# This file is the result of combining several RDB files, specifically # T0518.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0518.t2k.stride-ebghtl.rdb (weight 1.24869) # T0518.t2k.str.rdb (weight 1.53983) # 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 T0518.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0518 # 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 T0518.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 363 # # ============================================ # Comments from T0518.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0518 # 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 T0518.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 363 # # ============================================ # Comments from T0518.t2k.str.rdb # ============================================ # TARGET T0518 # Using neural net t2k-5651-IDaaHr-5-15-7-15-9-15-13-str-seeded.net # This is a 4-layer network, with # window units # 5 15 # 7 15 # 9 15 # 13 13 (1 str ) # The input amino acid frequencies were determined from # alignment T0518.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 363 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0172 0.0111 0.9717 2 K 0.0913 0.0654 0.8433 3 K 0.0935 0.0954 0.8110 4 V 0.1256 0.0961 0.7783 5 F 0.1727 0.0861 0.7412 6 Y 0.3069 0.1866 0.5065 7 P 0.3154 0.4706 0.2139 8 L 0.2966 0.5539 0.1496 9 A 0.2968 0.5700 0.1331 10 C 0.2427 0.5577 0.1996 11 C 0.2344 0.4905 0.2751 12 C 0.2324 0.4078 0.3598 13 L 0.1833 0.3427 0.4739 14 A 0.1208 0.2643 0.6148 15 A 0.0369 0.1538 0.8093 16 G 0.0376 0.0612 0.9012 17 V 0.1640 0.0379 0.7981 18 F 0.3680 0.0402 0.5918 19 A 0.4924 0.0608 0.4467 20 S 0.4010 0.0919 0.5071 21 C 0.3392 0.1231 0.5377 22 G 0.2405 0.1319 0.6277 23 G 0.2030 0.1192 0.6778 24 Q 0.3983 0.1226 0.4791 25 K 0.6521 0.1154 0.2325 26 K 0.6984 0.1439 0.1578 27 A 0.6252 0.2076 0.1672 28 N 0.4903 0.2911 0.2186 29 A 0.3387 0.3550 0.3064 30 Q 0.2145 0.3535 0.4319 31 E 0.1177 0.4672 0.4150 32 E 0.0850 0.5861 0.3289 33 P 0.0483 0.7473 0.2043 34 S 0.0303 0.8285 0.1412 35 K 0.0215 0.8639 0.1146 36 V 0.0182 0.8883 0.0934 37 A 0.0129 0.9064 0.0808 38 L 0.0099 0.9168 0.0732 39 S 0.0093 0.9202 0.0705 40 Y 0.0109 0.9065 0.0825 41 S 0.0114 0.8909 0.0977 42 K 0.0119 0.8682 0.1198 43 S 0.0130 0.8530 0.1341 44 L 0.0150 0.8511 0.1340 45 K 0.0156 0.8377 0.1467 46 A 0.0175 0.7883 0.1942 47 P 0.0200 0.7383 0.2416 48 E 0.0239 0.6634 0.3127 49 T 0.0223 0.6050 0.3727 50 D 0.0258 0.5231 0.4510 51 S 0.0396 0.4709 0.4895 52 L 0.0385 0.4257 0.5358 53 N 0.0335 0.3881 0.5784 54 L 0.0255 0.4649 0.5096 55 P 0.0248 0.4862 0.4890 56 V 0.0286 0.4209 0.5505 57 D 0.0212 0.4267 0.5520 58 E 0.0195 0.4040 0.5765 59 N 0.0157 0.3254 0.6589 60 G 0.0494 0.1360 0.8146 61 Y 0.1851 0.2100 0.6049 62 I 0.4500 0.2829 0.2671 63 T 0.5367 0.2873 0.1759 64 I 0.4061 0.2620 0.3319 65 F 0.3543 0.0977 0.5480 66 D 0.1494 0.0419 0.8088 67 G 0.1213 0.0665 0.8121 68 E 0.2248 0.0780 0.6973 69 T 0.2405 0.0965 0.6630 70 F 0.1178 0.1937 0.6885 71 N 0.0752 0.1937 0.7311 72 G 0.1345 0.2011 0.6644 73 W 0.3375 0.1821 0.4804 74 R 0.5715 0.1274 0.3012 75 G 0.5863 0.1122 0.3014 76 Y 0.3499 0.0902 0.5599 77 G 0.1693 0.0676 0.7631 78 K 0.1109 0.0789 0.8102 79 D 0.0947 0.0880 0.8173 80 R 0.1214 0.0744 0.8042 81 V 0.1717 0.0486 0.7796 82 P 0.1764 0.0700 0.7536 83 T 0.2041 0.0771 0.7188 84 K 0.4819 0.0317 0.4864 85 W 0.7928 0.0074 0.1998 86 T 0.9354 0.0032 0.0613 87 I 0.8713 0.0054 0.1234 88 E 0.5739 0.0187 0.4074 89 D 0.1416 0.0249 0.8335 90 G 0.2181 0.0203 0.7616 91 C 0.8609 0.0042 0.1349 92 I 0.9532 0.0028 0.0440 93 K 0.9433 0.0028 0.0539 94 F 0.8977 0.0038 0.0985 95 N 0.6230 0.0117 0.3652 96 G 0.2710 0.0188 0.7102 97 S 0.0952 0.0331 0.8717 98 G 0.0369 0.0988 0.8643 99 G 0.0297 0.1919 0.7784 100 G 0.0616 0.2659 0.6726 101 E 0.1044 0.2664 0.6292 102 A 0.0979 0.2277 0.6743 103 Q 0.1101 0.1876 0.7023 104 D 0.0781 0.1197 0.8022 105 G 0.0682 0.1340 0.7978 106 D 0.0851 0.1173 0.7976 107 G 0.1327 0.0809 0.7864 108 G 0.3557 0.0462 0.5980 109 D 0.6195 0.0280 0.3526 110 L 0.8572 0.0128 0.1299 111 I 0.8749 0.0097 0.1154 112 F 0.7738 0.0081 0.2180 113 A 0.5196 0.0669 0.4135 114 H 0.3603 0.0903 0.5494 115 K 0.4380 0.0754 0.4866 116 F 0.4167 0.0405 0.5428 117 K 0.2265 0.0279 0.7456 118 N 0.4413 0.0137 0.5450 119 F 0.9044 0.0026 0.0930 120 E 0.9616 0.0024 0.0360 121 L 0.9759 0.0024 0.0217 122 E 0.9780 0.0024 0.0196 123 L 0.9758 0.0024 0.0218 124 E 0.9724 0.0024 0.0251 125 W 0.9626 0.0025 0.0349 126 K 0.9382 0.0026 0.0592 127 V 0.7704 0.0039 0.2257 128 A 0.2216 0.0136 0.7648 129 K 0.0219 0.0288 0.9494 130 G 0.0241 0.0414 0.9345 131 S 0.0969 0.0355 0.8676 132 N 0.2692 0.0168 0.7140 133 S 0.5370 0.0109 0.4521 134 G 0.7938 0.0066 0.1997 135 I 0.9245 0.0030 0.0725 136 L 0.9593 0.0025 0.0382 137 Y 0.9559 0.0025 0.0416 138 L 0.8882 0.0029 0.1088 139 A 0.6764 0.0050 0.3186 140 Q 0.4389 0.0126 0.5485 141 E 0.2210 0.0321 0.7469 142 V 0.1430 0.0543 0.8027 143 T 0.0734 0.1247 0.8019 144 S 0.0706 0.1337 0.7956 145 K 0.1008 0.1687 0.7304 146 D 0.0929 0.1516 0.7555 147 K 0.0835 0.2038 0.7126 148 D 0.0782 0.1803 0.7415 149 G 0.0909 0.1617 0.7474 150 N 0.1201 0.1491 0.7309 151 D 0.1384 0.1351 0.7265 152 V 0.1065 0.1922 0.7014 153 L 0.0963 0.2066 0.6972 154 E 0.0992 0.1743 0.7265 155 P 0.1323 0.1537 0.7140 156 I 0.2095 0.1381 0.6525 157 Y 0.2775 0.1111 0.6114 158 I 0.3131 0.0898 0.5971 159 S 0.3244 0.0567 0.6188 160 A 0.4129 0.0446 0.5424 161 P 0.6097 0.0403 0.3500 162 E 0.8346 0.0235 0.1419 163 Y 0.8887 0.0163 0.0950 164 Q 0.8920 0.0142 0.0937 165 I 0.8246 0.0152 0.1602 166 L 0.5606 0.0199 0.4195 167 D 0.1791 0.0337 0.7872 168 N 0.0583 0.0493 0.8924 169 A 0.0390 0.0785 0.8824 170 N 0.0368 0.1058 0.8574 171 H 0.0467 0.1512 0.8021 172 P 0.0461 0.3294 0.6245 173 D 0.0592 0.3617 0.5791 174 A 0.0877 0.3650 0.5473 175 K 0.0862 0.3245 0.5893 176 L 0.0661 0.2828 0.6511 177 G 0.0686 0.1397 0.7917 178 K 0.1169 0.1124 0.7707 179 D 0.1115 0.1141 0.7744 180 N 0.0623 0.2269 0.7107 181 N 0.0838 0.2546 0.6616 182 R 0.1915 0.2533 0.5552 183 Q 0.3107 0.2472 0.4421 184 S 0.3318 0.2264 0.4419 185 A 0.2673 0.2069 0.5258 186 S 0.2711 0.2255 0.5034 187 L 0.2339 0.3108 0.4553 188 Y 0.2015 0.2948 0.5037 189 D 0.1467 0.1986 0.6547 190 M 0.1473 0.1580 0.6947 191 I 0.1535 0.1022 0.7443 192 P 0.1070 0.0783 0.8147 193 A 0.0670 0.1027 0.8303 194 V 0.0669 0.1621 0.7710 195 P 0.0635 0.2630 0.6736 196 Q 0.0785 0.2517 0.6698 197 N 0.1158 0.1588 0.7254 198 S 0.1694 0.0868 0.7438 199 K 0.1344 0.0297 0.8359 200 P 0.0896 0.0246 0.8859 201 F 0.0525 0.0417 0.9058 202 G 0.0724 0.0357 0.8919 203 E 0.4028 0.0214 0.5758 204 W 0.6588 0.0090 0.3322 205 N 0.8129 0.0068 0.1803 206 K 0.8915 0.0048 0.1037 207 A 0.9536 0.0028 0.0436 208 K 0.9738 0.0024 0.0238 209 I 0.9751 0.0024 0.0225 210 M 0.9779 0.0024 0.0197 211 V 0.9703 0.0025 0.0273 212 Y 0.8755 0.0034 0.1211 213 K 0.2120 0.0166 0.7713 214 G 0.1033 0.0198 0.8769 215 T 0.6925 0.0064 0.3011 216 V 0.9605 0.0024 0.0371 217 V 0.9789 0.0024 0.0187 218 H 0.9813 0.0024 0.0163 219 G 0.9756 0.0024 0.0220 220 Q 0.9501 0.0030 0.0469 221 N 0.1601 0.0156 0.8243 222 D 0.0678 0.0220 0.9102 223 E 0.7833 0.0076 0.2091 224 N 0.9298 0.0032 0.0670 225 V 0.9493 0.0025 0.0482 226 L 0.9311 0.0028 0.0661 227 E 0.8469 0.0077 0.1454 228 Y 0.6021 0.0254 0.3725 229 H 0.3385 0.0467 0.6148 230 L 0.1786 0.0804 0.7410 231 W 0.0639 0.0854 0.8507 232 T 0.0407 0.1413 0.8180 233 K 0.0211 0.5150 0.4640 234 Q 0.0215 0.5904 0.3881 235 W 0.0206 0.6943 0.2851 236 T 0.0193 0.7368 0.2439 237 D 0.0275 0.7258 0.2467 238 M 0.0306 0.7345 0.2349 239 L 0.0328 0.7051 0.2621 240 Q 0.0283 0.5939 0.3778 241 A 0.0224 0.4628 0.5148 242 S 0.0312 0.2703 0.6984 243 K 0.0404 0.2628 0.6968 244 F 0.0493 0.2833 0.6674 245 S 0.0457 0.2572 0.6971 246 E 0.0496 0.1920 0.7585 247 D 0.0602 0.1187 0.8211 248 K 0.0645 0.1261 0.8094 249 W 0.0747 0.1508 0.7745 250 P 0.0950 0.2308 0.6742 251 L 0.1191 0.3236 0.5573 252 A 0.1220 0.4221 0.4559 253 F 0.1066 0.4472 0.4462 254 E 0.0853 0.4459 0.4688 255 L 0.0683 0.3954 0.5363 256 L 0.0608 0.2858 0.6534 257 N 0.0617 0.2108 0.7275 258 N 0.0649 0.1796 0.7556 259 C 0.0644 0.1836 0.7519 260 G 0.0373 0.1357 0.8269 261 G 0.0604 0.1658 0.7738 262 E 0.0988 0.1463 0.7549 263 N 0.0763 0.1084 0.8153 264 H 0.0916 0.0995 0.8088 265 E 0.1511 0.0586 0.7903 266 G 0.2579 0.0215 0.7206 267 F 0.5397 0.0112 0.4491 268 I 0.8627 0.0088 0.1285 269 G 0.8947 0.0122 0.0930 270 L 0.9040 0.0135 0.0825 271 Q 0.8194 0.0164 0.1642 272 D 0.6495 0.0219 0.3286 273 H 0.2840 0.0300 0.6860 274 G 0.0935 0.0238 0.8827 275 D 0.0957 0.0216 0.8827 276 D 0.3486 0.0155 0.6359 277 V 0.7372 0.0061 0.2567 278 W 0.8881 0.0047 0.1072 279 F 0.8986 0.0052 0.0962 280 R 0.7742 0.0098 0.2160 281 N 0.7418 0.0075 0.2507 282 I 0.7903 0.0044 0.2053 283 R 0.8723 0.0031 0.1246 284 V 0.8676 0.0040 0.1284 285 K 0.7606 0.0074 0.2320 286 V 0.4773 0.0113 0.5114 287 L 0.1020 0.0070 0.8910 288 D 0.0111 0.0047 0.9842