# This file is the result of combining several RDB files, specifically # T0565.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0565.t2k.stride-ebghtl.rdb (weight 1.24869) # T0565.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 T0565.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0565 # 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 T0565.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 977 # # ============================================ # Comments from T0565.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0565 # 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 T0565.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 977 # # ============================================ # Comments from T0565.t2k.str.rdb # ============================================ # TARGET T0565 # 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 T0565.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 977 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0355 0.0307 0.9338 2 K 0.1121 0.0554 0.8325 3 K 0.1151 0.0748 0.8101 4 N 0.0451 0.0674 0.8875 5 I 0.0243 0.2531 0.7226 6 L 0.0332 0.2570 0.7098 7 L 0.0587 0.2092 0.7321 8 F 0.0546 0.1199 0.8256 9 Y 0.0607 0.1806 0.7587 10 C 0.0626 0.2428 0.6945 11 F 0.0309 0.3088 0.6604 12 L 0.0063 0.8041 0.1895 13 A 0.0066 0.8483 0.1451 14 T 0.0092 0.8756 0.1152 15 M 0.0099 0.8527 0.1374 16 A 0.0139 0.8045 0.1816 17 A 0.0185 0.7532 0.2283 18 S 0.0229 0.6767 0.3004 19 L 0.0401 0.5525 0.4074 20 K 0.0703 0.4597 0.4700 21 A 0.1185 0.4225 0.4590 22 Q 0.2748 0.3029 0.4224 23 E 0.3432 0.2360 0.4208 24 I 0.2957 0.2080 0.4964 25 R 0.2135 0.2326 0.5539 26 P 0.1550 0.2436 0.6013 27 M 0.1649 0.1973 0.6379 28 P 0.1640 0.1621 0.6739 29 A 0.1431 0.1430 0.7138 30 D 0.0675 0.1179 0.8146 31 S 0.0746 0.0603 0.8651 32 A 0.3068 0.0403 0.6529 33 Y 0.6308 0.0218 0.3474 34 G 0.8623 0.0133 0.1244 35 V 0.9295 0.0090 0.0614 36 V 0.9105 0.0143 0.0752 37 H 0.8557 0.0168 0.1275 38 I 0.6632 0.0455 0.2913 39 S 0.5140 0.0717 0.4144 40 V 0.6383 0.0742 0.2875 41 C 0.6557 0.0529 0.2914 42 N 0.6176 0.0502 0.3322 43 L 0.4804 0.1564 0.3633 44 R 0.3789 0.1558 0.4653 45 E 0.2615 0.1442 0.5943 46 E 0.1375 0.0606 0.8019 47 G 0.0831 0.0664 0.8505 48 K 0.0622 0.0763 0.8615 49 F 0.0407 0.1447 0.8145 50 T 0.0346 0.1654 0.7999 51 S 0.0758 0.2112 0.7130 52 G 0.1669 0.2956 0.5375 53 M 0.3393 0.3548 0.3059 54 S 0.4323 0.3436 0.2241 55 T 0.4411 0.3729 0.1860 56 Q 0.4506 0.3818 0.1676 57 A 0.4054 0.3690 0.2257 58 L 0.2456 0.3224 0.4320 59 L 0.0785 0.1254 0.7961 60 G 0.0453 0.0181 0.9366 61 M 0.2614 0.0100 0.7286 62 P 0.6637 0.0045 0.3319 63 V 0.8562 0.0028 0.1410 64 K 0.9488 0.0025 0.0487 65 V 0.9513 0.0025 0.0462 66 L 0.9484 0.0025 0.0490 67 Q 0.8972 0.0038 0.0990 68 Y 0.7268 0.0114 0.2618 69 N 0.4581 0.0246 0.5172 70 G 0.0679 0.0327 0.8994 71 W 0.2043 0.0248 0.7709 72 Y 0.8384 0.0061 0.1555 73 E 0.9546 0.0028 0.0426 74 I 0.9733 0.0024 0.0243 75 Q 0.9696 0.0025 0.0279 76 T 0.9369 0.0030 0.0601 77 P 0.7994 0.0076 0.1930 78 D 0.0649 0.0167 0.9184 79 D 0.0553 0.0172 0.9274 80 Y 0.6780 0.0079 0.3141 81 T 0.8883 0.0033 0.1084 82 G 0.9102 0.0031 0.0867 83 W 0.9349 0.0032 0.0620 84 V 0.8686 0.0052 0.1263 85 H 0.6535 0.0127 0.3338 86 R 0.0903 0.4636 0.4461 87 M 0.0593 0.5303 0.4105 88 V 0.1014 0.5851 0.3135 89 I 0.2043 0.3722 0.4235 90 T 0.2813 0.2432 0.4755 91 P 0.2517 0.2467 0.5016 92 M 0.1158 0.2486 0.6356 93 S 0.0702 0.2915 0.6383 94 K 0.0370 0.6659 0.2970 95 E 0.0432 0.7062 0.2507 96 R 0.0657 0.7001 0.2342 97 Y 0.0898 0.6741 0.2361 98 D 0.1063 0.6286 0.2651 99 E 0.1051 0.6108 0.2841 100 W 0.1118 0.5298 0.3585 101 N 0.1158 0.3997 0.4844 102 R 0.1147 0.2695 0.6157 103 A 0.1281 0.1262 0.7457 104 E 0.1672 0.0651 0.7677 105 K 0.3735 0.0466 0.5800 106 I 0.7195 0.0262 0.2543 107 V 0.8940 0.0130 0.0929 108 V 0.9180 0.0138 0.0682 109 T 0.8703 0.0161 0.1136 110 S 0.7287 0.0312 0.2401 111 H 0.5222 0.0754 0.4023 112 Y 0.4419 0.1192 0.4389 113 G 0.4788 0.1154 0.4058 114 F 0.5717 0.0895 0.3389 115 A 0.6197 0.0769 0.3034 116 Y 0.5677 0.0707 0.3616 117 E 0.3828 0.0823 0.5348 118 K 0.1774 0.0653 0.7573 119 P 0.0883 0.0880 0.8237 120 D 0.0645 0.0874 0.8481 121 E 0.0575 0.1370 0.8055 122 S 0.0560 0.1177 0.8263 123 S 0.1058 0.0852 0.8090 124 Q 0.1769 0.0819 0.7413 125 P 0.3434 0.1068 0.5498 126 V 0.5308 0.1200 0.3493 127 S 0.6029 0.1176 0.2795 128 D 0.6821 0.0908 0.2271 129 V 0.6185 0.0629 0.3186 130 V 0.4064 0.0719 0.5216 131 A 0.1145 0.0981 0.7874 132 G 0.0764 0.0496 0.8740 133 N 0.3545 0.0278 0.6177 134 R 0.7431 0.0118 0.2451 135 L 0.8280 0.0085 0.1635 136 K 0.8212 0.0099 0.1689 137 W 0.8380 0.0137 0.1483 138 E 0.7981 0.0185 0.1835 139 G 0.7025 0.0323 0.2652 140 S 0.5252 0.0529 0.4219 141 K 0.3361 0.0646 0.5993 142 G 0.1593 0.0606 0.7801 143 H 0.3038 0.0361 0.6601 144 F 0.7500 0.0136 0.2364 145 Y 0.8901 0.0061 0.1038 146 Q 0.9336 0.0045 0.0620 147 V 0.9044 0.0055 0.0901 148 S 0.8809 0.0051 0.1140 149 Y 0.5230 0.0130 0.4640 150 P 0.1546 0.0330 0.8123 151 D 0.0494 0.0306 0.9201 152 G 0.1016 0.0318 0.8666 153 R 0.3387 0.0230 0.6383 154 K 0.7274 0.0164 0.2561 155 A 0.8097 0.0168 0.1735 156 Y 0.8559 0.0183 0.1258 157 L 0.7921 0.0290 0.1789 158 S 0.6107 0.0530 0.3363 159 K 0.3709 0.1037 0.5253 160 S 0.3349 0.1045 0.5606 161 I 0.3918 0.1245 0.4836 162 S 0.4063 0.1191 0.4746 163 Q 0.3958 0.1143 0.4899 164 P 0.2850 0.1325 0.5825 165 E 0.1955 0.1699 0.6346 166 A 0.1458 0.2457 0.6084 167 G 0.1293 0.2484 0.6223 168 W 0.1205 0.2373 0.6422 169 R 0.1109 0.2301 0.6590 170 A 0.0769 0.2237 0.6993 171 S 0.0485 0.2121 0.7395 172 L 0.0248 0.2900 0.6852 173 K 0.0181 0.3394 0.6425 174 Q 0.0174 0.4148 0.5678 175 D 0.0186 0.4861 0.4953 176 V 0.0065 0.8595 0.1339 177 E 0.0050 0.9203 0.0747 178 S 0.0048 0.9366 0.0585 179 I 0.0041 0.9614 0.0344 180 I 0.0038 0.9702 0.0260 181 E 0.0038 0.9677 0.0285 182 T 0.0037 0.9739 0.0224 183 A 0.0037 0.9722 0.0240 184 Y 0.0038 0.9639 0.0323 185 S 0.0040 0.9108 0.0851 186 M 0.0052 0.7549 0.2398 187 M 0.0151 0.3175 0.6674 188 G 0.0177 0.0294 0.9530 189 I 0.1210 0.0122 0.8668 190 P 0.2844 0.0127 0.7029 191 Y 0.7142 0.0218 0.2640 192 L 0.8460 0.0133 0.1407 193 W 0.7794 0.0125 0.2081 194 A 0.5850 0.0127 0.4023 195 G 0.3404 0.0167 0.6430 196 T 0.2740 0.0178 0.7082 197 S 0.1237 0.0302 0.8460 198 S 0.0388 0.0669 0.8943 199 K 0.0534 0.0848 0.8618 200 G 0.1395 0.1387 0.7218 201 V 0.2192 0.1577 0.6231 202 D 0.1601 0.2787 0.5612 203 C 0.0177 0.7632 0.2191 204 S 0.0055 0.9179 0.0766 205 G 0.0048 0.9570 0.0382 206 L 0.0041 0.9706 0.0254 207 V 0.0037 0.9759 0.0204 208 R 0.0037 0.9770 0.0193 209 T 0.0037 0.9770 0.0193 210 V 0.0037 0.9762 0.0200 211 L 0.0037 0.9741 0.0222 212 F 0.0037 0.9628 0.0335 213 M 0.0037 0.9018 0.0944 214 H 0.0048 0.5065 0.4887 215 D 0.0107 0.0187 0.9706 216 I 0.0352 0.0100 0.9548 217 I 0.2436 0.0165 0.7399 218 I 0.2494 0.0252 0.7254 219 P 0.1863 0.0361 0.7775 220 R 0.1421 0.0765 0.7814 221 D 0.0648 0.0987 0.8365 222 A 0.0096 0.7645 0.2259 223 S 0.0049 0.9185 0.0766 224 Q 0.0059 0.9233 0.0708 225 Q 0.0063 0.9265 0.0672 226 A 0.0080 0.9130 0.0790 227 Y 0.0102 0.8197 0.1701 228 V 0.0087 0.4873 0.5041 229 G 0.0213 0.1135 0.8653 230 E 0.0783 0.0789 0.8427 231 H 0.1879 0.0997 0.7125 232 I 0.1270 0.0919 0.7812 233 D 0.0980 0.0864 0.8156 234 I 0.0663 0.1267 0.8071 235 A 0.0519 0.1379 0.8102 236 P 0.0415 0.0999 0.8585 237 D 0.0505 0.1064 0.8431 238 F 0.0145 0.7514 0.2340 239 S 0.0146 0.7422 0.2432 240 N 0.0299 0.6468 0.3233 241 V 0.0612 0.1078 0.8310 242 K 0.0590 0.0485 0.8926 243 R 0.0577 0.1059 0.8364 244 G 0.0843 0.0721 0.8436 245 D 0.4346 0.0252 0.5402 246 L 0.9127 0.0048 0.0825 247 V 0.9593 0.0036 0.0371 248 F 0.9538 0.0040 0.0423 249 F 0.8318 0.0109 0.1574 250 G 0.4855 0.0149 0.4996 251 R 0.1869 0.0391 0.7740 252 K 0.0682 0.0852 0.8466 253 A 0.0581 0.1229 0.8190 254 T 0.0694 0.1035 0.8271 255 A 0.0821 0.0859 0.8320 256 E 0.0808 0.0912 0.8280 257 R 0.0865 0.0887 0.8248 258 K 0.1090 0.0741 0.8170 259 E 0.1237 0.0544 0.8219 260 G 0.2198 0.0256 0.7546 261 I 0.4277 0.0114 0.5609 262 S 0.6018 0.0086 0.3895 263 H 0.9065 0.0039 0.0896 264 V 0.9395 0.0026 0.0579 265 G 0.9702 0.0025 0.0273 266 I 0.9743 0.0024 0.0233 267 Y 0.9672 0.0024 0.0304 268 L 0.8610 0.0027 0.1363 269 G 0.3972 0.0159 0.5869 270 N 0.0246 0.0387 0.9367 271 K 0.0506 0.0646 0.8848 272 Q 0.6846 0.0209 0.2945 273 F 0.9329 0.0034 0.0637 274 I 0.9516 0.0025 0.0459 275 H 0.9342 0.0026 0.0632 276 A 0.7584 0.0063 0.2353 277 L 0.4595 0.0168 0.5237 278 G 0.1784 0.0442 0.7774 279 D 0.0830 0.0589 0.8581 280 V 0.0902 0.0657 0.8441 281 H 0.2102 0.0318 0.7580 282 V 0.6604 0.0094 0.3302 283 S 0.8805 0.0030 0.1165 284 S 0.9170 0.0027 0.0803 285 M 0.8572 0.0046 0.1382 286 N 0.5590 0.0091 0.4319 287 P 0.2237 0.0306 0.7457 288 A 0.0598 0.1089 0.8314 289 D 0.0333 0.1490 0.8177 290 Q 0.0162 0.4554 0.5284 291 N 0.0127 0.7536 0.2337 292 Y 0.0162 0.8150 0.1688 293 D 0.0232 0.8500 0.1268 294 E 0.0233 0.8642 0.1125 295 F 0.0217 0.8562 0.1220 296 N 0.0313 0.8168 0.1519 297 T 0.0590 0.7254 0.2155 298 K 0.0675 0.5672 0.3653 299 R 0.0930 0.3588 0.5481 300 L 0.2292 0.2846 0.4862 301 L 0.3926 0.2220 0.3853 302 F 0.4659 0.2038 0.3303 303 A 0.4679 0.1753 0.3568 304 V 0.4177 0.1300 0.4523 305 R 0.2905 0.0911 0.6184 306 F 0.1663 0.0777 0.7559 307 L 0.0942 0.0617 0.8441 308 P 0.0741 0.1170 0.8089 309 Y 0.0856 0.1264 0.7880 310 I 0.1069 0.0914 0.8017 311 N 0.0691 0.0776 0.8534 312 K 0.0372 0.2934 0.6694 313 E 0.0203 0.4672 0.5125 314 K 0.0221 0.3857 0.5922 315 G 0.0472 0.2380 0.7148 316 M 0.0863 0.1523 0.7614 317 N 0.0869 0.1477 0.7655 318 T 0.1116 0.1431 0.7453 319 T 0.1286 0.1368 0.7346 320 N 0.1607 0.1281 0.7112 321 K 0.1887 0.1015 0.7098 322 N 0.0989 0.0515 0.8495 323 P 0.0805 0.2057 0.7137 324 F 0.1460 0.2499 0.6041 325 Y 0.1433 0.1419 0.7148 326 Q 0.0220 0.0147 0.9633