# This file is the result of combining several RDB files, specifically # T0206.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0206.t2k.stride-ebghtl.rdb (weight 1.24869) # T0206.t2k.str2.rdb (weight 1.54758) # T0206.t2k.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 T0206.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0206 # Using neural net t2k-5740-IDaaHr-5-15-7-15-9-15-13-ebghstl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0206.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 234 # # ============================================ # Comments from T0206.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0206 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0206.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 234 # # ============================================ # Comments from T0206.t2k.str2.rdb # ============================================ # TARGET T0206 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str2-from-empty.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0206.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 234 # # ============================================ # Comments from T0206.t2k.alpha.rdb # ============================================ # TARGET T0206 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-alpha-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0206.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(-1 bits/column, 1) # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 234 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0600 0.0326 0.9074 2 A 0.1182 0.0492 0.8327 3 F 0.0929 0.0610 0.8461 4 D 0.0934 0.0769 0.8297 5 P 0.1301 0.0980 0.7719 6 N 0.0942 0.0618 0.8440 7 L 0.1141 0.0658 0.8201 8 V 0.1732 0.0784 0.7484 9 G 0.0977 0.0606 0.8417 10 P 0.0947 0.0588 0.8465 11 T 0.1174 0.0782 0.8044 12 L 0.0920 0.0530 0.8551 13 P 0.0961 0.0523 0.8516 14 P 0.1235 0.0736 0.8030 15 I 0.1205 0.0630 0.8166 16 P 0.1449 0.0584 0.7967 17 P 0.1218 0.0522 0.8260 18 F 0.1302 0.0598 0.8100 19 T 0.1771 0.0669 0.7560 20 L 0.1171 0.0488 0.8341 21 P 0.1110 0.0621 0.8270 22 T 0.1484 0.0670 0.7846 23 G 0.0992 0.0481 0.8527 24 P 0.0938 0.0637 0.8425 25 T 0.1135 0.0709 0.8156 26 G 0.0948 0.0555 0.8497 27 P 0.1075 0.0667 0.8258 28 T 0.1653 0.0788 0.7559 29 G 0.1046 0.0571 0.8383 30 P 0.1057 0.0675 0.8268 31 T 0.1586 0.0763 0.7651 32 G 0.0942 0.0536 0.8522 33 P 0.0959 0.0653 0.8387 34 T 0.1414 0.0688 0.7898 35 G 0.0971 0.0537 0.8492 36 P 0.0984 0.0632 0.8384 37 T 0.1305 0.0762 0.7933 38 G 0.1012 0.0603 0.8386 39 P 0.1076 0.0682 0.8242 40 T 0.1472 0.0826 0.7702 41 G 0.0949 0.0554 0.8497 42 P 0.1015 0.0737 0.8249 43 T 0.1449 0.0788 0.7763 44 G 0.0903 0.0512 0.8585 45 D 0.1084 0.0549 0.8367 46 T 0.1627 0.0701 0.7672 47 G 0.1047 0.0530 0.8422 48 T 0.1139 0.0648 0.8213 49 T 0.1703 0.0717 0.7580 50 G 0.1015 0.0478 0.8507 51 P 0.1091 0.0537 0.8371 52 T 0.1600 0.0684 0.7715 53 G 0.1030 0.0508 0.8462 54 P 0.1068 0.0614 0.8318 55 T 0.1476 0.0688 0.7836 56 G 0.1006 0.0493 0.8501 57 P 0.1055 0.0612 0.8333 58 T 0.1605 0.0700 0.7695 59 G 0.1065 0.0474 0.8461 60 P 0.1101 0.0600 0.8299 61 T 0.1561 0.0696 0.7742 62 G 0.1061 0.0493 0.8447 63 P 0.1044 0.0659 0.8297 64 T 0.1460 0.0726 0.7814 65 G 0.1076 0.0533 0.8391 66 A 0.1055 0.0674 0.8271 67 T 0.1343 0.0737 0.7920 68 G 0.1035 0.0528 0.8438 69 L 0.1051 0.0640 0.8308 70 T 0.1344 0.0807 0.7849 71 G 0.0988 0.0582 0.8429 72 P 0.0972 0.0696 0.8332 73 T 0.1290 0.0763 0.7947 74 G 0.0917 0.0521 0.8562 75 P 0.1014 0.0632 0.8354 76 T 0.1500 0.0725 0.7775 77 G 0.0970 0.0544 0.8486 78 P 0.1016 0.0601 0.8383 79 S 0.1353 0.0797 0.7850 80 G 0.1077 0.0711 0.8213 81 L 0.0995 0.0795 0.8209 82 G 0.1294 0.0855 0.7851 83 L 0.1109 0.0713 0.8177 84 P 0.1152 0.0883 0.7966 85 A 0.1161 0.1027 0.7812 86 G 0.1194 0.0800 0.8006 87 L 0.1701 0.0743 0.7556 88 Y 0.2242 0.0804 0.6954 89 A 0.2589 0.1058 0.6353 90 F 0.2786 0.0936 0.6278 91 N 0.2637 0.1028 0.6335 92 S 0.2256 0.0992 0.6752 93 G 0.1904 0.0602 0.7494 94 G 0.1658 0.0700 0.7641 95 I 0.1621 0.0886 0.7493 96 S 0.1249 0.0623 0.8128 97 L 0.1302 0.0631 0.8066 98 D 0.1776 0.0651 0.7572 99 L 0.1115 0.0906 0.7979 100 G 0.0907 0.0980 0.8113 101 I 0.0882 0.1150 0.7968 102 N 0.0894 0.0659 0.8448 103 D 0.1565 0.0454 0.7982 104 P 0.3621 0.0415 0.5964 105 V 0.3834 0.0367 0.5799 106 P 0.3563 0.0540 0.5897 107 F 0.3314 0.0692 0.5994 108 N 0.2518 0.0663 0.6819 109 T 0.3649 0.0890 0.5461 110 V 0.6799 0.0496 0.2705 111 G 0.7257 0.0453 0.2290 112 S 0.6680 0.0492 0.2828 113 Q 0.4597 0.0545 0.4859 114 F 0.1913 0.1131 0.6956 115 G 0.1129 0.1182 0.7689 116 T 0.1700 0.1096 0.7204 117 A 0.3668 0.0637 0.5695 118 I 0.5576 0.0423 0.4001 119 S 0.6688 0.0235 0.3078 120 Q 0.4758 0.0304 0.4938 121 L 0.1068 0.2115 0.6816 122 D 0.0765 0.1456 0.7779 123 A 0.1041 0.0544 0.8415 124 D 0.0937 0.0425 0.8638 125 T 0.6488 0.0115 0.3397 126 F 0.8845 0.0050 0.1105 127 V 0.8880 0.0065 0.1055 128 I 0.8432 0.0064 0.1504 129 S 0.6805 0.0189 0.3005 130 E 0.4399 0.0261 0.5340 131 T 0.1496 0.0463 0.8041 132 G 0.1923 0.0354 0.7723 133 F 0.7325 0.0080 0.2595 134 Y 0.8912 0.0037 0.1051 135 K 0.9215 0.0033 0.0752 136 I 0.9208 0.0040 0.0753 137 T 0.9203 0.0036 0.0761 138 V 0.9131 0.0039 0.0830 139 I 0.9020 0.0037 0.0943 140 A 0.8772 0.0054 0.1174 141 N 0.8020 0.0096 0.1883 142 T 0.6091 0.0428 0.3482 143 A 0.3442 0.0581 0.5977 144 T 0.2215 0.0730 0.7055 145 A 0.1835 0.0961 0.7205 146 S 0.3056 0.0980 0.5964 147 V 0.6331 0.0772 0.2897 148 L 0.7954 0.0370 0.1676 149 G 0.8402 0.0324 0.1274 150 G 0.8974 0.0171 0.0855 151 L 0.9064 0.0134 0.0802 152 T 0.9009 0.0156 0.0836 153 I 0.8974 0.0156 0.0870 154 Q 0.8405 0.0302 0.1293 155 V 0.7010 0.0404 0.2587 156 N 0.1218 0.0317 0.8465 157 G 0.0888 0.0385 0.8727 158 V 0.5374 0.0087 0.4539 159 P 0.7743 0.0054 0.2203 160 V 0.7905 0.0109 0.1986 161 P 0.7799 0.0255 0.1946 162 G 0.6518 0.0413 0.3069 163 T 0.5261 0.0625 0.4114 164 G 0.3518 0.1508 0.4974 165 S 0.2277 0.2122 0.5601 166 S 0.1701 0.2195 0.6104 167 L 0.1742 0.1932 0.6325 168 I 0.1660 0.1849 0.6491 169 S 0.1308 0.1828 0.6864 170 L 0.0900 0.1667 0.7433 171 G 0.0823 0.1200 0.7977 172 A 0.1331 0.0942 0.7726 173 P 0.2192 0.1145 0.6662 174 I 0.3995 0.1215 0.4790 175 V 0.4802 0.0931 0.4267 176 I 0.3642 0.0851 0.5507 177 Q 0.2683 0.1005 0.6313 178 A 0.2160 0.2061 0.5779 179 I 0.2578 0.1769 0.5654 180 T 0.3597 0.1432 0.4972 181 Q 0.5301 0.1078 0.3622 182 I 0.6078 0.0803 0.3119 183 T 0.5935 0.0815 0.3250 184 T 0.5324 0.0703 0.3973 185 T 0.3799 0.0462 0.5740 186 P 0.3274 0.0549 0.6177 187 S 0.6620 0.0210 0.3170 188 L 0.8822 0.0073 0.1105 189 V 0.9219 0.0038 0.0743 190 E 0.9096 0.0063 0.0841 191 V 0.9099 0.0040 0.0861 192 I 0.8383 0.0074 0.1543 193 V 0.5449 0.0158 0.4394 194 T 0.1534 0.0708 0.7759 195 G 0.0456 0.0456 0.9088 196 L 0.2880 0.0203 0.6917 197 G 0.8596 0.0038 0.1366 198 L 0.9220 0.0033 0.0746 199 S 0.9288 0.0033 0.0679 200 L 0.9271 0.0033 0.0696 201 A 0.9063 0.0048 0.0889 202 L 0.7972 0.0155 0.1873 203 G 0.3106 0.0665 0.6229 204 T 0.1037 0.1231 0.7732 205 S 0.1391 0.2128 0.6480 206 A 0.2100 0.4471 0.3429 207 S 0.2130 0.5652 0.2218 208 I 0.3049 0.6200 0.0751 209 I 0.3073 0.6466 0.0462 210 I 0.2381 0.7112 0.0507 211 E 0.1929 0.7246 0.0825 212 K 0.1047 0.7840 0.1113 213 V 0.0451 0.8568 0.0982 214 A 0.0374 0.8393 0.1233 215 H 0.0304 0.7821 0.1875 216 H 0.0394 0.6295 0.3310 217 H 0.0564 0.4574 0.4862 218 H 0.0605 0.2790 0.6605 219 H 0.0620 0.1232 0.8149 220 H 0.0488 0.0421 0.9092