# This file is the result of combining several RDB files, specifically # T0264.t04.dssp-ebghstl.rdb (weight 1.53986) # T0264.t04.stride-ebghtl.rdb (weight 1.24869) # T0264.t04.str2.rdb (weight 1.54758) # T0264.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 T0264.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0264 # 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 T0264.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 828 # # ============================================ # Comments from T0264.t04.stride-ebghtl.rdb # ============================================ # TARGET T0264 # 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 T0264.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 828 # # ============================================ # Comments from T0264.t04.str2.rdb # ============================================ # TARGET T0264 # 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 T0264.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 828 # # ============================================ # Comments from T0264.t04.alpha.rdb # ============================================ # TARGET T0264 # 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 T0264.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 828 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0760 0.0572 0.8667 2 A 0.0802 0.1017 0.8180 3 R 0.0597 0.1649 0.7755 4 G 0.0598 0.1289 0.8113 5 R 0.0844 0.1333 0.7823 6 E 0.1330 0.1327 0.7343 7 A 0.2253 0.0517 0.7231 8 V 0.4256 0.0103 0.5642 9 T 0.8385 0.0041 0.1574 10 L 0.9303 0.0033 0.0664 11 L 0.9321 0.0034 0.0645 12 L 0.9316 0.0031 0.0653 13 V 0.8757 0.0187 0.1056 14 G 0.6586 0.0081 0.3333 15 W 0.2561 0.0358 0.7081 16 G 0.1209 0.0402 0.8389 17 Y 0.0774 0.0321 0.8906 18 A 0.0763 0.0231 0.9006 19 P 0.0110 0.3722 0.6168 20 G 0.0130 0.3253 0.6617 21 M 0.0310 0.4708 0.4982 22 Q 0.0956 0.2194 0.6850 23 T 0.0592 0.3578 0.5830 24 L 0.0048 0.9537 0.0415 25 E 0.0047 0.9585 0.0368 26 A 0.0047 0.9587 0.0365 27 L 0.0047 0.9603 0.0350 28 D 0.0047 0.9604 0.0350 29 A 0.0049 0.9537 0.0414 30 V 0.0054 0.9312 0.0635 31 R 0.0079 0.8323 0.1597 32 R 0.0173 0.4478 0.5349 33 A 0.0793 0.0706 0.8500 34 D 0.0492 0.0622 0.8885 35 V 0.8393 0.0186 0.1420 36 V 0.9203 0.0074 0.0723 37 Y 0.9039 0.0067 0.0894 38 V 0.7530 0.0167 0.2302 39 E 0.3146 0.0890 0.5964 40 S 0.1150 0.2043 0.6807 41 Y 0.0933 0.2479 0.6588 42 T 0.1014 0.0893 0.8093 43 M 0.0593 0.0669 0.8738 44 P 0.0130 0.5476 0.4394 45 G 0.0208 0.5544 0.4248 46 S 0.0355 0.6760 0.2885 47 S 0.0346 0.7251 0.2402 48 W 0.0191 0.7891 0.1918 49 L 0.0279 0.7923 0.1797 50 Y 0.0247 0.8063 0.1691 51 K 0.0106 0.8936 0.0958 52 S 0.0082 0.9122 0.0796 53 V 0.0109 0.8912 0.0980 54 V 0.0183 0.8773 0.1044 55 E 0.0182 0.8451 0.1367 56 A 0.0248 0.7786 0.1966 57 A 0.0478 0.6148 0.3374 58 G 0.0718 0.3611 0.5671 59 E 0.1187 0.2805 0.6008 60 A 0.2776 0.1901 0.5323 61 R 0.5005 0.1406 0.3590 62 V 0.6048 0.1355 0.2597 63 V 0.5299 0.1491 0.3210 64 E 0.3745 0.1535 0.4719 65 A 0.1635 0.1821 0.6544 66 S 0.0725 0.1467 0.7808 67 R 0.0641 0.1619 0.7739 68 R 0.0690 0.1401 0.7910 69 D 0.0828 0.1446 0.7726 70 L 0.0064 0.9107 0.0829 71 E 0.0052 0.9472 0.0476 72 E 0.0049 0.9484 0.0468 73 R 0.0050 0.9457 0.0493 74 S 0.0047 0.9544 0.0409 75 R 0.0047 0.9591 0.0363 76 E 0.0047 0.9583 0.0370 77 I 0.0047 0.9580 0.0373 78 V 0.0047 0.9578 0.0375 79 S 0.0047 0.9584 0.0370 80 R 0.0049 0.9506 0.0446 81 A 0.0050 0.9194 0.0756 82 L 0.0080 0.7736 0.2184 83 D 0.0385 0.2269 0.7345 84 A 0.0475 0.0326 0.9199 85 V 0.1381 0.0143 0.8476 86 V 0.7411 0.0036 0.2553 87 A 0.9066 0.0038 0.0897 88 V 0.9272 0.0035 0.0693 89 V 0.9079 0.0042 0.0879 90 T 0.7350 0.0092 0.2558 91 A 0.3419 0.0527 0.6053 92 G 0.1414 0.0334 0.8252 93 D 0.1217 0.0279 0.8504 94 P 0.0678 0.1685 0.7636 95 M 0.1385 0.2329 0.6287 96 V 0.2161 0.3179 0.4661 97 A 0.1746 0.2931 0.5323 98 T 0.1011 0.2710 0.6280 99 T 0.0509 0.5138 0.4353 100 H 0.0093 0.8754 0.1153 101 S 0.0048 0.9518 0.0434 102 S 0.0047 0.9597 0.0357 103 L 0.0047 0.9596 0.0357 104 A 0.0047 0.9606 0.0347 105 A 0.0046 0.9612 0.0342 106 E 0.0046 0.9617 0.0336 107 A 0.0047 0.9611 0.0343 108 L 0.0048 0.9553 0.0400 109 E 0.0053 0.9323 0.0624 110 A 0.0423 0.3567 0.6010 111 G 0.0430 0.0118 0.9451 112 V 0.0743 0.0080 0.9177 113 A 0.5586 0.0047 0.4368 114 V 0.9007 0.0040 0.0953 115 R 0.9126 0.0041 0.0833 116 Y 0.8834 0.0038 0.1128 117 I 0.5352 0.0155 0.4493 118 P 0.1485 0.0446 0.8069 119 G 0.0741 0.0456 0.8803 120 V 0.0691 0.4058 0.5252 121 S 0.0470 0.7168 0.2362 122 G 0.0080 0.9450 0.0470 123 V 0.0047 0.9574 0.0379 124 Q 0.0060 0.9560 0.0381 125 A 0.0066 0.9541 0.0393 126 A 0.0048 0.9558 0.0394 127 R 0.0050 0.9516 0.0434 128 G 0.0057 0.9350 0.0593 129 A 0.0077 0.8659 0.1264 130 T 0.0354 0.6225 0.3422 131 M 0.0396 0.2038 0.7566 132 L 0.0836 0.0794 0.8370 133 S 0.1294 0.1074 0.7632 134 F 0.1957 0.2301 0.5743 135 Y 0.2504 0.1872 0.5625 136 R 0.2558 0.1531 0.5911 137 F 0.1718 0.1192 0.7089 138 G 0.1482 0.0772 0.7745 139 G 0.3204 0.0671 0.6125 140 T 0.5773 0.0414 0.3813 141 V 0.6750 0.0332 0.2918 142 T 0.7207 0.0201 0.2592 143 L 0.6012 0.0164 0.3825 144 P 0.4539 0.0369 0.5092 145 G 0.3122 0.0376 0.6501 146 P 0.2512 0.0742 0.6746 147 W 0.1766 0.1016 0.7218 148 R 0.0974 0.1208 0.7818 149 G 0.0848 0.0696 0.8456 150 V 0.1813 0.0408 0.7779 151 T 0.1862 0.0220 0.7918 152 P 0.1710 0.0748 0.7542 153 I 0.1052 0.1942 0.7007 154 S 0.0779 0.3342 0.5879 155 V 0.0103 0.8807 0.1090 156 A 0.0077 0.9205 0.0718 157 R 0.0081 0.9300 0.0619 158 R 0.0092 0.9380 0.0528 159 I 0.0127 0.9344 0.0529 160 Y 0.0120 0.9333 0.0548 161 L 0.0130 0.9254 0.0616 162 N 0.0131 0.9081 0.0788 163 L 0.0107 0.8969 0.0925 164 C 0.0105 0.8666 0.1229 165 A 0.0393 0.6337 0.3270 166 G 0.0363 0.3750 0.5888 167 L 0.0577 0.2408 0.7016 168 H 0.1362 0.2552 0.6086 169 T 0.2688 0.3529 0.3783 170 T 0.3558 0.4045 0.2397 171 A 0.3905 0.3867 0.2227 172 L 0.2598 0.4930 0.2472 173 L 0.1419 0.5492 0.3089 174 D 0.1263 0.5266 0.3471 175 V 0.0475 0.7341 0.2184 176 D 0.0285 0.7102 0.2613 177 E 0.0297 0.6087 0.3615 178 R 0.0611 0.1405 0.7983 179 G 0.0558 0.0392 0.9050 180 V 0.2100 0.0167 0.7733 181 Q 0.7688 0.0079 0.2233 182 L 0.8502 0.0089 0.1408 183 S 0.7952 0.0113 0.1935 184 P 0.5599 0.0687 0.3715 185 G 0.2817 0.0843 0.6340 186 Q 0.1526 0.1270 0.7205 187 G 0.1088 0.1486 0.7426 188 V 0.0387 0.6134 0.3479 189 S 0.0272 0.7401 0.2326 190 L 0.0200 0.8156 0.1644 191 L 0.0163 0.8155 0.1682 192 L 0.0168 0.7999 0.1833 193 E 0.0238 0.7846 0.1916 194 A 0.0440 0.7345 0.2215 195 D 0.0333 0.7120 0.2548 196 R 0.0059 0.9183 0.0758 197 E 0.0048 0.9507 0.0445 198 Y 0.0047 0.9580 0.0373 199 A 0.0047 0.9584 0.0368 200 R 0.0049 0.9515 0.0436 201 E 0.0064 0.9119 0.0817 202 A 0.0439 0.5325 0.4236 203 G 0.0327 0.0618 0.9055 204 A 0.0606 0.0658 0.8736 205 P 0.0807 0.2788 0.6405 206 A 0.0714 0.4255 0.5031 207 L 0.0823 0.3332 0.5845 208 L 0.0742 0.2415 0.6843 209 A 0.0247 0.2747 0.7006 210 R 0.0413 0.1461 0.8126 211 L 0.1212 0.0220 0.8568 212 P 0.1862 0.0199 0.7940 213 S 0.8003 0.0091 0.1906 214 V 0.9149 0.0050 0.0801 215 L 0.9315 0.0038 0.0648 216 V 0.9028 0.0140 0.0833 217 E 0.8768 0.0086 0.1146 218 A 0.7332 0.0282 0.2386 219 G 0.4786 0.0600 0.4614 220 A 0.3681 0.0708 0.5611 221 G 0.2406 0.0495 0.7099 222 G 0.0972 0.0445 0.8583 223 G 0.0772 0.0729 0.8499 224 H 0.1225 0.0776 0.7999 225 R 0.5748 0.0282 0.3971 226 V 0.8451 0.0095 0.1454 227 L 0.9071 0.0068 0.0861 228 Y 0.8888 0.0136 0.0975 229 W 0.8129 0.0121 0.1750 230 S 0.5601 0.0129 0.4270 231 S 0.3302 0.0156 0.6542 232 L 0.0106 0.8522 0.1372 233 E 0.0070 0.8898 0.1033 234 R 0.0082 0.8839 0.1080 235 L 0.0189 0.8005 0.1806 236 S 0.0206 0.7667 0.2127 237 T 0.0176 0.8158 0.1666 238 A 0.0277 0.7715 0.2008 239 D 0.0438 0.6813 0.2749 240 V 0.0367 0.5761 0.3871 241 E 0.0416 0.3141 0.6443 242 G 0.0546 0.0701 0.8753 243 G 0.0514 0.0379 0.9107 244 V 0.1846 0.0139 0.8015 245 Y 0.4824 0.0083 0.5093 246 S 0.8945 0.0041 0.1015 247 I 0.9314 0.0034 0.0652 248 V 0.9311 0.0032 0.0657 249 I 0.8903 0.0046 0.1051 250 P 0.6358 0.0077 0.3565 251 A 0.2314 0.0426 0.7261 252 R 0.1676 0.0590 0.7734 253 L 0.1502 0.1426 0.7071 254 S 0.1021 0.1998 0.6981 255 G 0.0859 0.2824 0.6317 256 V 0.0304 0.8114 0.1582 257 E 0.0167 0.9169 0.0664 258 E 0.0145 0.9308 0.0547 259 W 0.0160 0.9257 0.0583 260 L 0.0181 0.9080 0.0739 261 L 0.0206 0.8624 0.1170 262 A 0.0220 0.7981 0.1800 263 A 0.0340 0.7041 0.2619 264 A 0.0500 0.5353 0.4147 265 S 0.0502 0.3050 0.6448 266 G 0.0339 0.1715 0.7946 267 Q 0.0536 0.1356 0.8108 268 R 0.0963 0.1019 0.8017 269 R 0.0949 0.0441 0.8610 270 P 0.0678 0.2749 0.6573 271 L 0.0585 0.4441 0.4974 272 E 0.0919 0.4678 0.4403 273 Y 0.0979 0.4985 0.4036 274 D 0.1060 0.4160 0.4780 275 R 0.0941 0.4193 0.4866 276 S 0.1064 0.4431 0.4505 277 V 0.0624 0.7431 0.1945 278 Y 0.0653 0.7683 0.1665 279 E 0.1078 0.7469 0.1453 280 T 0.1609 0.7217 0.1174 281 V 0.1386 0.7093 0.1521 282 E 0.1117 0.7501 0.1382 283 E 0.0709 0.6809 0.2483 284 N 0.0740 0.4547 0.4713 285 C 0.1932 0.2292 0.5776 286 K 0.1902 0.2024 0.6074 287 K 0.0838 0.2655 0.6507 288 G 0.0821 0.1299 0.7880 289 V 0.2585 0.1369 0.6046 290 Y 0.4202 0.0845 0.4953 291 M 0.4198 0.0386 0.5416 292 E 0.4971 0.0197 0.4832 293 P 0.3275 0.0164 0.6561 294 V 0.0926 0.0300 0.8775