# This file is the result of combining several RDB files, specifically # T0339.t06.dssp-ebghstl.rdb (weight 1.53986) # T0339.t06.stride-ebghtl.rdb (weight 1.24869) # T0339.t06.str2.rdb (weight 1.54758) # T0339.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 T0339.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0339 # 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 T0339.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 9003 # # ============================================ # Comments from T0339.t06.stride-ebghtl.rdb # ============================================ # TARGET T0339 # 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 T0339.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 9003 # # ============================================ # Comments from T0339.t06.str2.rdb # ============================================ # TARGET T0339 # 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 T0339.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 9003 # # ============================================ # Comments from T0339.t06.alpha.rdb # ============================================ # TARGET T0339 # 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 T0339.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 9003 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 E 0.0674 0.0528 0.8798 2 R 0.1547 0.0398 0.8055 3 K 0.4286 0.0259 0.5455 4 V 0.6821 0.0223 0.2956 5 Y 0.6644 0.0263 0.3094 6 M 0.5107 0.0395 0.4498 7 D 0.3162 0.0433 0.6404 8 Y 0.1532 0.1178 0.7290 9 N 0.1082 0.1452 0.7466 10 A 0.1072 0.1366 0.7562 11 T 0.0935 0.1179 0.7886 12 T 0.0802 0.0688 0.8510 13 P 0.0634 0.0899 0.8467 14 L 0.0816 0.0619 0.8565 15 E 0.0587 0.0608 0.8805 16 P 0.0052 0.9447 0.0501 17 E 0.0047 0.9543 0.0409 18 V 0.0047 0.9581 0.0372 19 I 0.0047 0.9604 0.0349 20 Q 0.0047 0.9606 0.0347 21 A 0.0047 0.9590 0.0363 22 M 0.0048 0.9545 0.0407 23 T 0.0047 0.9567 0.0386 24 K 0.0048 0.9548 0.0404 25 A 0.0050 0.9466 0.0484 26 M 0.0052 0.9369 0.0579 27 W 0.0060 0.9184 0.0756 28 E 0.0085 0.8611 0.1304 29 A 0.0173 0.7411 0.2416 30 W 0.0496 0.4170 0.5333 31 G 0.0506 0.1372 0.8122 32 N 0.0733 0.0362 0.8905 33 P 0.0527 0.0799 0.8674 34 S 0.0603 0.0911 0.8486 35 S 0.0819 0.0776 0.8405 36 P 0.0696 0.1707 0.7597 37 Y 0.1174 0.2374 0.6452 38 S 0.1009 0.3459 0.5532 39 A 0.0765 0.3702 0.5532 40 G 0.0656 0.3558 0.5786 41 R 0.0272 0.5587 0.4141 42 K 0.0347 0.5539 0.4114 43 A 0.0233 0.7311 0.2456 44 K 0.0081 0.8975 0.0944 45 D 0.0058 0.9331 0.0612 46 I 0.0047 0.9519 0.0434 47 I 0.0047 0.9583 0.0370 48 N 0.0047 0.9601 0.0352 49 A 0.0047 0.9589 0.0364 50 A 0.0047 0.9578 0.0375 51 R 0.0047 0.9606 0.0347 52 E 0.0047 0.9603 0.0350 53 S 0.0047 0.9598 0.0356 54 L 0.0047 0.9583 0.0370 55 A 0.0047 0.9546 0.0407 56 K 0.0052 0.9440 0.0508 57 M 0.0085 0.9065 0.0850 58 I 0.0504 0.5930 0.3566 59 G 0.0351 0.0343 0.9306 60 G 0.0591 0.0127 0.9282 61 K 0.0796 0.0130 0.9074 62 P 0.0517 0.4129 0.5354 63 Q 0.0721 0.4077 0.5201 64 D 0.2757 0.3239 0.4004 65 I 0.8203 0.0215 0.1582 66 I 0.8834 0.0138 0.1027 67 F 0.8463 0.0180 0.1357 68 T 0.4977 0.0272 0.4752 69 S 0.1257 0.0853 0.7891 70 G 0.0630 0.1217 0.8153 71 G 0.0173 0.6990 0.2837 72 T 0.0059 0.9124 0.0816 73 E 0.0048 0.9478 0.0474 74 S 0.0047 0.9577 0.0377 75 N 0.0047 0.9588 0.0365 76 N 0.0047 0.9604 0.0349 77 L 0.0047 0.9602 0.0351 78 V 0.0047 0.9599 0.0355 79 I 0.0047 0.9596 0.0357 80 H 0.0047 0.9586 0.0367 81 S 0.0048 0.9548 0.0404 82 V 0.0049 0.9485 0.0466 83 V 0.0053 0.9449 0.0498 84 K 0.0060 0.9246 0.0694 85 H 0.0077 0.8748 0.1175 86 F 0.0162 0.8034 0.1804 87 H 0.0258 0.7086 0.2656 88 A 0.0247 0.6233 0.3520 89 N 0.0395 0.4170 0.5435 90 Q 0.0687 0.1960 0.7353 91 T 0.1037 0.0973 0.7990 92 S 0.1011 0.0797 0.8192 93 K 0.0512 0.1294 0.8194 94 G 0.0501 0.0885 0.8614 95 H 0.1091 0.0748 0.8162 96 T 0.1315 0.1124 0.7561 97 G 0.0876 0.1307 0.7817 98 G 0.0797 0.1503 0.7701 99 H 0.1221 0.1400 0.7380 100 H 0.1699 0.1223 0.7078 101 S 0.1172 0.0801 0.8027 102 P 0.0981 0.1197 0.7822 103 V 0.1228 0.1284 0.7487 104 K 0.1017 0.1225 0.7758 105 G 0.0788 0.0906 0.8306 106 A 0.1129 0.0653 0.8217 107 K 0.1436 0.0283 0.8281 108 P 0.2221 0.0217 0.7562 109 H 0.6980 0.0149 0.2871 110 F 0.9028 0.0050 0.0922 111 I 0.9074 0.0051 0.0876 112 T 0.8413 0.0079 0.1509 113 S 0.5403 0.0230 0.4367 114 S 0.1965 0.0645 0.7391 115 V 0.0743 0.1878 0.7379 116 E 0.0774 0.2288 0.6938 117 H 0.1015 0.2660 0.6325 118 D 0.0666 0.4076 0.5258 119 S 0.0752 0.4922 0.4326 120 I 0.0958 0.5872 0.3170 121 R 0.0581 0.7241 0.2178 122 L 0.0258 0.8588 0.1155 123 P 0.0162 0.9104 0.0734 124 L 0.0113 0.9308 0.0578 125 E 0.0103 0.9367 0.0530 126 H 0.0111 0.9197 0.0693 127 L 0.0117 0.8875 0.1009 128 V 0.0293 0.8268 0.1439 129 E 0.0245 0.7435 0.2321 130 E 0.0367 0.5786 0.3847 131 Q 0.0643 0.2315 0.7043 132 V 0.1332 0.0378 0.8290 133 A 0.3827 0.0081 0.6092 134 A 0.8280 0.0056 0.1664 135 V 0.9037 0.0032 0.0931 136 T 0.8979 0.0055 0.0966 137 F 0.8976 0.0037 0.0987 138 V 0.8001 0.0063 0.1936 139 P 0.6682 0.0060 0.3258 140 V 0.3467 0.0270 0.6263 141 S 0.1772 0.0417 0.7812 142 K 0.0430 0.2213 0.7357 143 V 0.0519 0.1887 0.7594 144 S 0.0704 0.1095 0.8200 145 G 0.0696 0.0521 0.8783 146 Q 0.2390 0.0243 0.7367 147 T 0.4091 0.0126 0.5783 148 E 0.1465 0.0094 0.8441 149 V 0.0052 0.9378 0.0570 150 D 0.0047 0.9544 0.0409 151 D 0.0047 0.9577 0.0376 152 I 0.0048 0.9561 0.0391 153 L 0.0049 0.9486 0.0465 154 A 0.0057 0.8961 0.0982 155 A 0.0081 0.7617 0.2302 156 V 0.0460 0.4869 0.4671 157 R 0.0462 0.1263 0.8275 158 P 0.0139 0.1657 0.8204 159 T 0.0492 0.0706 0.8802 160 T 0.2892 0.0145 0.6963 161 R 0.6542 0.0331 0.3127 162 L 0.9295 0.0034 0.0671 163 V 0.9327 0.0032 0.0641 164 T 0.9326 0.0032 0.0642 165 I 0.9185 0.0037 0.0778 166 M 0.7656 0.0066 0.2278 167 L 0.3956 0.0121 0.5923 168 A 0.1369 0.0660 0.7971 169 N 0.1242 0.0553 0.8205 170 N 0.0749 0.0396 0.8856 171 E 0.0377 0.1353 0.8270 172 T 0.0939 0.0804 0.8256 173 G 0.2363 0.0537 0.7100 174 I 0.5460 0.0268 0.4272 175 V 0.7576 0.0163 0.2261 176 M 0.5162 0.0180 0.4658 177 P 0.3086 0.0228 0.6686 178 V 0.0134 0.8596 0.1270 179 P 0.0049 0.9491 0.0460 180 E 0.0048 0.9468 0.0483 181 I 0.0053 0.9354 0.0593 182 S 0.0047 0.9478 0.0475 183 Q 0.0047 0.9417 0.0536 184 R 0.0047 0.9451 0.0502 185 I 0.0047 0.9548 0.0404 186 K 0.0047 0.9595 0.0358 187 A 0.0047 0.9567 0.0385 188 L 0.0049 0.9501 0.0450 189 N 0.0049 0.9391 0.0560 190 Q 0.0052 0.9048 0.0901 191 E 0.0056 0.8833 0.1111 192 R 0.0096 0.8382 0.1522 193 V 0.0203 0.7678 0.2119 194 A 0.0209 0.6881 0.2910 195 A 0.0429 0.4086 0.5485 196 G 0.0364 0.0888 0.8748 197 L 0.0897 0.0299 0.8805 198 P 0.1021 0.0603 0.8377 199 P 0.1827 0.0434 0.7740 200 I 0.6670 0.0089 0.3242 201 L 0.8523 0.0062 0.1415 202 V 0.9282 0.0051 0.0667 203 H 0.9168 0.0113 0.0719 204 T 0.8805 0.0251 0.0944 205 D 0.6090 0.0921 0.2989 206 A 0.2868 0.2056 0.5075 207 A 0.1702 0.4323 0.3975 208 Q 0.1617 0.5101 0.3282 209 A 0.1638 0.4870 0.3492 210 L 0.1553 0.4494 0.3953 211 G 0.1391 0.3100 0.5508 212 K 0.1753 0.3181 0.5066 213 Q 0.2333 0.2008 0.5659 214 R 0.2183 0.0956 0.6861 215 V 0.2101 0.0341 0.7559 216 D 0.1759 0.0217 0.8024 217 V 0.0109 0.8401 0.1490 218 E 0.0074 0.8422 0.1504 219 D 0.0097 0.8488 0.1415 220 L 0.0789 0.3971 0.5240 221 G 0.0856 0.0349 0.8795 222 V 0.1777 0.0069 0.8154 223 D 0.2766 0.0419 0.6815 224 F 0.9132 0.0034 0.0834 225 L 0.9295 0.0032 0.0673 226 T 0.9263 0.0039 0.0698 227 I 0.8576 0.0108 0.1316 228 V 0.4821 0.0264 0.4915 229 G 0.2486 0.0721 0.6793 230 H 0.1937 0.1163 0.6900 231 K 0.1900 0.1560 0.6541 232 F 0.1297 0.1253 0.7450 233 Y 0.1141 0.0761 0.8098 234 G 0.1032 0.0587 0.8381 235 P 0.1144 0.0915 0.7941 236 R 0.2963 0.0722 0.6314 237 I 0.5406 0.0404 0.4189 238 G 0.7243 0.0299 0.2458 239 A 0.8949 0.0166 0.0885 240 L 0.9120 0.0129 0.0751 241 Y 0.8948 0.0173 0.0879 242 I 0.7519 0.0315 0.2166 243 R 0.2936 0.1069 0.5995 244 G 0.1108 0.1665 0.7227 245 L 0.0625 0.4849 0.4527 246 G 0.0396 0.6229 0.3375 247 E 0.0377 0.5355 0.4268 248 F 0.0570 0.4424 0.5006 249 T 0.1104 0.0907 0.7989 250 P 0.0804 0.1306 0.7889 251 L 0.1404 0.1360 0.7236 252 Y 0.1633 0.0947 0.7420 253 P 0.1295 0.2547 0.6159 254 M 0.2120 0.3087 0.4794 255 L 0.2868 0.2496 0.4636 256 F 0.2255 0.1718 0.6027 257 G 0.1488 0.1002 0.7509 258 G 0.1227 0.0870 0.7904 259 G 0.1167 0.1008 0.7825 260 Q 0.1559 0.1322 0.7119 261 E 0.1524 0.2460 0.6016 262 R 0.1235 0.2644 0.6121 263 N 0.1429 0.1556 0.7016 264 F 0.1885 0.0930 0.7185 265 R 0.1848 0.0512 0.7640 266 P 0.1343 0.1059 0.7598 267 G 0.0966 0.1007 0.8027 268 T 0.1034 0.0882 0.8083 269 E 0.0644 0.1331 0.8025 270 N 0.0601 0.1790 0.7609 271 T 0.0327 0.7874 0.1799 272 P 0.0096 0.9362 0.0541 273 M 0.0057 0.9541 0.0402 274 I 0.0049 0.9576 0.0374 275 A 0.0047 0.9589 0.0363 276 G 0.0048 0.9560 0.0392 277 L 0.0047 0.9595 0.0358 278 G 0.0047 0.9606 0.0347 279 K 0.0047 0.9588 0.0365 280 A 0.0047 0.9569 0.0384 281 A 0.0047 0.9545 0.0408 282 E 0.0048 0.9430 0.0522 283 L 0.0049 0.9216 0.0735 284 V 0.0064 0.8891 0.1046 285 T 0.0064 0.8613 0.1323 286 Q 0.0121 0.7600 0.2280 287 N 0.0128 0.6760 0.3112 288 C 0.0065 0.8721 0.1214 289 E 0.0050 0.9376 0.0574 290 A 0.0048 0.9463 0.0489 291 Y 0.0048 0.9535 0.0417 292 E 0.0047 0.9568 0.0385 293 A 0.0048 0.9527 0.0425 294 H 0.0050 0.9438 0.0512 295 M 0.0048 0.9515 0.0437 296 R 0.0047 0.9534 0.0418 297 D 0.0048 0.9462 0.0489 298 V 0.0048 0.9505 0.0446 299 R 0.0047 0.9579 0.0374 300 D 0.0047 0.9597 0.0356 301 Y 0.0047 0.9572 0.0381 302 L 0.0048 0.9549 0.0403 303 E 0.0047 0.9575 0.0378 304 E 0.0048 0.9527 0.0425 305 R 0.0049 0.9417 0.0535 306 L 0.0050 0.9338 0.0612 307 E 0.0053 0.9194 0.0752 308 A 0.0065 0.8783 0.1152 309 E 0.0113 0.8116 0.1771 310 F 0.0507 0.6230 0.3263 311 G 0.0325 0.2920 0.6755 312 Q 0.0687 0.1141 0.8173 313 K 0.0442 0.1554 0.8004 314 R 0.1029 0.0634 0.8337 315 I 0.4252 0.0129 0.5620 316 H 0.7039 0.0090 0.2872 317 L 0.7142 0.0151 0.2707 318 N 0.4649 0.0343 0.5009 319 S 0.2986 0.0500 0.6514 320 Q 0.2004 0.0607 0.7389 321 F 0.1422 0.0476 0.8102 322 P 0.0747 0.0932 0.8321 323 G 0.0645 0.1100 0.8255 324 T 0.1177 0.1505 0.7318 325 Q 0.1447 0.1365 0.7188 326 R 0.1988 0.0905 0.7107 327 L 0.2390 0.0448 0.7162 328 P 0.2256 0.0610 0.7134 329 N 0.4683 0.0433 0.4884 330 T 0.8056 0.0124 0.1820 331 C 0.8685 0.0064 0.1250 332 N 0.8827 0.0049 0.1124 333 F 0.8611 0.0051 0.1337 334 S 0.8284 0.0056 0.1660 335 I 0.5842 0.0157 0.4000 336 R 0.2105 0.0382 0.7513 337 G 0.0789 0.0487 0.8725 338 P 0.0475 0.1535 0.7990 339 R 0.0571 0.1753 0.7676 340 L 0.0890 0.1809 0.7300 341 Q 0.0791 0.1891 0.7318 342 G 0.0115 0.8174 0.1711 343 H 0.0069 0.9329 0.0602 344 V 0.0061 0.9495 0.0444 345 V 0.0056 0.9538 0.0406 346 L 0.0058 0.9531 0.0411 347 A 0.0071 0.9418 0.0511 348 Q 0.0105 0.8981 0.0914 349 C 0.0226 0.8345 0.1429 350 R 0.0388 0.7533 0.2079 351 V 0.0645 0.7118 0.2237 352 L 0.1315 0.5684 0.3001 353 M 0.2927 0.2617 0.4456 354 A 0.3391 0.1015 0.5594 355 S 0.2872 0.0560 0.6568 356 V 0.1201 0.2522 0.6277 357 G 0.0966 0.1552 0.7482 358 A 0.1693 0.1775 0.6532 359 A 0.2255 0.1818 0.5927 360 C 0.1929 0.1337 0.6733 361 H 0.1510 0.1034 0.7456 362 S 0.0976 0.0883 0.8141 363 D 0.0585 0.1504 0.7911 364 H 0.0539 0.1518 0.7943 365 G 0.0635 0.1015 0.8350 366 D 0.0767 0.0913 0.8320 367 Q 0.1063 0.0610 0.8328 368 P 0.0981 0.1140 0.7879 369 S 0.0955 0.1994 0.7051 370 P 0.0953 0.4252 0.4795 371 V 0.1402 0.4899 0.3699 372 L 0.1409 0.5114 0.3477 373 L 0.0538 0.6181 0.3281 374 S 0.0409 0.5008 0.4582 375 Y 0.0672 0.2588 0.6740 376 G 0.0603 0.0920 0.8477 377 V 0.0853 0.0406 0.8741 378 P 0.1011 0.0692 0.8297 379 F 0.0707 0.3932 0.5361 380 D 0.0785 0.4268 0.4946 381 V 0.1230 0.4223 0.4547 382 A 0.2099 0.1876 0.6025 383 R 0.1005 0.2184 0.6811 384 N 0.1890 0.1020 0.7091 385 A 0.7484 0.0256 0.2260 386 L 0.8973 0.0059 0.0968 387 R 0.9140 0.0054 0.0806 388 L 0.8742 0.0103 0.1156 389 S 0.6788 0.0138 0.3075 390 V 0.3314 0.0463 0.6223 391 G 0.1459 0.0625 0.7916 392 R 0.0762 0.1675 0.7563 393 S 0.0758 0.1222 0.8020 394 T 0.1250 0.0377 0.8373 395 T 0.0671 0.0217 0.9112 396 R 0.0049 0.9436 0.0515 397 A 0.0047 0.9555 0.0398 398 E 0.0047 0.9584 0.0369 399 V 0.0047 0.9606 0.0347 400 D 0.0047 0.9605 0.0348 401 L 0.0046 0.9581 0.0372 402 V 0.0047 0.9566 0.0387 403 V 0.0047 0.9603 0.0351 404 Q 0.0047 0.9605 0.0349 405 D 0.0047 0.9576 0.0377 406 L 0.0047 0.9596 0.0357 407 K 0.0047 0.9609 0.0345 408 Q 0.0046 0.9600 0.0353 409 A 0.0047 0.9562 0.0391 410 V 0.0047 0.9548 0.0405 411 A 0.0048 0.9419 0.0533 412 Q 0.0053 0.9012 0.0936 413 L 0.0071 0.8014 0.1915 414 E 0.0107 0.6393 0.3500 415 D 0.0162 0.3725 0.6113 416 Q 0.0309 0.0681 0.9010