# This file is the result of combining several RDB files, specifically # T0470.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0470.t2k.stride-ebghtl.rdb (weight 1.24869) # T0470.t2k.str.rdb (weight 1.53983) # 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 T0470.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0470 # 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 T0470.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 240 # # ============================================ # Comments from T0470.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0470 # 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 T0470.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 240 # # ============================================ # Comments from T0470.t2k.str.rdb # ============================================ # TARGET T0470 # 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 T0470.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 240 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0145 0.0275 0.9580 2 T 0.0470 0.1078 0.8452 3 K 0.0095 0.7808 0.2097 4 Q 0.0042 0.9227 0.0732 5 E 0.0039 0.9394 0.0567 6 K 0.0041 0.9528 0.0431 7 I 0.0038 0.9667 0.0295 8 E 0.0038 0.9715 0.0248 9 K 0.0038 0.9702 0.0260 10 T 0.0038 0.9714 0.0248 11 I 0.0037 0.9749 0.0214 12 T 0.0037 0.9740 0.0222 13 F 0.0037 0.9726 0.0237 14 V 0.0037 0.9706 0.0257 15 K 0.0038 0.9667 0.0295 16 H 0.0039 0.9407 0.0553 17 I 0.0043 0.8984 0.0973 18 L 0.0104 0.7287 0.2609 19 E 0.0086 0.4972 0.4942 20 K 0.0085 0.2958 0.6957 21 D 0.0165 0.1707 0.8128 22 A 0.0229 0.1157 0.8614 23 S 0.0230 0.1729 0.8041 24 G 0.0272 0.2211 0.7517 25 H 0.0325 0.2505 0.7171 26 D 0.0303 0.3853 0.5845 27 W 0.0046 0.9144 0.0811 28 Y 0.0038 0.9551 0.0411 29 H 0.0037 0.9704 0.0259 30 I 0.0037 0.9762 0.0200 31 R 0.0037 0.9770 0.0193 32 R 0.0037 0.9770 0.0193 33 V 0.0037 0.9766 0.0197 34 H 0.0037 0.9766 0.0197 35 K 0.0037 0.9757 0.0206 36 M 0.0037 0.9741 0.0221 37 A 0.0037 0.9744 0.0219 38 I 0.0037 0.9727 0.0235 39 S 0.0037 0.9665 0.0297 40 L 0.0037 0.9646 0.0317 41 S 0.0038 0.9530 0.0433 42 E 0.0038 0.9148 0.0815 43 Q 0.0039 0.8290 0.1671 44 E 0.0046 0.5443 0.4511 45 G 0.0097 0.0586 0.9317 46 G 0.0193 0.0343 0.9464 47 N 0.0200 0.0530 0.9271 48 R 0.0044 0.9188 0.0768 49 F 0.0038 0.9639 0.0323 50 I 0.0048 0.9720 0.0232 51 I 0.0051 0.9730 0.0218 52 E 0.0044 0.9741 0.0215 53 M 0.0041 0.9737 0.0222 54 A 0.0048 0.9670 0.0282 55 A 0.0048 0.9503 0.0449 56 L 0.0048 0.9037 0.0915 57 L 0.0059 0.8218 0.1723 58 H 0.0147 0.6759 0.3093 59 D 0.0257 0.5305 0.4439 60 V 0.0418 0.4964 0.4618 61 A 0.0480 0.3490 0.6030 62 D 0.0457 0.2259 0.7285 63 E 0.0492 0.3286 0.6221 64 K 0.0416 0.3510 0.6074 65 L 0.0347 0.3062 0.6591 66 N 0.0291 0.1902 0.7807 67 E 0.0174 0.1534 0.8291 68 S 0.0106 0.2808 0.7086 69 E 0.0090 0.4118 0.5792 70 E 0.0097 0.5454 0.4448 71 A 0.0093 0.6860 0.3047 72 G 0.0079 0.7687 0.2234 73 M 0.0046 0.9215 0.0739 74 K 0.0049 0.9466 0.0485 75 K 0.0038 0.9604 0.0358 76 V 0.0038 0.9670 0.0292 77 S 0.0038 0.9699 0.0264 78 D 0.0037 0.9633 0.0329 79 W 0.0037 0.9646 0.0317 80 L 0.0038 0.9576 0.0386 81 E 0.0038 0.9282 0.0680 82 E 0.0039 0.8079 0.1882 83 L 0.0046 0.3684 0.6270 84 H 0.0096 0.0194 0.9710 85 V 0.0154 0.0086 0.9760 86 E 0.0112 0.0124 0.9764 87 E 0.0040 0.9042 0.0918 88 E 0.0038 0.9393 0.0569 89 E 0.0038 0.9652 0.0310 90 S 0.0037 0.9741 0.0222 91 K 0.0037 0.9752 0.0211 92 H 0.0037 0.9741 0.0222 93 V 0.0037 0.9759 0.0204 94 L 0.0037 0.9759 0.0204 95 H 0.0037 0.9731 0.0232 96 I 0.0037 0.9699 0.0264 97 I 0.0044 0.9667 0.0289 98 A 0.0055 0.9384 0.0561 99 N 0.0081 0.8384 0.1534 100 M 0.0382 0.6683 0.2935 101 S 0.0937 0.3435 0.5629 102 Y 0.0845 0.3151 0.6004 103 K 0.0666 0.3005 0.6329 104 G 0.0428 0.2933 0.6639 105 G 0.0465 0.2117 0.7418 106 H 0.0645 0.1774 0.7582 107 G 0.0624 0.1440 0.7935 108 G 0.0728 0.1217 0.8055 109 K 0.0596 0.0653 0.8750 110 V 0.0588 0.0580 0.8832 111 E 0.0940 0.0633 0.8426 112 S 0.0789 0.0687 0.8523 113 I 0.0141 0.8859 0.0999 114 E 0.0098 0.9351 0.0551 115 G 0.0151 0.9387 0.0461 116 K 0.0223 0.9298 0.0479 117 L 0.0351 0.9060 0.0589 118 V 0.0348 0.8853 0.0798 119 Q 0.0370 0.8053 0.1578 120 D 0.0174 0.7292 0.2533 121 A 0.0041 0.8653 0.1307 122 D 0.0037 0.7784 0.2179 123 R 0.0037 0.8741 0.1221 124 L 0.0066 0.8699 0.1235 125 D 0.0095 0.8232 0.1673 126 A 0.0112 0.7662 0.2226 127 L 0.0060 0.5672 0.4268 128 G 0.0105 0.2544 0.7351 129 A 0.0211 0.3947 0.5842 130 I 0.0366 0.7777 0.1858 131 G 0.0218 0.8948 0.0834 132 I 0.0252 0.9353 0.0395 133 A 0.0239 0.9432 0.0330 134 R 0.0121 0.9599 0.0280 135 T 0.0110 0.9575 0.0315 136 F 0.0089 0.9555 0.0356 137 A 0.0111 0.9387 0.0502 138 Y 0.0154 0.8853 0.0993 139 G 0.0163 0.7761 0.2075 140 G 0.0206 0.5546 0.4247 141 A 0.0262 0.4387 0.5351 142 K 0.0258 0.2369 0.7374 143 G 0.0295 0.0835 0.8870 144 R 0.0800 0.0672 0.8528 145 L 0.2481 0.0903 0.6616 146 M 0.1944 0.1173 0.6883 147 Y 0.2232 0.0727 0.7040 148 D 0.0596 0.0383 0.9021 149 P 0.0134 0.1048 0.8818 150 T 0.0122 0.0999 0.8880 151 I 0.0357 0.0628 0.9015 152 P 0.0526 0.0757 0.8717 153 P 0.0403 0.3583 0.6013 154 R 0.0335 0.4470 0.5195 155 E 0.0382 0.4306 0.5312 156 V 0.0582 0.3025 0.6393 157 M 0.0647 0.2394 0.6959 158 T 0.0503 0.2274 0.7223 159 K 0.0201 0.7060 0.2740 160 D 0.0254 0.7164 0.2582 161 E 0.0279 0.6794 0.2928 162 Y 0.0335 0.6057 0.3608 163 R 0.0209 0.5281 0.4510 164 K 0.0137 0.3777 0.6086 165 N 0.0127 0.2096 0.7777 166 N 0.0131 0.3701 0.6168 167 D 0.0124 0.5000 0.4876 168 P 0.0340 0.5881 0.3779 169 S 0.0386 0.7706 0.1908 170 L 0.0176 0.9142 0.0682 171 N 0.0127 0.9369 0.0504 172 H 0.0112 0.9366 0.0522 173 F 0.0055 0.9553 0.0392 174 Y 0.0037 0.9661 0.0302 175 E 0.0037 0.9645 0.0317 176 K 0.0038 0.9579 0.0384 177 L 0.0038 0.9470 0.0492 178 L 0.0039 0.9204 0.0757 179 K 0.0053 0.7498 0.2449 180 L 0.0083 0.7568 0.2349 181 K 0.0056 0.8586 0.1358 182 D 0.0047 0.7791 0.2162 183 L 0.0056 0.7736 0.2207 184 M 0.0428 0.4631 0.4941 185 N 0.0261 0.2469 0.7269 186 T 0.0134 0.1779 0.8087 187 N 0.0042 0.9304 0.0654 188 A 0.0039 0.9553 0.0408 189 A 0.0038 0.9660 0.0301 190 K 0.0037 0.9727 0.0236 191 Q 0.0038 0.9703 0.0259 192 E 0.0037 0.9674 0.0289 193 A 0.0037 0.9641 0.0322 194 E 0.0037 0.9664 0.0298 195 V 0.0038 0.9530 0.0432 196 R 0.0038 0.9615 0.0347 197 H 0.0037 0.9715 0.0247 198 R 0.0037 0.9722 0.0241 199 Y 0.0037 0.9699 0.0263 200 M 0.0037 0.9739 0.0223 201 E 0.0037 0.9751 0.0212 202 Q 0.0037 0.9730 0.0233 203 F 0.0037 0.9721 0.0242 204 I 0.0037 0.9744 0.0219 205 E 0.0037 0.9737 0.0226 206 Q 0.0037 0.9694 0.0268 207 F 0.0037 0.9687 0.0276 208 M 0.0038 0.9610 0.0353 209 K 0.0040 0.9219 0.0741 210 E 0.0046 0.8504 0.1450 211 W 0.0178 0.7186 0.2636 212 N 0.0195 0.4260 0.5546 213 A 0.0184 0.2763 0.7053 214 Q 0.0427 0.2927 0.6646 215 I 0.0907 0.2656 0.6437 216 L 0.1310 0.2565 0.6125 217 E 0.1478 0.1945 0.6577 218 H 0.2319 0.1424 0.6258 219 H 0.2373 0.1134 0.6493 220 H 0.2543 0.1227 0.6229 221 H 0.2288 0.0769 0.6943 222 H 0.1518 0.0427 0.8055 223 H 0.0129 0.0074 0.9797