 85 F 0.5206 0.0747 0.4047 86 V 0.7846 0.0123 0.2031 87 Y 0.8427 0.0092 0.1481 88 V 0.7931 0.0131 0.1937 89 E 0.4831 0.0292 0.4878 90 G 0.0910 0.0807 0.8283 91 E 0.0718 0.0581 0.8701 92 T 0.2318 0.0305 0.7376 93 R 0.3299 0.0316 0.6385 94 E 0.5501 0.0169 0.4330 95 N 0.6883 0.0136 0.2982 96 I 0.8617 0.0049 0.1334 97 E 0.9144 0.0040 0.0816 98 I 0.9289 0.0034 0.0678 99 I 0.9244 0.0040 0.0717 100 D 0.9172 0.0039 0.0789 101 E 0.8810 0.0063 0.1127 102 K 0.4695 0.0118 0.5187 103 N 0.0604 0.0857 0.8539 104 K 0.0474 0.0408 0.9118 105 T 0.1008 0.0431 0.8561 106 I 0.5153 0.0144 0.4702 107 T 0.8398 0.0063 0.1538 108 A 0.8681 0.0075 0.1244 109 I 0.8838 0.0064 0.1099 110 N 0.8213 0.0122 0.1665 111 F 0.6629 0.0216 0.3155 112 P 0.3063 0.0489 0.6448 113 G 0.1000 0.0826 0.8174 114 P 0.0603 0.1948 0.7449 115 D 0.0561 0.3182 0.6257 116 V 0.0507 0.4592 0.4901 117 T 0.0287 0.5591 0.4122 118 D 0.0292 0.6001 0.3707 119 M 0.0306 0.5894 0.3800 120 D 0.0420 0.5111 0.4470 121 V 0.0138 0.7758 0.2104 122 N 0.0089 0.8316 0.1595 123 H 0.0081 0.8516 0.1403 124 F 0.0071 0.8586 0.1343 125 L 0.0075 0.8622 0.1303 126 R 0.0079 0.8406 0.1515 127 R 0.0121 0.7841 0.2038 128 Y 0.0175 0.7722 0.2103 129 K 0.0062 0.8837 0.1101 130 M 0.0067 0.8738 0.1196 131 T 0.0065 0.8599 0.1336 132 L 0.0167 0.8163 0.1670 133 S 0.0132 0.6419 0.3448 134 K 0.0211 0.3196 0.6593 135 V 0.1026 0.0540 0.8434 136 D 0.0997 0.0671 0.8332 137 C 0.8991 0.0050 0.0958 138 V 0.9312 0.0036 0.0652 139 V 0.9283 0.0038 0.0679 140 I 0.8751 0.0102 0.1147 141 S 0.5074 0.0430 0.4496 142 G 0.1547 0.0741 0.7712 143 S 0.1701 0.1017 0.7282 144 I 0.1385 0.1241 0.7374 145 P 0.0727 0.1500 0.7773 146 P 0.0374 0.1816 0.7810 147 G 0.0453 0.1318 0.8229 148 V 0.0673 0.0817 0.8510 149 N 0.0608 0.0905 0.8487 150 E 0.0073 0.8614 0.1313 151 G 0.0051 0.9253 0.0696 152 I 0.0046 0.9443 0.0511 153 C 0.0044 0.9571 0.0385 154 N 0.0044 0.9596 0.0360 155 E 0.0043 0.9595 0.0361 156 L 0.0044 0.9593 0.0363 157 V 0.0044 0.9594 0.0362 158 R 0.0044 0.9591 0.0365 159 L 0.0044 0.9581 0.0375 160 A 0.0045 0.9555 0.0401 161 R 0.0049 0.9402 0.0549 162 E 0.0059 0.8859 0.1082 163 R 0.0454 0.2833 0.6712 164 G 0.0415 0.0147 0.9438 165 V 0.1174 0.0083 0.8743 166 F 0.6718 0.0048 0.3233 167 V 0.8791 0.0041 0.1168 168 F 0.8894 0.0042 0.1063 169 V 0.8378 0.0069 0.1553 170 E 0.4520 0.0123 0.5357 171 Q 0.0462 0.1015 0.8523 172 T 0.0501 0.0848 0.8651 173 P 0.0296 0.2195 0.7509 174 R 0.0461 0.3529 0.6010 175 L 0.0383 0.5337 0.4280 176 L 0.0308 0.6054 0.3639 177 E 0.0286 0.6621 0.3093 178 R 0.0314 0.6738 0.2948 179 I 0.0206 0.7549 0.2245 180 Y 0.0125 0.8230 0.1645 181 E 0.0098 0.8188 0.1714 182 G 0.0102 0.8199 0.1699 183 P 0.0242 0.7161 0.2597 184 E 0.0180 0.5235 0.4585 185 F 0.0407 0.3097 0.6496 186 P 0.1060 0.0741 0.8199 187 N 0.1076 0.0896 0.8028 188 V 0.7993 0.0290 0.1716 189 V 0.8596 0.0190 0.1215 190 K 0.7980 0.0256 0.1765 191 P 0.3933 0.0679 0.5389 192 D 0.1489 0.0544 0.7967 193 L 0.0142 0.7421 0.2437 194 R 0.0071 0.9105 0.0824 195 G 0.0076 0.9420 0.0504 196 N 0.0060 0.9481 0.0460 197 H 0.0053 0.9506 0.0441 198 A 0.0051 0.9453 0.0497 199 S 0.0064 0.9306 0.0630 200 F 0.0101 0.8869 0.1030 201 L 0.0468 0.5829 0.3703 202 G 0.0312 0.1038 0.8650 203 V 0.0585 0.0566 0.8849 204 D 0.0914 0.0869 0.8217 205 L 0.0835 0.1130 0.8034 206 K 0.0567 0.0905 0.8528 207 T 0.0643 0.0810 0.8547 208 F 0.0134 0.6804 0.3062 209 D 0.0099 0.7338 0.2562 210 D 0.0132 0.7946 0.1922 211 Y 0.0045 0.9282 0.0673 212 V 0.0045 0.9441 0.0514 213 K 0.0044 0.9491 0.0465 214 L 0.0044 0.9503 0.0452 215 A 0.0044 0.9516 0.0440 216 E 0.0045 0.9483 0.0473 217 K 0.0047 0.9399 0.0555 218 L 0.0051 0.9251 0.0699 219 A 0.0060 0.8551 0.1389 220 E 0.0091 0.6894 0.3015 221 K 0.0451 0.3094 0.6455 222 S 0.0593 0.0343 0.9064 223 Q 0.0870 0.0477 0.8653 224 V 0.7507 0.0061 0.2432 225 S 0.9143 0.0037 0.0821 226 V 0.9269 0.0035 0.0696 227 V 0.9162 0.0043 0.0795 228 S 0.8514 0.0076 0.1410 229 Y 0.5571 0.0237 0.4192 230 E 0.1451 0.0523 0.8026 231 V 0.0476 0.1642 0.7882 232 K 0.0679 0.0986 0.8334 233 N 0.2890 0.0459 0.6651 234 D 0.7228 0.0115 0.2656 235 I 0.9018 0.0049 0.0933 236 V 0.9148 0.0054 0.0798 237 A 0.8974 0.0077 0.0948 238 T 0.6479 0.0120 0.3401 239 R 0.0561 0.1004 0.8436 240 E 0.0530 0.0409 0.9061 241 G 0.2769 0.0384 0.6847 242 V 0.7098 0.0089 0.2814 243 W 0.8663 0.0060 0.1278 244 L 0.8522 0.0079 0.1399 245 I 0.7303 0.0100 0.2598 246 R 0.4115 0.0202 0.5682 247 S 0.3110 0.0349 0.6540 248 K 0.2576 0.0308 0.7116 249 E 0.2209 0.0245 0.7546 250 E 0.3433 0.0275 0.6292 251 I 0.5059 0.0244 0.4697 252 D 0.6936 0.0234 0.2831 253 T 0.7519 0.0293 0.2188 254 S 0.7008 0.0387 0.2605 255 H 0.5396 0.0399 0.4204 256 L 0.2827 0.1466 0.5707 257 L 0.1719 0.1346 0.6936 258 G 0.0835 0.1996 0.7169 259 A 0.0335 0.4855 0.4810 260 G 0.0172 0.6990 0.2837 261 D 0.0065 0.9051 0.0884 262 A 0.0048 0.9465 0.0487 263 Y 0.0044 0.9560 0.0395 264 V 0.0044 0.9575 0.0381 265 A 0.0044 0.9575 0.0380 266 G 0.0044 0.9596 0.0360 267 M 0.0044 0.9597 0.0358 268 V 0.0048 0.9553 0.0398 269 Y 0.0056 0.9508 0.0436 270 Y 0.0059 0.9377 0.0564 271 F 0.0094 0.8750 0.1156 272 I 0.0178 0.7409 0.2413 273 K 0.0245 0.4312 0.5443 274 H 0.0412 0.1487 0.8102 275 G 0.0385 0.0368 0.9247 276 A 0.0891 0.0208 0.8901 277 N 0.1398 0.0241 0.8361 278 F 0.0060 0.9155 0.0785 279 L 0.0047 0.9461 0.0492 280 E 0.0045 0.9506 0.0448 281 M 0.0047 0.9526 0.0426 282 A 0.0047 0.9519 0.0434 283 K 0.0048 0.9506 0.0446 284 F 0.0051 0.9461 0.0489 285 G 0.0055 0.9442 0.0502 286 F 0.0064 0.9455 0.0481 287 A 0.0069 0.9441 0.0490 288 S 0.0101 0.9395 0.0503 289 A 0.0151 0.9264 0.0585 290 L 0.0229 0.9157 0.0614 291 A 0.0404 0.8841 0.0755 292 A 0.0874 0.8073 0.1053 293 T 0.1684 0.6583 0.1733 294 R 0.1945 0.4948 0.3107 295 R 0.1612 0.2775 0.5613 296 K 0.0625 0.2094 0.7282 297 E 0.0504 0.0911 0.8586 298 K 0.1090 0.0707 0.8204 299 Y 0.1411 0.0560 0.8029 300 M 0.1341 0.0239 0.8420 301 P 0.0914 0.0306 0.8780 302 D 0.0887 0.0220 0.8893 303 L 0.0053 0.9032 0.0915 304 E 0.0047 0.9322 0.0631 305 A 0.0048 0.9395 0.0557 306 I 0.0045 0.9463 0.0491 307 K 0.0054 0.9379 0.0567 308 K 0.0056 0.9003 0.0941 309 E 0.0074 0.8452 0.1474 310 Y 0.0155 0.7682 0.2163 311 D 0.0180 0.6090 0.3730 312 H 0.0454 0.3949 0.5597 313 F 0.3230 0.0909 0.5862 314 T 0.5973 0.0525 0.3502 315 V 0.7404 0.0472 0.2125 316 E 0.7366 0.0391 0.2244 317 R 0.7136 0.0174 0.2690 318 V 0.4066 0.0177 0.5756 319 K 0.0598 0.0294 0.9109