# This file is the result of combining several RDB files, specifically # T0371.t06.dssp-ebghstl.rdb (weight 1.53986) # T0371.t06.stride-ebghtl.rdb (weight 1.24869) # T0371.t06.str2.rdb (weight 1.54758) # T0371.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 T0371.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0371 # 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 T0371.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 4534 # # ============================================ # Comments from T0371.t06.stride-ebghtl.rdb # ============================================ # TARGET T0371 # 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 T0371.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 4534 # # ============================================ # Comments from T0371.t06.str2.rdb # ============================================ # TARGET T0371 # 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 T0371.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 4534 # # ============================================ # Comments from T0371.t06.alpha.rdb # ============================================ # TARGET T0371 # 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 T0371.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 4534 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0887 0.0210 0.8903 2 Q 0.1416 0.0406 0.8178 3 I 0.0484 0.6536 0.2980 4 E 0.0273 0.7347 0.2380 5 S 0.0268 0.7663 0.2068 6 F 0.0303 0.7997 0.1700 7 K 0.0241 0.7874 0.1885 8 S 0.0252 0.6968 0.2781 9 L 0.0266 0.5785 0.3949 10 L 0.0710 0.1856 0.7434 11 P 0.0364 0.2400 0.7236 12 K 0.0741 0.1423 0.7835 13 Y 0.3164 0.0115 0.6720 14 K 0.4314 0.0351 0.5335 15 C 0.9220 0.0038 0.0742 16 I 0.9326 0.0032 0.0642 17 F 0.9317 0.0033 0.0651 18 F 0.9050 0.0052 0.0898 19 D 0.6186 0.0104 0.3710 20 A 0.2386 0.0851 0.6763 21 F 0.1351 0.1074 0.7575 22 G 0.1313 0.1538 0.7149 23 V 0.3573 0.1843 0.4583 24 L 0.6013 0.1639 0.2348 25 K 0.5364 0.1450 0.3186 26 T 0.3515 0.1073 0.5412 27 Y 0.0813 0.1973 0.7214 28 N 0.0552 0.1740 0.7708 29 G 0.0485 0.1853 0.7662 30 L 0.0738 0.2221 0.7041 31 L 0.0764 0.2437 0.6799 32 P 0.0153 0.6826 0.3021 33 G 0.0188 0.7694 0.2118 34 I 0.0071 0.9115 0.0814 35 E 0.0049 0.9507 0.0444 36 N 0.0048 0.9488 0.0464 37 T 0.0048 0.9502 0.0450 38 F 0.0047 0.9579 0.0374 39 D 0.0047 0.9597 0.0356 40 Y 0.0046 0.9602 0.0351 41 L 0.0047 0.9596 0.0357 42 K 0.0047 0.9545 0.0407 43 A 0.0053 0.9197 0.0750 44 Q 0.0413 0.3483 0.6103 45 G 0.0371 0.0154 0.9475 46 Q 0.0830 0.0085 0.9086 47 D 0.5841 0.0061 0.4097 48 Y 0.8947 0.0037 0.1016 49 Y 0.9100 0.0038 0.0862 50 I 0.8939 0.0047 0.1014 51 V 0.7272 0.0116 0.2612 52 T 0.3245 0.0255 0.6500 53 N 0.0940 0.0654 0.8406 54 D 0.0949 0.0648 0.8403 55 A 0.0560 0.1461 0.7979 56 S 0.0543 0.1401 0.8057 57 R 0.0745 0.0870 0.8385 58 S 0.0775 0.0549 0.8676 59 P 0.0098 0.8680 0.1222 60 E 0.0057 0.9353 0.0590 61 Q 0.0055 0.9425 0.0520 62 L 0.0051 0.9437 0.0513 63 A 0.0055 0.9460 0.0485 64 D 0.0048 0.9414 0.0538 65 S 0.0049 0.9375 0.0577 66 Y 0.0065 0.9262 0.0673 67 H 0.0055 0.8916 0.1030 68 K 0.0066 0.8251 0.1683 69 L 0.0447 0.4521 0.5032 70 G 0.0410 0.0697 0.8893 71 L 0.0957 0.0860 0.8183 72 F 0.1364 0.0996 0.7639 73 S 0.1604 0.0582 0.7814 74 I 0.1579 0.0433 0.7988 75 T 0.1223 0.0405 0.8372 76 A 0.0244 0.7363 0.2392 77 D 0.0244 0.7809 0.1947 78 K 0.0495 0.8032 0.1473 79 I 0.1212 0.7451 0.1337 80 I 0.1374 0.6606 0.2020 81 S 0.1009 0.5928 0.3064 82 S 0.0701 0.4240 0.5060 83 G 0.0641 0.2764 0.6596 84 M 0.1467 0.4383 0.4150 85 I 0.3256 0.4116 0.2627 86 T 0.2643 0.4947 0.2411 87 K 0.2470 0.5248 0.2283 88 E 0.2692 0.4929 0.2380 89 Y 0.2002 0.5931 0.2067 90 I 0.2226 0.4944 0.2830 91 D 0.2131 0.4250 0.3619 92 L 0.2775 0.3673 0.3552 93 K 0.3149 0.3078 0.3773 94 V 0.2721 0.2651 0.4628 95 D 0.1331 0.1946 0.6723 96 G 0.0637 0.1035 0.8328 97 G 0.1749 0.1066 0.7185 98 I 0.4721 0.1233 0.4046 99 V 0.5497 0.1551 0.2952 100 A 0.5170 0.1838 0.2992 101 Y 0.4141 0.2808 0.3050 102 L 0.2621 0.3063 0.4316 103 G 0.1418 0.2605 0.5977 104 T 0.0835 0.4916 0.4250 105 A 0.0388 0.7479 0.2134 106 N 0.0315 0.8072 0.1613 107 S 0.0172 0.8889 0.0938 108 A 0.0081 0.9315 0.0605 109 N 0.0077 0.9363 0.0559 110 Y 0.0068 0.9412 0.0521 111 L 0.0088 0.9387 0.0524 112 V 0.0101 0.9221 0.0678 113 S 0.0101 0.8644 0.1255 114 D 0.0425 0.4099 0.5476 115 G 0.0313 0.0439 0.9248 116 I 0.1326 0.0367 0.8307 117 K 0.3862 0.0523 0.5615 118 M 0.4485 0.0791 0.4724 119 L 0.3059 0.0708 0.6232 120 P 0.2607 0.1094 0.6299 121 V 0.1745 0.2373 0.5882 122 S 0.1543 0.2993 0.5464 123 A 0.1143 0.3821 0.5036 124 I 0.1346 0.2979 0.5675 125 D 0.1057 0.2702 0.6242 126 D 0.0636 0.4362 0.5002 127 S 0.0662 0.4098 0.5240 128 N 0.0812 0.3874 0.5313 129 I 0.0852 0.3895 0.5253 130 G 0.0903 0.3203 0.5894 131 E 0.1624 0.3754 0.4622 132 V 0.1682 0.5535 0.2783 133 N 0.2185 0.5280 0.2535 134 A 0.3485 0.4857 0.1658 135 L 0.4704 0.4103 0.1193 136 V 0.5707 0.3127 0.1166 137 L 0.5254 0.2887 0.1859 138 L 0.3303 0.2809 0.3888 139 D 0.1806 0.1875 0.6319 140 D 0.0645 0.3583 0.5772 141 E 0.0404 0.3121 0.6475 142 G 0.0400 0.2187 0.7413 143 F 0.1413 0.1283 0.7304 144 N 0.1703 0.1529 0.6768 145 W 0.1480 0.2360 0.6160 146 F 0.0724 0.2699 0.6577 147 H 0.0185 0.6638 0.3177 148 D 0.0228 0.6473 0.3299 149 L 0.0065 0.9143 0.0792 150 N 0.0048 0.9510 0.0443 151 K 0.0047 0.9552 0.0401 152 T 0.0047 0.9565 0.0388 153 V 0.0047 0.9585 0.0368 154 N 0.0047 0.9580 0.0373 155 L 0.0047 0.9564 0.0389 156 L 0.0050 0.9493 0.0457 157 R 0.0053 0.9285 0.0663 158 K 0.0079 0.7993 0.1928 159 R 0.0486 0.3222 0.6292 160 T 0.0546 0.0163 0.9291 161 I 0.0796 0.0079 0.9125 162 P 0.2268 0.0132 0.7599 163 A 0.9099 0.0037 0.0864 164 I 0.9303 0.0033 0.0663 165 V 0.9302 0.0033 0.0665 166 A 0.8885 0.0065 0.1050 167 N 0.5057 0.0102 0.4841 168 T 0.1111 0.0540 0.8349 169 D 0.0516 0.0709 0.8775 170 N 0.0654 0.0913 0.8432 171 T 0.0751 0.1668 0.7581 172 Y 0.1137 0.2413 0.6450 173 P 0.1593 0.3439 0.4967 174 L 0.1581 0.4469 0.3950 175 T 0.1500 0.4973 0.3527 176 K 0.1069 0.6588 0.2342 177 T 0.0808 0.7151 0.2041 178 D 0.0737 0.7291 0.1972 179 V 0.0735 0.7355 0.1911 180 A 0.0592 0.7380 0.2028 181 I 0.0849 0.5777 0.3374 182 A 0.0684 0.3940 0.5376 183 I 0.0597 0.5294 0.4109 184 G 0.0358 0.5260 0.4382 185 G 0.0366 0.5490 0.4144 186 V 0.0482 0.7405 0.2113 187 A 0.0595 0.7831 0.1575 188 T 0.0686 0.7782 0.1532 189 M 0.0767 0.8041 0.1192 190 I 0.0861 0.7973 0.1165 191 E 0.0848 0.7777 0.1375 192 S 0.1027 0.7462 0.1511 193 I 0.1178 0.6863 0.1959 194 L 0.1310 0.5164 0.3526 195 G 0.1375 0.2571 0.6054 196 R 0.0998 0.4001 0.5001 197 R 0.1302 0.4322 0.4376 198 F 0.1899 0.4495 0.3606 199 I 0.2494 0.3308 0.4198 200 R 0.2320 0.3133 0.4548 201 F 0.1477 0.2249 0.6274 202 G 0.1012 0.0740 0.8248 203 K 0.0913 0.0247 0.8841 204 P 0.0806 0.0277 0.8917 205 D 0.0717 0.0447 0.8836 206 S 0.0075 0.9033 0.0892 207 Q 0.0057 0.9398 0.0545 208 M 0.0048 0.9535 0.0417 209 F 0.0047 0.9596 0.0357 210 M 0.0047 0.9605 0.0348 211 F 0.0047 0.9593 0.0360 212 A 0.0047 0.9588 0.0365 213 Y 0.0047 0.9602 0.0351 214 D 0.0047 0.9597 0.0357 215 M 0.0047 0.9583 0.0371 216 L 0.0048 0.9550 0.0403 217 R 0.0048 0.9481 0.0470 218 Q 0.0056 0.9205 0.0739 219 K 0.0084 0.8449 0.1466 220 M 0.0504 0.4171 0.5324 221 E 0.0474 0.0319 0.9207 222 I 0.0807 0.0105 0.9088 223 S 0.0789 0.0091 0.9121 224 K 0.0381 0.6380 0.3239 225 R 0.0802 0.5355 0.3843 226 E 0.2317 0.3826 0.3856 227 I 0.8505 0.0165 0.1330 228 L 0.9014 0.0092 0.0894 229 M 0.9133 0.0067 0.0801 230 V 0.8014 0.0473 0.1513 231 G 0.4902 0.0244 0.4854 232 D 0.2066 0.0469 0.7465 233 T 0.1168 0.1185 0.7647 234 L 0.0463 0.3418 0.6120 235 H 0.0385 0.5083 0.4531 236 T 0.0467 0.5673 0.3859 237 D 0.0504 0.6756 0.2740 238 I 0.0209 0.9022 0.0770 239 L 0.0091 0.9283 0.0626 240 G 0.0073 0.9380 0.0547 241 G 0.0072 0.9426 0.0503 242 N 0.0072 0.9305 0.0623 243 K 0.0079 0.8739 0.1183 244 F 0.0482 0.4226 0.5292 245 G 0.0514 0.0187 0.9299 246 L 0.1111 0.0071 0.8818 247 D 0.2289 0.0397 0.7314 248 T 0.8953 0.0041 0.1006 249 A 0.9244 0.0037 0.0719 250 L 0.9260 0.0038 0.0702 251 V 0.8834 0.0070 0.1095 252 L 0.6041 0.0222 0.3737 253 T 0.2256 0.0277 0.7467 254 G 0.0843 0.0778 0.8378 255 N 0.0955 0.1085 0.7960 256 T 0.0985 0.1375 0.7640 257 R 0.1125 0.1787 0.7088 258 I 0.0533 0.5955 0.3513 259 D 0.0285 0.7172 0.2543 260 D 0.0273 0.7736 0.1990 261 A 0.0215 0.8281 0.1504 262 E 0.0266 0.8058 0.1676 263 T 0.0347 0.7541 0.2113 264 K 0.0457 0.6907 0.2635 265 I 0.1254 0.4846 0.3901 266 K 0.0926 0.3531 0.5543 267 S 0.0741 0.2838 0.6421 268 T 0.0717 0.1557 0.7726 269 G 0.0544 0.0643 0.8813 270 I 0.1484 0.0398 0.8118 271 V 0.2096 0.0249 0.7656 272 P 0.2357 0.0447 0.7195 273 T 0.3730 0.0918 0.5352 274 H 0.7553 0.0616 0.1832 275 I 0.7977 0.0760 0.1263 276 C 0.6730 0.1035 0.2235 277 E 0.2908 0.1858 0.5234 278 S 0.1285 0.2509 0.6206 279 A 0.0585 0.6269 0.3145 280 V 0.0307 0.7835 0.1858 281 I 0.0302 0.7562 0.2137 282 E 0.0261 0.6366 0.3373 283 L 0.0351 0.1685 0.7964