# This file is the result of combining several RDB files, specifically # T0272.t04.dssp-ebghstl.rdb (weight 1.53986) # T0272.t04.stride-ebghtl.rdb (weight 1.24869) # T0272.t04.str2.rdb (weight 1.54758) # T0272.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 T0272.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0272 # 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 T0272.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 20 # # ============================================ # Comments from T0272.t04.stride-ebghtl.rdb # ============================================ # TARGET T0272 # 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 T0272.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 20 # # ============================================ # Comments from T0272.t04.str2.rdb # ============================================ # TARGET T0272 # 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 T0272.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 20 # # ============================================ # Comments from T0272.t04.alpha.rdb # ============================================ # TARGET T0272 # 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 T0272.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 20 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.3558 0.0390 0.6052 2 W 0.7252 0.0230 0.2517 3 L 0.7868 0.0155 0.1977 4 T 0.7638 0.0457 0.1905 5 K 0.8490 0.0158 0.1352 6 L 0.8472 0.0088 0.1440 7 V 0.7704 0.0088 0.2208 8 L 0.5158 0.0128 0.4714 9 N 0.1488 0.0078 0.8434 10 P 0.0132 0.5297 0.4571 11 A 0.0133 0.5779 0.4088 12 S 0.0453 0.6372 0.3174 13 R 0.0100 0.8777 0.1123 14 A 0.0140 0.8844 0.1016 15 A 0.0154 0.8678 0.1168 16 R 0.0200 0.8154 0.1645 17 R 0.0279 0.7730 0.1991 18 D 0.0276 0.6595 0.3129 19 L 0.0301 0.5303 0.4396 20 A 0.0604 0.2664 0.6732 21 N 0.0593 0.0621 0.8786 22 P 0.0111 0.7006 0.2884 23 Y 0.0099 0.8558 0.1343 24 E 0.0059 0.9349 0.0593 25 M 0.0048 0.9455 0.0497 26 H 0.0050 0.9527 0.0423 27 R 0.0047 0.9601 0.0353 28 T 0.0047 0.9593 0.0360 29 L 0.0047 0.9559 0.0394 30 S 0.0048 0.9524 0.0428 31 K 0.0051 0.9329 0.0620 32 A 0.0076 0.8838 0.1086 33 V 0.0261 0.6279 0.3460 34 S 0.0279 0.4834 0.4887 35 R 0.0295 0.4637 0.5069 36 A 0.0402 0.4903 0.4694 37 L 0.0231 0.6243 0.3526 38 E 0.0181 0.5590 0.4228 39 E 0.0342 0.3953 0.5705 40 G 0.0355 0.2515 0.7131 41 R 0.0725 0.2105 0.7170 42 E 0.1075 0.2577 0.6347 43 R 0.3432 0.1817 0.4751 44 L 0.7092 0.0976 0.1932 45 L 0.7823 0.0817 0.1360 46 W 0.7702 0.0801 0.1497 47 R 0.7005 0.0621 0.2374 48 L 0.4977 0.0779 0.4243 49 E 0.2150 0.0720 0.7130 50 P 0.1069 0.1749 0.7182 51 A 0.0594 0.3184 0.6222 52 R 0.0528 0.2301 0.7171 53 G 0.0432 0.1132 0.8436 54 L 0.0999 0.0499 0.8501 55 E 0.0900 0.0388 0.8712 56 P 0.1316 0.0168 0.8516 57 P 0.3514 0.0107 0.6379 58 V 0.8840 0.0041 0.1118 59 V 0.9303 0.0034 0.0663 60 L 0.9329 0.0032 0.0639 61 V 0.9250 0.0038 0.0712 62 Q 0.8486 0.0071 0.1443 63 T 0.4575 0.0120 0.5305 64 L 0.1186 0.0556 0.8258 65 T 0.1017 0.0410 0.8573 66 E 0.0823 0.0316 0.8861 67 P 0.0656 0.0795 0.8549 68 D 0.0856 0.1571 0.7573 69 W 0.0659 0.4361 0.4980 70 S 0.0814 0.4411 0.4775 71 V 0.1498 0.4321 0.4181 72 L 0.1716 0.3043 0.5241 73 D 0.1266 0.3031 0.5703 74 E 0.0797 0.3668 0.5535 75 G 0.1286 0.3141 0.5574 76 Y 0.2843 0.3147 0.4009 77 A 0.4214 0.2558 0.3228 78 Q 0.5069 0.1956 0.2975 79 V 0.5280 0.1189 0.3531 80 F 0.2549 0.0404 0.7047 81 P 0.1158 0.0264 0.8578 82 P 0.1021 0.0330 0.8648 83 K 0.1006 0.0304 0.8690 84 P 0.0982 0.0903 0.8115 85 F 0.1137 0.1095 0.7768 86 H 0.1023 0.0832 0.8145 87 P 0.0331 0.3773 0.5896 88 A 0.0537 0.2865 0.6598 89 L 0.1385 0.0837 0.7778 90 K 0.0556 0.0222 0.9223 91 P 0.0230 0.0679 0.9091 92 G 0.0266 0.0402 0.9331 93 Q 0.3321 0.0163 0.6516 94 R 0.7686 0.0039 0.2275 95 L 0.8783 0.0037 0.1181 96 R 0.9061 0.0034 0.0906 97 F 0.9155 0.0035 0.0810 98 R 0.9155 0.0034 0.0811 99 L 0.9061 0.0037 0.0901 100 R 0.8595 0.0052 0.1353 101 A 0.7096 0.0098 0.2807 102 N 0.4451 0.0112 0.5436 103 P 0.2530 0.0781 0.6688 104 A 0.4241 0.1102 0.4657 105 K 0.6300 0.0846 0.2854 106 R 0.7254 0.0500 0.2246 107 L 0.6703 0.0623 0.2674 108 A 0.2833 0.0535 0.6631 109 A 0.0819 0.1400 0.7780 110 T 0.0546 0.0482 0.8972 111 G 0.0834 0.0333 0.8834 112 K 0.3430 0.0103 0.6467 113 R 0.8031 0.0066 0.1903 114 V 0.7437 0.0111 0.2452 115 A 0.6620 0.0186 0.3194 116 L 0.4625 0.0485 0.4889 117 K 0.3168 0.0455 0.6377 118 T 0.1412 0.0208 0.8380 119 P 0.0920 0.1018 0.8062 120 A 0.0253 0.5426 0.4320 121 E 0.0297 0.6312 0.3391 122 K 0.0415 0.6614 0.2971 123 V 0.0626 0.7255 0.2119 124 A 0.0602 0.8107 0.1291 125 W 0.0867 0.8114 0.1019 126 L 0.1118 0.7832 0.1050 127 E 0.0933 0.8146 0.0921 128 R 0.1030 0.7632 0.1337 129 R 0.1072 0.6759 0.2169 130 L 0.0931 0.5909 0.3160 131 E 0.0786 0.5600 0.3614 132 E 0.0458 0.5555 0.3987 133 G 0.0608 0.3456 0.5936 134 G 0.1015 0.2323 0.6662 135 F 0.3269 0.2262 0.4469 136 R 0.5218 0.2215 0.2567 137 L 0.4991 0.2825 0.2184 138 L 0.3517 0.3275 0.3209 139 E 0.1830 0.3341 0.4829 140 G 0.0630 0.2695 0.6675 141 E 0.0772 0.2435 0.6792 142 R 0.0844 0.1926 0.7229 143 G 0.0593 0.1008 0.8399 144 P 0.0590 0.3383 0.6027 145 W 0.0977 0.6222 0.2802 146 V 0.1642 0.6573 0.1785 147 Q 0.2304 0.6048 0.1647 148 I 0.2574 0.5415 0.2012 149 L 0.1853 0.5594 0.2553 150 Q 0.1054 0.5593 0.3352 151 D 0.1070 0.5538 0.3391 152 T 0.1335 0.6268 0.2397 153 F 0.2041 0.6286 0.1674 154 L 0.3006 0.5390 0.1604 155 E 0.3517 0.4960 0.1522 156 V 0.3751 0.4529 0.1720 157 R 0.4433 0.3595 0.1972 158 R 0.4318 0.3235 0.2446 159 K 0.2883 0.3029 0.4088 160 K 0.1772 0.2042 0.6186 161 D 0.1229 0.0836 0.7934 162 G 0.0965 0.0975 0.8060 163 E 0.1102 0.2300 0.6597 164 E 0.1772 0.2696 0.5532 165 A 0.1413 0.1391 0.7195 166 G 0.1684 0.0466 0.7850 167 K 0.4852 0.0109 0.5039 168 L 0.8415 0.0037 0.1548 169 L 0.8467 0.0042 0.1491 170 Q 0.8722 0.0040 0.1238 171 V 0.8588 0.0052 0.1360 172 Q 0.8143 0.0230 0.1627 173 A 0.8999 0.0052 0.0948 174 V 0.9094 0.0041 0.0865 175 L 0.9089 0.0038 0.0873 176 F 0.8386 0.0088 0.1527 177 E 0.5720 0.0252 0.4028 178 G 0.5599 0.0127 0.4273 179 R 0.7871 0.0092 0.2037 180 L 0.8798 0.0047 0.1155 181 E 0.8893 0.0064 0.1042 182 V 0.8022 0.0120 0.1858 183 V 0.4245 0.0358 0.5397 184 D 0.1292 0.0107 0.8601 185 P 0.0061 0.8923 0.1015 186 E 0.0052 0.9426 0.0522 187 R 0.0050 0.9503 0.0447 188 A 0.0048 0.9540 0.0412 189 L 0.0047 0.9561 0.0392 190 A 0.0047 0.9565 0.0388 191 T 0.0048 0.9547 0.0405 192 L 0.0049 0.9455 0.0496 193 R 0.0066 0.9039 0.0894 194 R 0.0403 0.5798 0.3799 195 G 0.0364 0.3422 0.6214 196 V 0.0677 0.1710 0.7612 197 G 0.0721 0.1712 0.7567 198 P 0.0489 0.4364 0.5148 199 G 0.0447 0.5410 0.4144 200 K 0.0663 0.5178 0.4159 201 A 0.1315 0.3991 0.4694 202 L 0.1575 0.2424 0.6001 203 G 0.2027 0.1194 0.6780 204 L 0.2843 0.1074 0.6082 205 G 0.4353 0.0915 0.4732 206 L 0.6499 0.0644 0.2856 207 L 0.7190 0.0368 0.2443 208 S 0.7088 0.0245 0.2667 209 V 0.5368 0.0212 0.4420 210 A 0.2422 0.0129 0.7449 211 P 0.1101 0.0608 0.8291