# This file is the result of combining several RDB files, specifically # T0262.t04.dssp-ebghstl.rdb (weight 1.53986) # T0262.t04.stride-ebghtl.rdb (weight 1.24869) # T0262.t04.str2.rdb (weight 1.54758) # T0262.t04.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 T0262.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0262 # Using neural net t04-2621-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 T0262.t04-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 28.9813 # # ============================================ # Comments from T0262.t04.stride-ebghtl.rdb # ============================================ # TARGET T0262 # Using neural net t04-2621-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 T0262.t04-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 28.9813 # # ============================================ # Comments from T0262.t04.str2.rdb # ============================================ # TARGET T0262 # Using neural net t04-2621-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 T0262.t04-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 28.9813 # # ============================================ # Comments from T0262.t04.alpha.rdb # ============================================ # TARGET T0262 # Using neural net t04-2621-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 T0262.t04-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 28.9813 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0665 0.0181 0.9154 2 P 0.0696 0.0600 0.8704 3 S 0.0673 0.1390 0.7937 4 S 0.0620 0.1685 0.7695 5 S 0.0773 0.1913 0.7314 6 Q 0.1059 0.2461 0.6480 7 Y 0.2483 0.2527 0.4990 8 R 0.3563 0.2289 0.4148 9 R 0.4457 0.2021 0.3522 10 Y 0.4526 0.1122 0.4352 11 Q 0.3412 0.0813 0.5775 12 D 0.1248 0.0198 0.8555 13 P 0.0203 0.1245 0.8552 14 H 0.0469 0.0754 0.8777 15 H 0.1114 0.0561 0.8325 16 P 0.0438 0.1294 0.8268 17 S 0.0976 0.1021 0.8004 18 I 0.1331 0.0347 0.8323 19 P 0.1596 0.0275 0.8129 20 T 0.1584 0.0241 0.8175 21 P 0.1438 0.0584 0.7978 22 T 0.1732 0.0817 0.7451 23 T 0.2411 0.0782 0.6807 24 L 0.1651 0.0691 0.7658 25 F 0.1053 0.0632 0.8315 26 S 0.1016 0.0666 0.8318 27 Q 0.0827 0.0283 0.8890 28 P 0.0831 0.0504 0.8665 29 S 0.1335 0.1634 0.7032 30 L 0.1858 0.2299 0.5842 31 E 0.2812 0.2261 0.4927 32 I 0.3205 0.2293 0.4503 33 L 0.1946 0.1657 0.6397 34 G 0.1394 0.1073 0.7534 35 G 0.0787 0.1014 0.8199 36 G 0.0968 0.1860 0.7172 37 V 0.1234 0.3323 0.5443 38 A 0.0578 0.6170 0.3252 39 E 0.0403 0.5673 0.3925 40 E 0.0434 0.4536 0.5030 41 L 0.0728 0.1362 0.7910 42 P 0.0271 0.5120 0.4610 43 E 0.0427 0.5926 0.3647 44 L 0.0864 0.6070 0.3066 45 A 0.1442 0.4876 0.3683 46 L 0.2221 0.3713 0.4066 47 C 0.2647 0.1713 0.5640 48 C 0.2184 0.1365 0.6451 49 D 0.1015 0.1006 0.7978 50 G 0.0864 0.0663 0.8473 51 T 0.2845 0.0581 0.6574 52 V 0.5998 0.0451 0.3551 53 V 0.5963 0.0504 0.3532 54 E 0.4056 0.0697 0.5247 55 G 0.2001 0.0477 0.7522 56 R 0.2254 0.0592 0.7154 57 S 0.2082 0.1180 0.6738 58 N 0.1480 0.1292 0.7228 59 C 0.1332 0.1295 0.7374 60 R 0.1347 0.1267 0.7386 61 C 0.1893 0.1186 0.6920 62 K 0.2254 0.1660 0.6086 63 A 0.2580 0.2744 0.4675 64 R 0.3613 0.2822 0.3565 65 A 0.4927 0.2105 0.2967 66 V 0.5352 0.1338 0.3310 67 L 0.2617 0.0297 0.7086 68 P 0.0760 0.0767 0.8473 69 G 0.0380 0.0479 0.9141 70 G 0.0476 0.0591 0.8933 71 M 0.1937 0.1272 0.6791 72 R 0.4993 0.2277 0.2730 73 V 0.3722 0.4521 0.1757 74 R 0.2526 0.6164 0.1310 75 L 0.1387 0.7270 0.1343 76 S 0.0446 0.8394 0.1160 77 K 0.0074 0.9481 0.0445 78 T 0.0071 0.9543 0.0386 79 L 0.0051 0.9563 0.0386 80 A 0.0050 0.9577 0.0373 81 G 0.0059 0.9501 0.0440 82 I 0.0061 0.9302 0.0637 83 L 0.0100 0.8840 0.1060 84 R 0.0212 0.6355 0.3433 85 H 0.0418 0.3732 0.5851 86 H 0.0712 0.0649 0.8640 87 P 0.0305 0.2575 0.7120 88 G 0.0445 0.3040 0.6515 89 R 0.1726 0.3528 0.4746 90 Y 0.2485 0.1116 0.6399 91 G 0.3433 0.0416 0.6150 92 V 0.6171 0.0095 0.3734 93 R 0.7969 0.0045 0.1986 94 L 0.7137 0.0074 0.2789 95 T 0.2661 0.0212 0.7127 96 R 0.0375 0.1365 0.8260 97 E 0.0500 0.0680 0.8820 98 G 0.2007 0.0570 0.7423 99 W 0.5412 0.0159 0.4430 100 A 0.7537 0.0086 0.2378 101 R 0.6026 0.0152 0.3822 102 V 0.0104 0.9303 0.0593 103 S 0.0060 0.9547 0.0393 104 E 0.0053 0.9552 0.0396 105 V 0.0057 0.9544 0.0398 106 V 0.0050 0.9569 0.0382 107 E 0.0047 0.9553 0.0400 108 G 0.0048 0.9514 0.0438 109 L 0.0049 0.9433 0.0517 110 R 0.0056 0.9255 0.0689 111 K 0.0064 0.8744 0.1192 112 A 0.0437 0.3912 0.5650 113 G 0.0307 0.0416 0.9277 114 W 0.0767 0.0456 0.8777 115 S 0.0917 0.1205 0.7878 116 W 0.2046 0.0990 0.6964 117 V 0.2688 0.0300 0.7012 118 E 0.1889 0.0414 0.7696 119 E 0.0208 0.8897 0.0895 120 W 0.0345 0.8514 0.1141 121 H 0.1104 0.7700 0.1195 122 I 0.2524 0.6529 0.0947 123 V 0.2947 0.6227 0.0826 124 G 0.3222 0.6004 0.0773 125 V 0.3342 0.5924 0.0734 126 A 0.3633 0.5389 0.0978 127 L 0.3429 0.4592 0.1979 128 H 0.2620 0.2539 0.4842 129 D 0.0968 0.0193 0.8839 130 P 0.0162 0.1481 0.8357 131 K 0.0633 0.0778 0.8589 132 G 0.0940 0.1094 0.7966 133 R 0.3637 0.0725 0.5638 134 Y 0.7890 0.0322 0.1787 135 E 0.8551 0.0202 0.1246 136 L 0.7961 0.0203 0.1836 137 R 0.5786 0.0300 0.3914 138 N 0.1254 0.0383 0.8363 139 G 0.1311 0.0362 0.8327 140 E 0.6951 0.0144 0.2905 141 I 0.8526 0.0048 0.1425 142 R 0.8413 0.0098 0.1489 143 A 0.7862 0.0212 0.1926 144 R 0.7066 0.0418 0.2517 145 Y 0.6321 0.0411 0.3267 146 G 0.4321 0.0404 0.5275 147 H 0.4474 0.0348 0.5178 148 S 0.4430 0.0279 0.5291 149 I 0.4654 0.0162 0.5184 150 P 0.4479 0.0104 0.5417 151 V 0.4366 0.0141 0.5494 152 N 0.5164 0.0112 0.4725 153 V 0.3983 0.0243 0.5773 154 E 0.3346 0.0173 0.6481 155 P 0.2646 0.0246 0.7108 156 L 0.0983 0.0171 0.8846 157 P 0.0679 0.0478 0.8843 158 G 0.0530 0.0416 0.9055 159 E 0.0786 0.0159 0.9055 160 P 0.0812 0.0119 0.9069 161 P 0.1064 0.0242 0.8695 162 P 0.1608 0.0771 0.7621 163 I 0.6495 0.0413 0.3091 164 L 0.8146 0.0171 0.1683 165 Y 0.8021 0.0149 0.1830 166 H 0.6447 0.0286 0.3268 167 G 0.2529 0.0360 0.7111 168 T 0.1461 0.0534 0.8005 169 T 0.0673 0.3626 0.5701 170 E 0.0112 0.8562 0.1326 171 E 0.0100 0.8780 0.1120 172 A 0.0093 0.8764 0.1143 173 L 0.0051 0.9388 0.0561 174 P 0.0047 0.9535 0.0417 175 L 0.0047 0.9585 0.0368 176 I 0.0047 0.9582 0.0371 177 M 0.0049 0.9525 0.0426 178 E 0.0061 0.9297 0.0642 179 R 0.0378 0.5513 0.4109 180 G 0.0255 0.1059 0.8686 181 I 0.0829 0.0645 0.8526 182 M 0.1268 0.0649 0.8083 183 R 0.0906 0.1488 0.7606 184 G 0.0732 0.1020 0.8248 185 R 0.1546 0.1037 0.7417 186 R 0.4519 0.0647 0.4834 187 L 0.5491 0.0647 0.3862 188 K 0.8210 0.0199 0.1591 189 V 0.8535 0.0133 0.1332 190 H 0.8279 0.0151 0.1570 191 L 0.6228 0.0264 0.3507 192 T 0.2740 0.0327 0.6932 193 S 0.1271 0.0717 0.8012 194 S 0.1042 0.0484 0.8474 195 L 0.0314 0.6651 0.3035 196 E 0.0241 0.7524 0.2234 197 D 0.0321 0.7381 0.2298 198 A 0.0939 0.7007 0.2053 199 V 0.1762 0.6408 0.1830 200 S 0.2792 0.5333 0.1875 201 T 0.3106 0.4124 0.2770 202 G 0.3302 0.2554 0.4144 203 R 0.4080 0.2020 0.3900 204 R 0.4706 0.1367 0.3927 205 H 0.2324 0.0927 0.6749 206 G 0.0794 0.0622 0.8584 207 N 0.0924 0.0543 0.8532 208 L 0.2814 0.0135 0.7051 209 V 0.4965 0.0051 0.4984 210 A 0.8994 0.0036 0.0971 211 V 0.9286 0.0033 0.0681 212 L 0.9298 0.0033 0.0669 213 L 0.9182 0.0034 0.0784 214 V 0.8106 0.0070 0.1825 215 D 0.4243 0.0066 0.5690 216 V 0.0081 0.8944 0.0975 217 E 0.0049 0.9494 0.0457 218 C 0.0049 0.9540 0.0412 219 L 0.0051 0.9549 0.0400 220 R 0.0054 0.9416 0.0529 221 R 0.0066 0.9008 0.0925 222 R 0.0426 0.3705 0.5869 223 G 0.0413 0.0450 0.9137 224 L 0.1339 0.0111 0.8550 225 K 0.6782 0.0105 0.3112 226 V 0.8203 0.0259 0.1538 227 E 0.8273 0.0342 0.1385 228 R 0.7779 0.0350 0.1871 229 M 0.5581 0.0428 0.3991 230 S 0.1645 0.0802 0.7554 231 K 0.0626 0.0697 0.8677 232 T 0.3612 0.0261 0.6127 233 V 0.8577 0.0040 0.1384 234 Y 0.9034 0.0045 0.0921 235 T 0.8937 0.0069 0.0994 236 V 0.7153 0.0302 0.2546 237 D 0.3628 0.0862 0.5511 238 W 0.1868 0.0602 0.7529 239 V 0.1568 0.0171 0.8261 240 P 0.0852 0.0116 0.9032 241 P 0.0106 0.8587 0.1308 242 E 0.0121 0.8817 0.1062 243 C 0.0211 0.8852 0.0936 244 I 0.0771 0.8304 0.0925 245 A 0.1188 0.7788 0.1024 246 E 0.1941 0.7081 0.0978 247 V 0.3272 0.5440 0.1288 248 R 0.3677 0.4621 0.1702 249 R 0.4088 0.3322 0.2590 250 E 0.2433 0.2714 0.4854 251 S 0.1209 0.2244 0.6548 252 L 0.0983 0.1467 0.7550 253 G 0.1176 0.0771 0.8053 254 R 0.1797 0.0518 0.7685 255 S 0.1680 0.0332 0.7989 256 L 0.0659 0.0406 0.8935