# This file is the result of combining several RDB files, specifically # T0289.t06.dssp-ebghstl.rdb (weight 1.53986) # T0289.t06.stride-ebghtl.rdb (weight 1.24869) # T0289.t06.str2.rdb (weight 1.54758) # T0289.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 T0289.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0289 # 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 T0289.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 880 # # ============================================ # Comments from T0289.t06.stride-ebghtl.rdb # ============================================ # TARGET T0289 # 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 T0289.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 880 # # ============================================ # Comments from T0289.t06.str2.rdb # ============================================ # TARGET T0289 # 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 T0289.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 880 # # ============================================ # Comments from T0289.t06.alpha.rdb # ============================================ # TARGET T0289 # 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 T0289.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 880 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.1139 0.0211 0.8650 2 T 0.2409 0.0396 0.7195 3 S 0.4301 0.0579 0.5120 4 C 0.4394 0.0647 0.4960 5 V 0.4632 0.0678 0.4690 6 A 0.2791 0.0880 0.6328 7 E 0.1364 0.0912 0.7724 8 E 0.1087 0.0644 0.8270 9 P 0.1049 0.0786 0.8164 10 I 0.1810 0.0275 0.7916 11 K 0.2797 0.0179 0.7023 12 K 0.7935 0.0044 0.2021 13 I 0.9284 0.0033 0.0683 14 A 0.9332 0.0032 0.0636 15 I 0.9311 0.0036 0.0653 16 F 0.9157 0.0055 0.0788 17 G 0.7918 0.0155 0.1927 18 G 0.5033 0.0244 0.4723 19 T 0.2925 0.0414 0.6661 20 H 0.1391 0.0359 0.8250 21 G 0.0570 0.1556 0.7874 22 N 0.0506 0.1929 0.7564 23 E 0.0524 0.4217 0.5259 24 L 0.0391 0.6635 0.2974 25 T 0.0219 0.7933 0.1848 26 G 0.0050 0.9446 0.0504 27 V 0.0047 0.9599 0.0355 28 F 0.0047 0.9603 0.0351 29 L 0.0046 0.9613 0.0341 30 V 0.0047 0.9612 0.0342 31 T 0.0046 0.9611 0.0343 32 H 0.0046 0.9599 0.0355 33 W 0.0047 0.9563 0.0390 34 L 0.0048 0.9495 0.0457 35 K 0.0061 0.8926 0.1013 36 N 0.0345 0.6679 0.2976 37 G 0.0200 0.5199 0.4601 38 A 0.0292 0.4585 0.5123 39 E 0.0378 0.5640 0.3981 40 V 0.0651 0.6011 0.3337 41 H 0.0920 0.4899 0.4180 42 R 0.0727 0.5211 0.4062 43 A 0.0367 0.2173 0.7460 44 G 0.0431 0.0644 0.8926 45 L 0.2272 0.0150 0.7578 46 E 0.6968 0.0056 0.2976 47 V 0.9027 0.0033 0.0940 48 K 0.9126 0.0040 0.0835 49 P 0.9244 0.0037 0.0719 50 F 0.8827 0.0140 0.1033 51 I 0.7905 0.0071 0.2024 52 T 0.4450 0.0192 0.5358 53 N 0.1744 0.0166 0.8091 54 P 0.0267 0.6309 0.3424 55 R 0.0178 0.7774 0.2048 56 A 0.0248 0.8651 0.1102 57 V 0.0626 0.8355 0.1018 58 E 0.0780 0.7879 0.1341 59 K 0.0791 0.6443 0.2766 60 C 0.1201 0.3697 0.5101 61 T 0.2141 0.2178 0.5681 62 R 0.3424 0.1841 0.4735 63 Y 0.3457 0.1485 0.5058 64 I 0.2530 0.1171 0.6299 65 D 0.1388 0.0817 0.7794 66 C 0.0941 0.0793 0.8266 67 D 0.1439 0.0586 0.7975 68 L 0.1020 0.2425 0.6555 69 N 0.1092 0.2749 0.6159 70 R 0.1124 0.2841 0.6034 71 V 0.1512 0.1608 0.6881 72 F 0.1702 0.0594 0.7704 73 D 0.1317 0.0738 0.7946 74 L 0.0544 0.4664 0.4792 75 E 0.0312 0.5781 0.3907 76 N 0.0457 0.5616 0.3928 77 L 0.0622 0.4476 0.4901 78 S 0.0604 0.3285 0.6112 79 K 0.0788 0.2756 0.6456 80 E 0.0972 0.2083 0.6945 81 M 0.1102 0.1528 0.7370 82 S 0.0722 0.0720 0.8558 83 E 0.0199 0.1929 0.7872 84 D 0.0247 0.1267 0.8486 85 L 0.0615 0.1045 0.8340 86 P 0.0297 0.6361 0.3342 87 Y 0.0105 0.8959 0.0937 88 E 0.0083 0.9381 0.0536 89 V 0.0058 0.9514 0.0428 90 R 0.0053 0.9577 0.0370 91 R 0.0049 0.9555 0.0396 92 A 0.0047 0.9577 0.0376 93 Q 0.0047 0.9595 0.0358 94 E 0.0047 0.9574 0.0379 95 I 0.0048 0.9509 0.0443 96 N 0.0049 0.9467 0.0484 97 H 0.0061 0.9108 0.0831 98 L 0.0110 0.8144 0.1746 99 F 0.0431 0.5630 0.3939 100 G 0.0462 0.0978 0.8560 101 P 0.0360 0.2160 0.7480 102 K 0.0471 0.2320 0.7209 103 N 0.0534 0.1769 0.7697 104 S 0.0552 0.1563 0.7885 105 D 0.0444 0.1501 0.8055 106 D 0.0746 0.0863 0.8392 107 A 0.1871 0.0403 0.7725 108 Y 0.3725 0.0085 0.6190 109 D 0.6006 0.0121 0.3873 110 V 0.9288 0.0033 0.0680 111 V 0.9332 0.0032 0.0636 112 F 0.9290 0.0036 0.0674 113 D 0.8989 0.0041 0.0970 114 L 0.5705 0.0225 0.4070 115 H 0.2504 0.0520 0.6977 116 N 0.1483 0.0625 0.7892 117 T 0.1229 0.0958 0.7814 118 T 0.1149 0.1825 0.7026 119 S 0.0763 0.2792 0.6444 120 N 0.0937 0.2737 0.6326 121 M 0.1407 0.1744 0.6849 122 G 0.1279 0.0955 0.7767 123 C 0.2686 0.0715 0.6599 124 T 0.4702 0.1001 0.4297 125 L 0.6072 0.1164 0.2764 126 I 0.6057 0.1163 0.2779 127 L 0.4916 0.1337 0.3747 128 E 0.3019 0.1274 0.5707 129 D 0.1324 0.1376 0.7300 130 S 0.0566 0.1905 0.7529 131 R 0.0561 0.1781 0.7658 132 N 0.0591 0.2017 0.7392 133 D 0.0174 0.7379 0.2448 134 F 0.0136 0.8463 0.1400 135 L 0.0072 0.9201 0.0726 136 I 0.0057 0.9450 0.0493 137 Q 0.0057 0.9455 0.0488 138 M 0.0053 0.9405 0.0542 139 F 0.0059 0.9407 0.0534 140 H 0.0053 0.9357 0.0590 141 Y 0.0057 0.9281 0.0663 142 I 0.0087 0.9175 0.0738 143 K 0.0083 0.9105 0.0811 144 T 0.0098 0.8670 0.1231 145 C 0.0165 0.7592 0.2243 146 M 0.0470 0.4882 0.4648 147 A 0.0475 0.2222 0.7303 148 P 0.0436 0.1325 0.8239 149 L 0.0978 0.0378 0.8644 150 P 0.1367 0.0512 0.8121 151 C 0.4130 0.0831 0.5039 152 S 0.6636 0.0885 0.2479 153 V 0.7513 0.0742 0.1745 154 Y 0.7317 0.0642 0.2040 155 L 0.5954 0.0753 0.3293 156 I 0.3380 0.1047 0.5573 157 E 0.1841 0.0836 0.7323 158 H 0.1009 0.0583 0.8408 159 P 0.0529 0.1285 0.8186 160 S 0.0661 0.1515 0.7825 161 L 0.1153 0.2425 0.6422 162 K 0.1045 0.4303 0.4652 163 Y 0.0602 0.7368 0.2030 164 A 0.0506 0.7991 0.1503 165 T 0.0591 0.8093 0.1316 166 T 0.0541 0.8252 0.1207 167 R 0.0304 0.8288 0.1408 168 S 0.0264 0.7472 0.2263 169 I 0.0456 0.4285 0.5258 170 A 0.0582 0.1051 0.8367 171 K 0.1070 0.0550 0.8380 172 Y 0.2343 0.0147 0.7510 173 P 0.5221 0.0096 0.4683 174 V 0.8395 0.0069 0.1537 175 G 0.9008 0.0047 0.0944 176 I 0.8929 0.0080 0.0991 177 E 0.8396 0.0067 0.1537 178 V 0.5632 0.0227 0.4141 179 G 0.2178 0.0189 0.7634 180 P 0.1377 0.0417 0.8206 181 Q 0.1095 0.0419 0.8486 182 P 0.0763 0.1132 0.8105 183 H 0.0617 0.1628 0.7755 184 G 0.0914 0.1343 0.7743 185 V 0.2035 0.1554 0.6411 186 L 0.2695 0.0952 0.6353 187 R 0.1102 0.1190 0.7708 188 A 0.0079 0.9118 0.0803 189 D 0.0072 0.9218 0.0711 190 I 0.0053 0.9438 0.0509 191 L 0.0047 0.9564 0.0389 192 D 0.0047 0.9608 0.0346 193 Q 0.0046 0.9604 0.0350 194 M 0.0047 0.9599 0.0354 195 R 0.0047 0.9609 0.0344 196 R 0.0046 0.9597 0.0357 197 M 0.0046 0.9575 0.0379 198 L 0.0047 0.9596 0.0357 199 K 0.0047 0.9600 0.0353 200 H 0.0047 0.9572 0.0382 201 A 0.0048 0.9527 0.0426 202 L 0.0048 0.9483 0.0469 203 D 0.0052 0.9334 0.0614 204 F 0.0056 0.9128 0.0816 205 I 0.0082 0.8770 0.1148 206 Q 0.0098 0.8198 0.1704 207 R 0.0153 0.7822 0.2025 208 F 0.0368 0.6135 0.3497 209 N 0.0462 0.3399 0.6139 210 E 0.0504 0.1862 0.7633 211 G 0.0445 0.0987 0.8568 212 K 0.0845 0.0786 0.8368 213 E 0.1753 0.0569 0.7679 214 F 0.1287 0.0311 0.8402 215 P 0.0843 0.0494 0.8664 216 P 0.0726 0.1739 0.7535 217 C 0.1068 0.1934 0.6998 218 A 0.1715 0.1884 0.6401 219 I 0.2895 0.1789 0.5316 220 D 0.4634 0.1805 0.3561 221 V 0.4154 0.3795 0.2052 222 Y 0.4276 0.4121 0.1603 223 K 0.4476 0.3956 0.1568 224 I 0.3984 0.4099 0.1917 225 M 0.4256 0.2869 0.2875 226 E 0.3864 0.2664 0.3472 227 K 0.3381 0.2551 0.4068 228 V 0.3254 0.1326 0.5420 229 D 0.2547 0.0980 0.6473 230 Y 0.2387 0.0768 0.6845 231 P 0.2161 0.0749 0.7090 232 R 0.3039 0.1157 0.5804 233 N 0.2573 0.1135 0.6292 234 E 0.2417 0.1372 0.6211 235 S 0.0851 0.0839 0.8309 236 G 0.0781 0.0359 0.8860 237 D 0.3305 0.0200 0.6495 238 V 0.6884 0.0113 0.3002 239 A 0.8123 0.0194 0.1683 240 A 0.8941 0.0066 0.0993 241 V 0.9087 0.0059 0.0854 242 I 0.8690 0.0071 0.1238 243 H 0.5096 0.0106 0.4798 244 P 0.1684 0.1116 0.7200 245 N 0.1007 0.1300 0.7694 246 L 0.0987 0.1813 0.7200 247 Q 0.0744 0.1305 0.7952 248 D 0.0767 0.0872 0.8361 249 Q 0.0950 0.0989 0.8061 250 D 0.1937 0.0762 0.7300 251 W 0.2978 0.0438 0.6584 252 K 0.4265 0.0250 0.5485 253 P 0.5282 0.0212 0.4506 254 L 0.3993 0.0319 0.5688 255 H 0.1847 0.0162 0.7991 256 P 0.0777 0.0723 0.8500 257 G 0.0733 0.0472 0.8795 258 D 0.1891 0.0242 0.7867 259 P 0.3987 0.0253 0.5760 260 V 0.7894 0.0173 0.1933 261 F 0.8787 0.0149 0.1065 262 V 0.8634 0.0165 0.1201 263 S 0.8116 0.0172 0.1711 264 L 0.5871 0.0478 0.3652 265 D 0.1152 0.0316 0.8532 266 G 0.1137 0.0344 0.8519 267 K 0.5824 0.0134 0.4043 268 V 0.8060 0.0061 0.1879 269 I 0.7168 0.0088 0.2744 270 P 0.6011 0.0149 0.3840 271 L 0.3682 0.0298 0.6021 272 G 0.1496 0.0607 0.7897 273 G 0.1360 0.0474 0.8165 274 D 0.3055 0.0466 0.6478 275 C 0.6055 0.0291 0.3654 276 T 0.8287 0.0142 0.1571 277 V 0.8723 0.0107 0.1170 278 Y 0.8372 0.0088 0.1540 279 P 0.7079 0.0213 0.2708 280 V 0.5598 0.0306 0.4095 281 F 0.4104 0.0346 0.5550 282 V 0.2096 0.0900 0.7003 283 N 0.1446 0.0908 0.7646 284 E 0.0257 0.7191 0.2552 285 A 0.0334 0.7642 0.2024 286 A 0.0546 0.7734 0.1721 287 Y 0.0791 0.7642 0.1567 288 Y 0.0843 0.7363 0.1794 289 E 0.0929 0.6626 0.2445 290 K 0.1035 0.6112 0.2853 291 K 0.1001 0.5846 0.3153 292 E 0.1401 0.5186 0.3414 293 A 0.2484 0.4003 0.3513 294 F 0.3676 0.2899 0.3424 295 A 0.4912 0.1811 0.3276 296 K 0.5879 0.1219 0.2901 297 T 0.6270 0.0575 0.3155 298 T 0.6336 0.0498 0.3166 299 K 0.6986 0.0314 0.2700 300 L 0.7605 0.0174 0.2221 301 T 0.7817 0.0160 0.2022 302 L 0.6847 0.0182 0.2971 303 N 0.4606 0.0220 0.5174 304 A 0.1465 0.3906 0.4629 305 K 0.0791 0.4782 0.4427 306 S 0.0993 0.4668 0.4340 307 I 0.2298 0.3141 0.4560 308 R 0.3464 0.2927 0.3609 309 S 0.3958 0.2677 0.3365 310 T 0.4096 0.1930 0.3974 311 L 0.2557 0.1157 0.6286 312 H 0.0578 0.0357 0.9065