# This file is the result of combining several RDB files, specifically # T0292.t06.dssp-ebghstl.rdb (weight 1.53986) # T0292.t06.stride-ebghtl.rdb (weight 1.24869) # T0292.t06.str2.rdb (weight 1.54758) # T0292.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 T0292.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0292 # 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 T0292.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 13116 # # ============================================ # Comments from T0292.t06.stride-ebghtl.rdb # ============================================ # TARGET T0292 # 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 T0292.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 13116 # # ============================================ # Comments from T0292.t06.str2.rdb # ============================================ # TARGET T0292 # 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 T0292.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 13116 # # ============================================ # Comments from T0292.t06.alpha.rdb # ============================================ # TARGET T0292 # 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 T0292.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 13116 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0489 0.0301 0.9210 2 R 0.0672 0.0706 0.8621 3 A 0.0698 0.2270 0.7032 4 E 0.0543 0.2652 0.6804 5 D 0.1186 0.2461 0.6354 6 Y 0.4102 0.0897 0.5000 7 E 0.7103 0.0625 0.2271 8 V 0.8180 0.0559 0.1261 9 L 0.7921 0.0551 0.1528 10 Y 0.7660 0.0605 0.1735 11 T 0.7713 0.0654 0.1633 12 I 0.6110 0.0781 0.3109 13 G 0.3902 0.0496 0.5602 14 T 0.3256 0.0708 0.6036 15 G 0.2440 0.0573 0.6987 16 S 0.2337 0.0695 0.6968 17 Y 0.3408 0.0629 0.5963 18 G 0.5439 0.0331 0.4230 19 R 0.8240 0.0167 0.1592 20 C 0.9006 0.0065 0.0929 21 Q 0.8897 0.0102 0.1000 22 K 0.9134 0.0046 0.0820 23 I 0.9077 0.0057 0.0867 24 R 0.9081 0.0050 0.0868 25 R 0.8831 0.0048 0.1121 26 K 0.3649 0.0610 0.5741 27 S 0.0841 0.0794 0.8366 28 D 0.0477 0.0217 0.9306 29 G 0.0587 0.0282 0.9132 30 K 0.5155 0.0076 0.4769 31 I 0.9168 0.0029 0.0802 32 L 0.9094 0.0066 0.0840 33 V 0.9288 0.0034 0.0678 34 W 0.9230 0.0033 0.0737 35 K 0.9026 0.0050 0.0924 36 E 0.8780 0.0039 0.1182 37 L 0.6823 0.0101 0.3076 38 D 0.3818 0.0187 0.5995 39 Y 0.0516 0.3203 0.6281 40 G 0.0344 0.2509 0.7146 41 S 0.0556 0.2168 0.7276 42 M 0.1126 0.0557 0.8316 43 T 0.0620 0.0456 0.8924 44 E 0.0052 0.9333 0.0615 45 A 0.0049 0.9397 0.0553 46 E 0.0049 0.9449 0.0503 47 K 0.0047 0.9549 0.0404 48 Q 0.0048 0.9534 0.0418 49 M 0.0047 0.9530 0.0423 50 L 0.0047 0.9573 0.0379 51 V 0.0047 0.9594 0.0359 52 S 0.0047 0.9599 0.0354 53 E 0.0047 0.9607 0.0346 54 V 0.0047 0.9608 0.0345 55 N 0.0047 0.9598 0.0356 56 L 0.0047 0.9568 0.0385 57 L 0.0048 0.9488 0.0464 58 R 0.0053 0.9155 0.0792 59 E 0.0070 0.7910 0.2020 60 L 0.0499 0.5083 0.4418 61 K 0.0381 0.2048 0.7571 62 H 0.0744 0.0404 0.8852 63 P 0.0126 0.2323 0.7551 64 N 0.0338 0.1985 0.7677 65 I 0.2269 0.3555 0.4176 66 V 0.3808 0.3463 0.2729 67 R 0.5470 0.3011 0.1518 68 Y 0.5863 0.2921 0.1216 69 Y 0.6232 0.2387 0.1381 70 D 0.5596 0.2425 0.1979 71 R 0.5692 0.2177 0.2131 72 I 0.6423 0.1621 0.1957 73 I 0.5968 0.1386 0.2646 74 D 0.3459 0.0921 0.5620 75 R 0.0999 0.1526 0.7475 76 T 0.0971 0.0903 0.8126 77 N 0.0650 0.0641 0.8709 78 T 0.1232 0.0494 0.8274 79 T 0.6313 0.0088 0.3599 80 L 0.8893 0.0036 0.1071 81 Y 0.9282 0.0034 0.0683 82 I 0.9324 0.0032 0.0644 83 V 0.9256 0.0035 0.0709 84 M 0.8949 0.0050 0.1001 85 E 0.7893 0.0119 0.1988 86 Y 0.5859 0.0243 0.3898 87 C 0.1929 0.0238 0.7833 88 E 0.0691 0.0695 0.8614 89 G 0.0480 0.0345 0.9175 90 G 0.0919 0.0215 0.8866 91 D 0.1423 0.0187 0.8389 92 L 0.0073 0.9231 0.0696 93 A 0.0050 0.9496 0.0454 94 S 0.0050 0.9524 0.0426 95 V 0.0070 0.9480 0.0449 96 I 0.0108 0.9272 0.0620 97 T 0.0150 0.8524 0.1326 98 K 0.0370 0.6076 0.3554 99 G 0.0404 0.2439 0.7157 100 T 0.0589 0.1170 0.8242 101 K 0.0766 0.1831 0.7403 102 E 0.0685 0.2219 0.7095 103 R 0.0727 0.2138 0.7135 104 Q 0.1654 0.1465 0.6881 105 Y 0.2746 0.0831 0.6424 106 L 0.1408 0.0183 0.8408 107 D 0.0686 0.0151 0.9163 108 E 0.0048 0.9533 0.0419 109 E 0.0047 0.9604 0.0350 110 F 0.0047 0.9594 0.0359 111 V 0.0046 0.9613 0.0340 112 L 0.0046 0.9612 0.0342 113 R 0.0046 0.9612 0.0341 114 V 0.0046 0.9611 0.0342 115 M 0.0046 0.9613 0.0341 116 T 0.0046 0.9615 0.0338 117 Q 0.0046 0.9610 0.0343 118 L 0.0047 0.9607 0.0346 119 T 0.0047 0.9605 0.0348 120 L 0.0046 0.9594 0.0360 121 A 0.0046 0.9592 0.0361 122 L 0.0047 0.9601 0.0352 123 K 0.0047 0.9599 0.0354 124 E 0.0048 0.9561 0.0392 125 C 0.0052 0.9428 0.0520 126 H 0.0066 0.8901 0.1033 127 R 0.0115 0.7032 0.2853 128 R 0.0382 0.3957 0.5661 129 S 0.0556 0.0904 0.8539 130 D 0.0372 0.1060 0.8567 131 G 0.0445 0.0854 0.8701 132 G 0.0651 0.0673 0.8677 133 H 0.1446 0.0532 0.8022 134 T 0.4968 0.0361 0.4671 135 V 0.7250 0.0283 0.2468 136 L 0.7369 0.0341 0.2290 137 H 0.6041 0.0679 0.3280 138 R 0.3313 0.1255 0.5432 139 D 0.2168 0.0961 0.6871 140 L 0.1719 0.0795 0.7486 141 K 0.1071 0.0469 0.8460 142 P 0.0730 0.3633 0.5638 143 A 0.1009 0.4135 0.4856 144 N 0.2430 0.3775 0.3795 145 V 0.6444 0.0901 0.2655 146 F 0.8168 0.0340 0.1492 147 L 0.7786 0.0306 0.1909 148 D 0.3012 0.0254 0.6733 149 G 0.0324 0.1220 0.8455 150 K 0.0526 0.0441 0.9033 151 Q 0.0997 0.0357 0.8646 152 N 0.3833 0.0107 0.6061 153 V 0.8441 0.0038 0.1522 154 K 0.8816 0.0058 0.1127 155 L 0.8598 0.0118 0.1283 156 G 0.6845 0.0233 0.2922 157 D 0.4688 0.0450 0.4862 158 F 0.2250 0.1243 0.6507 159 G 0.1498 0.1477 0.7026 160 L 0.2462 0.2941 0.4597 161 A 0.3201 0.3411 0.3388 162 R 0.4143 0.3348 0.2509 163 I 0.4491 0.3028 0.2482 164 L 0.3636 0.2177 0.4187 165 N 0.1865 0.0935 0.7200 166 H 0.0667 0.1413 0.7920 167 D 0.0645 0.1181 0.8174 168 T 0.1012 0.1387 0.7601 169 S 0.2231 0.1297 0.6472 170 F 0.4214 0.1422 0.4364 171 A 0.4667 0.1299 0.4034 172 K 0.5000 0.1139 0.3860 173 A 0.5241 0.0803 0.3956 174 F 0.5775 0.0519 0.3706 175 V 0.5065 0.0590 0.4345 176 G 0.2792 0.0342 0.6866 177 T 0.1598 0.0377 0.8025 178 P 0.0528 0.3987 0.5485 179 Y 0.0582 0.4289 0.5129 180 Y 0.1212 0.3977 0.4811 181 M 0.1619 0.1462 0.6919 182 S 0.1281 0.0901 0.7818 183 P 0.0426 0.7005 0.2569 184 E 0.0592 0.8005 0.1403 185 Q 0.0686 0.7890 0.1424 186 M 0.0798 0.7340 0.1863 187 N 0.0486 0.4850 0.4664 188 R 0.0356 0.1812 0.7831 189 M 0.0924 0.0569 0.8507 190 S 0.1518 0.0519 0.7963 191 Y 0.1477 0.0609 0.7914 192 N 0.0812 0.0402 0.8785 193 E 0.0312 0.5466 0.4222 194 K 0.0308 0.7091 0.2601 195 S 0.0442 0.7502 0.2056 196 D 0.0380 0.7885 0.1735 197 I 0.0199 0.9082 0.0719 198 W 0.0111 0.9215 0.0674 199 S 0.0088 0.9379 0.0533 200 L 0.0085 0.9439 0.0476 201 G 0.0051 0.9552 0.0397 202 C 0.0047 0.9583 0.0369 203 L 0.0047 0.9593 0.0360 204 L 0.0047 0.9603 0.0350 205 Y 0.0047 0.9602 0.0351 206 E 0.0048 0.9579 0.0374 207 L 0.0051 0.9471 0.0478 208 C 0.0088 0.8842 0.1070 209 A 0.0416 0.6443 0.3141 210 L 0.0464 0.2056 0.7480 211 M 0.0589 0.0234 0.9177 212 P 0.0750 0.0226 0.9024 213 P 0.0768 0.0823 0.8409 214 F 0.0953 0.1322 0.7725 215 T 0.0685 0.1684 0.7631 216 A 0.0624 0.1454 0.7922 217 F 0.0913 0.0638 0.8449 218 S 0.0766 0.0379 0.8854 219 Q 0.0055 0.9230 0.0715 220 K 0.0050 0.9506 0.0445 221 E 0.0049 0.9506 0.0445 222 L 0.0053 0.9503 0.0444 223 A 0.0053 0.9438 0.0509 224 G 0.0056 0.9274 0.0670 225 K 0.0081 0.9197 0.0722 226 I 0.0206 0.8929 0.0865 227 R 0.0208 0.8415 0.1378 228 E 0.0411 0.5303 0.4286 229 G 0.0372 0.2259 0.7370 230 K 0.0983 0.1440 0.7577 231 F 0.1770 0.1001 0.7229 232 R 0.1833 0.0871 0.7296 233 R 0.1632 0.0864 0.7504 234 I 0.0913 0.0363 0.8724 235 P 0.0695 0.0829 0.8476 236 Y 0.0425 0.2107 0.7468 237 R 0.0614 0.1972 0.7414 238 Y 0.0728 0.0740 0.8532 239 S 0.0526 0.0568 0.8905 240 D 0.0051 0.9040 0.0909 241 E 0.0051 0.9255 0.0694 242 L 0.0048 0.9542 0.0411 243 N 0.0047 0.9605 0.0349 244 E 0.0047 0.9608 0.0346 245 I 0.0047 0.9601 0.0352 246 I 0.0047 0.9590 0.0363 247 T 0.0047 0.9544 0.0408 248 R 0.0051 0.9349 0.0600 249 M 0.0056 0.8815 0.1129 250 L 0.0111 0.7661 0.2228 251 N 0.0297 0.4394 0.5309 252 L 0.0601 0.2334 0.7065 253 K 0.0821 0.0506 0.8673 254 D 0.0144 0.4968 0.4888 255 Y 0.0183 0.4550 0.5267 256 H 0.0411 0.3844 0.5745 257 R 0.0956 0.0298 0.8746 258 P 0.1522 0.0212 0.8266 259 S 0.1339 0.0212 0.8449 260 V 0.0049 0.9459 0.0491 261 E 0.0047 0.9577 0.0376 262 E 0.0047 0.9574 0.0378 263 I 0.0048 0.9480 0.0472 264 L 0.0056 0.8630 0.1315 265 E 0.0113 0.5717 0.4170 266 N 0.0763 0.1561 0.7676 267 P 0.0082 0.6756 0.3162 268 L 0.0227 0.6634 0.3139 269 I 0.0596 0.7318 0.2086 270 L 0.1204 0.6209 0.2588 271 E 0.1057 0.4769 0.4174 272 H 0.0797 0.3122 0.6081 273 H 0.0796 0.1420 0.7784 274 H 0.0605 0.0849 0.8546 275 H 0.0690 0.0874 0.8435 276 H 0.0693 0.0669 0.8638 277 H 0.0437 0.0384 0.9179