# This file is the result of combining several RDB files, specifically # YGR207C.t2k.dssp-ebghstl.rdb (weight 1.53986) # YGR207C.t2k.stride-ebghtl.rdb (weight 1.24869) # YGR207C.t2k.str2.rdb (weight 1.54758) # YGR207C.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 YGR207C.t2k.dssp-ebghstl.rdb # ============================================ # TARGET YGR207C # 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 YGR207C.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 124 # # ============================================ # Comments from YGR207C.t2k.stride-ebghtl.rdb # ============================================ # TARGET YGR207C # 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 YGR207C.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 124 # # ============================================ # Comments from YGR207C.t2k.str2.rdb # ============================================ # TARGET YGR207C # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str2-from-empty.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment YGR207C.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 124 # # ============================================ # Comments from YGR207C.t2k.alpha.rdb # ============================================ # TARGET YGR207C # 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 YGR207C.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 124 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0614 0.0485 0.8901 2 S 0.1027 0.0967 0.8006 3 A 0.0741 0.2619 0.6641 4 K 0.0694 0.2438 0.6868 5 Q 0.1404 0.1806 0.6790 6 Q 0.3695 0.1173 0.5132 7 L 0.4719 0.0271 0.5010 8 R 0.6580 0.0126 0.3294 9 I 0.9154 0.0044 0.0802 10 L 0.9234 0.0044 0.0721 11 V 0.9237 0.0038 0.0725 12 P 0.9085 0.0055 0.0860 13 V 0.8116 0.0117 0.1767 14 K 0.7071 0.0160 0.2769 15 R 0.7066 0.0161 0.2773 16 V 0.5529 0.0158 0.4313 17 V 0.3906 0.0305 0.5789 18 D 0.1500 0.0370 0.8131 19 F 0.0475 0.2028 0.7497 20 Q 0.0760 0.1891 0.7348 21 I 0.2335 0.1392 0.6273 22 K 0.4307 0.0378 0.5315 23 P 0.7529 0.0087 0.2384 24 R 0.8409 0.0068 0.1522 25 V 0.8429 0.0074 0.1497 26 N 0.4584 0.0153 0.5264 27 K 0.0524 0.1099 0.8377 28 T 0.0371 0.0625 0.9004 29 L 0.0780 0.0400 0.8819 30 T 0.1570 0.0302 0.8127 31 G 0.6308 0.0184 0.3508 32 I 0.8129 0.0229 0.1642 33 E 0.6942 0.0572 0.2485 34 T 0.4252 0.1788 0.3959 35 S 0.1084 0.2165 0.6751 36 G 0.0810 0.0725 0.8466 37 I 0.1853 0.0211 0.7936 38 K 0.3329 0.0459 0.6212 39 F 0.5335 0.0716 0.3949 40 S 0.4859 0.0799 0.4342 41 I 0.2987 0.0435 0.6578 42 N 0.1038 0.0269 0.8693 43 P 0.0075 0.8027 0.1898 44 F 0.0097 0.8526 0.1376 45 D 0.0140 0.9079 0.0781 46 D 0.0048 0.9543 0.0408 47 I 0.0050 0.9550 0.0400 48 A 0.0049 0.9569 0.0382 49 V 0.0047 0.9596 0.0357 50 E 0.0047 0.9590 0.0362 51 E 0.0047 0.9559 0.0394 52 A 0.0048 0.9537 0.0415 53 I 0.0061 0.9424 0.0516 54 R 0.0063 0.9232 0.0705 55 I 0.0081 0.9004 0.0915 56 K 0.0100 0.8988 0.0912 57 E 0.0125 0.8566 0.1309 58 K 0.0153 0.7295 0.2552 59 N 0.0459 0.3415 0.6126 60 K 0.0444 0.0436 0.9120 61 S 0.0519 0.0514 0.8967 62 L 0.1452 0.0672 0.7876 63 V 0.3105 0.0529 0.6366 64 E 0.5032 0.0388 0.4580 65 S 0.7781 0.0079 0.2140 66 T 0.8599 0.0044 0.1357 67 H 0.9086 0.0053 0.0861 68 A 0.9277 0.0041 0.0681 69 V 0.9195 0.0053 0.0752 70 S 0.8881 0.0086 0.1033 71 I 0.5960 0.0272 0.3767 72 G 0.1409 0.0150 0.8441 73 S 0.0545 0.1759 0.7697 74 A 0.0090 0.8362 0.1549 75 K 0.0081 0.8712 0.1207 76 A 0.0063 0.9190 0.0746 77 Q 0.0059 0.9427 0.0515 78 D 0.0049 0.9509 0.0442 79 I 0.0049 0.9525 0.0427 80 L 0.0048 0.9533 0.0419 81 R 0.0047 0.9576 0.0377 82 N 0.0047 0.9571 0.0382 83 C 0.0050 0.9532 0.0418 84 L 0.0057 0.9394 0.0549 85 A 0.0062 0.8489 0.1449 86 K 0.0387 0.3393 0.6220 87 G 0.0473 0.0367 0.9160 88 I 0.0795 0.0169 0.9035 89 D 0.0694 0.0398 0.8908 90 T 0.8075 0.0117 0.1808 91 C 0.9176 0.0043 0.0781 92 S 0.9220 0.0040 0.0740 93 L 0.9179 0.0036 0.0784 94 I 0.7162 0.0130 0.2709 95 D 0.3139 0.0211 0.6649 96 S 0.1318 0.0428 0.8254 97 V 0.0201 0.5376 0.4424 98 G 0.0164 0.6003 0.3833 99 K 0.0228 0.6653 0.3119 100 E 0.0250 0.3645 0.6105 101 N 0.0338 0.1541 0.8121 102 I 0.0530 0.0986 0.8484 103 E 0.0688 0.0843 0.8468 104 P 0.0061 0.9020 0.0919 105 L 0.0048 0.9523 0.0429 106 A 0.0047 0.9587 0.0367 107 I 0.0047 0.9594 0.0359 108 A 0.0047 0.9597 0.0357 109 K 0.0047 0.9604 0.0349 110 I 0.0046 0.9612 0.0341 111 L 0.0047 0.9600 0.0353 112 K 0.0047 0.9579 0.0374 113 A 0.0047 0.9528 0.0424 114 V 0.0048 0.9452 0.0500 115 V 0.0053 0.9260 0.0687 116 E 0.0057 0.8929 0.1015 117 K 0.0086 0.7609 0.2306 118 K 0.0526 0.5055 0.4419 119 G 0.0628 0.0354 0.9018 120 S 0.1034 0.0103 0.8864 121 N 0.1697 0.0416 0.7887 122 L 0.9189 0.0038 0.0773 123 V 0.9324 0.0032 0.0644 124 L 0.9261 0.0035 0.0704 125 M 0.8507 0.0098 0.1395 126 G 0.4572 0.0198 0.5230 127 K 0.2100 0.1077 0.6823 128 Q 0.3329 0.1580 0.5092 129 A 0.3648 0.1248 0.5104 130 I 0.2502 0.1190 0.6307 131 D 0.1208 0.1160 0.7632 132 D 0.0176 0.2222 0.7602 133 D 0.0215 0.2169 0.7617 134 C 0.0502 0.2822 0.6675 135 N 0.0379 0.3459 0.6162 136 N 0.0776 0.5259 0.3965 137 T 0.0630 0.6605 0.2765 138 G 0.0077 0.8871 0.1052 139 Q 0.0052 0.9538 0.0409 140 M 0.0048 0.9585 0.0367 141 L 0.0047 0.9588 0.0366 142 A 0.0048 0.9575 0.0378 143 G 0.0053 0.9483 0.0464 144 L 0.0067 0.9169 0.0763 145 L 0.0471 0.5429 0.4099 146 N 0.0439 0.0349 0.9212 147 W 0.0662 0.0146 0.9192 148 P 0.1407 0.0632 0.7961 149 Q 0.4250 0.1326 0.4424 150 A 0.6478 0.0957 0.2566 151 T 0.6517 0.0832 0.2652 152 N 0.6743 0.0647 0.2610 153 A 0.6524 0.0792 0.2685 154 A 0.6615 0.1044 0.2341 155 K 0.7400 0.0729 0.1870 156 V 0.8062 0.0424 0.1514 157 E 0.8147 0.0619 0.1234 158 F 0.8412 0.0293 0.1294 159 L 0.6499 0.0441 0.3060 160 D 0.3797 0.0542 0.5661 161 N 0.0580 0.0289 0.9131 162 G 0.0806 0.0415 0.8779 163 R 0.8093 0.0060 0.1847 164 V 0.9249 0.0032 0.0719 165 Q 0.9246 0.0040 0.0714 166 V 0.9249 0.0038 0.0712 167 T 0.9117 0.0071 0.0813 168 R 0.8751 0.0054 0.1195 169 E 0.8165 0.0086 0.1749 170 I 0.5449 0.0281 0.4270 171 D 0.1448 0.0788 0.7764 172 D 0.0818 0.0345 0.8837 173 G 0.2936 0.0367 0.6697 174 E 0.7027 0.0106 0.2867 175 E 0.9055 0.0046 0.0900 176 V 0.9109 0.0040 0.0851 177 I 0.8809 0.0055 0.1136 178 E 0.8046 0.0053 0.1901 179 A 0.4541 0.0100 0.5359 180 S 0.1930 0.0196 0.7874 181 L 0.1223 0.0132 0.8646 182 P 0.2983 0.0101 0.6917 183 M 0.7739 0.0049 0.2212 184 V 0.9120 0.0040 0.0840 185 I 0.9155 0.0046 0.0799 186 T 0.8922 0.0046 0.1033 187 T 0.7714 0.0096 0.2190 188 D 0.4742 0.0306 0.4953 189 L 0.1369 0.1368 0.7263 190 R 0.0705 0.1518 0.7777 191 L 0.1212 0.1172 0.7616 192 N 0.1055 0.0813 0.8132 193 T 0.1529 0.0447 0.8024 194 P 0.1788 0.0555 0.7656 195 R 0.1436 0.1017 0.7547 196 Y 0.1251 0.0808 0.7941 197 V 0.0722 0.1396 0.7882 198 G 0.0802 0.1249 0.7949 199 L 0.0129 0.8139 0.1732 200 P 0.0069 0.8929 0.1002 201 K 0.0083 0.8805 0.1112 202 L 0.0076 0.9012 0.0912 203 M 0.0189 0.8352 0.1460 204 K 0.0169 0.6787 0.3044 205 A 0.0359 0.5753 0.3889 206 K 0.0549 0.3977 0.5475 207 K 0.0737 0.2260 0.7003 208 K 0.1318 0.0628 0.8055 209 P 0.1814 0.0301 0.7885 210 I 0.3704 0.0308 0.5987 211 E 0.4872 0.0382 0.4746 212 K 0.5869 0.0258 0.3874 213 L 0.4598 0.0215 0.5187 214 D 0.2905 0.0234 0.6861 215 I 0.0411 0.6981 0.2607 216 A 0.0244 0.7179 0.2576 217 K 0.0269 0.7823 0.1907 218 D 0.0645 0.4968 0.4388 219 F 0.0758 0.2034 0.7208 220 P 0.1508 0.1450 0.7042 221 E 0.1570 0.1171 0.7258 222 I 0.1384 0.1862 0.6754 223 N 0.1396 0.1282 0.7322 224 I 0.1979 0.1172 0.6849 225 E 0.2225 0.0904 0.6872 226 P 0.2283 0.0671 0.7047 227 Q 0.2619 0.0396 0.6985 228 L 0.4156 0.0275 0.5569 229 K 0.7714 0.0191 0.2095 230 I 0.8840 0.0066 0.1094 231 V 0.8485 0.0131 0.1383 232 S 0.8423 0.0076 0.1500 233 M 0.7308 0.0149 0.2543 234 E 0.4743 0.0203 0.5054 235 E 0.2462 0.0158 0.7380 236 P 0.1125 0.0163 0.8712 237 K 0.0995 0.0736 0.8269 238 T 0.1072 0.1399 0.7529 239 K 0.1061 0.1978 0.6961 240 S 0.1196 0.1592 0.7211 241 P 0.1487 0.1312 0.7200 242 G 0.2698 0.0811 0.6490 243 V 0.5667 0.0412 0.3921 244 K 0.6956 0.0267 0.2776 245 L 0.4648 0.0324 0.5028 246 N 0.1395 0.0411 0.8194 247 S 0.0915 0.0278 0.8808 248 V 0.0084 0.8807 0.1110 249 D 0.0054 0.9431 0.0515 250 E 0.0052 0.9530 0.0418 251 L 0.0048 0.9553 0.0399 252 I 0.0047 0.9569 0.0384 253 E 0.0049 0.9534 0.0417 254 K 0.0048 0.9519 0.0433 255 L 0.0050 0.9451 0.0500 256 K 0.0054 0.9245 0.0701 257 E 0.0070 0.8437 0.1494 258 V 0.0309 0.5432 0.4259 259 K 0.0469 0.2399 0.7132 260 A 0.0700 0.0928 0.8372 261 I 0.0472 0.0377 0.9151