# This file is the result of combining several RDB files, specifically # T0185.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0185.t2k.stride-ebghtl.rdb (weight 1.24869) # T0185.t2k.str.rdb (weight 1.53983) # T0185.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 T0185.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0185 # 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 T0185.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 271 # # ============================================ # Comments from T0185.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0185 # 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 T0185.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 271 # # ============================================ # Comments from T0185.t2k.str.rdb # ============================================ # TARGET T0185 # 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 T0185.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 271 # # ============================================ # Comments from T0185.t2k.alpha.rdb # ============================================ # TARGET T0185 # 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 T0185.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 271 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1289 0.0263 0.8448 2 K 0.5305 0.0061 0.4633 3 I 0.8739 0.0049 0.1212 4 H 0.9219 0.0040 0.0741 5 F 0.9257 0.0040 0.0703 6 V 0.8672 0.0259 0.1069 7 G 0.7440 0.0169 0.2392 8 I 0.4085 0.0420 0.5495 9 G 0.1204 0.0756 0.8040 10 G 0.0513 0.2453 0.7033 11 I 0.0401 0.3407 0.6192 12 G 0.0331 0.4722 0.4947 13 M 0.0117 0.8756 0.1127 14 S 0.0079 0.9285 0.0636 15 A 0.0050 0.9527 0.0422 16 V 0.0047 0.9567 0.0386 17 A 0.0047 0.9574 0.0379 18 L 0.0047 0.9567 0.0386 19 H 0.0044 0.9545 0.0411 20 E 0.0046 0.9449 0.0505 21 F 0.0051 0.9019 0.0930 22 S 0.0076 0.7908 0.2016 23 N 0.0433 0.3635 0.5932 24 G 0.0500 0.0251 0.9249 25 N 0.1341 0.0119 0.8540 26 D 0.5621 0.0151 0.4229 27 V 0.8632 0.0060 0.1308 28 Y 0.8801 0.0086 0.1113 29 G 0.8660 0.0079 0.1260 30 S 0.7188 0.0172 0.2640 31 N 0.3410 0.0309 0.6280 32 I 0.0848 0.1978 0.7174 33 E 0.0666 0.1890 0.7444 34 E 0.0807 0.1651 0.7542 35 T 0.0838 0.1036 0.8125 36 E 0.0871 0.1629 0.7499 37 R 0.0482 0.4594 0.4924 38 T 0.0446 0.5711 0.3843 39 A 0.0571 0.6875 0.2554 40 Y 0.0647 0.7477 0.1875 41 L 0.1052 0.7180 0.1769 42 R 0.1269 0.6898 0.1833 43 K 0.1258 0.6499 0.2243 44 L 0.1024 0.4250 0.4727 45 G 0.1105 0.0922 0.7973 46 I 0.2813 0.0522 0.6665 47 P 0.6350 0.0452 0.3197 48 I 0.6655 0.0562 0.2782 49 F 0.5433 0.0704 0.3863 50 V 0.2773 0.0718 0.6509 51 P 0.0939 0.1034 0.8027 52 H 0.0894 0.0991 0.8115 53 S 0.0848 0.1440 0.7713 54 A 0.0177 0.6790 0.3032 55 D 0.0115 0.7157 0.2728 56 N 0.0160 0.7207 0.2633 57 W 0.0423 0.5804 0.3773 58 Y 0.0332 0.3328 0.6341 59 D 0.0489 0.0936 0.8574 60 P 0.1621 0.0155 0.8224 61 D 0.4036 0.0311 0.5653 62 L 0.9155 0.0040 0.0805 63 V 0.9281 0.0037 0.0683 64 I 0.9239 0.0036 0.0725 65 K 0.8076 0.0099 0.1825 66 T 0.2822 0.0160 0.7019 67 P 0.0715 0.0851 0.8435 68 A 0.0829 0.0982 0.8188 69 V 0.1418 0.0488 0.8094 70 R 0.0708 0.0470 0.8822 71 D 0.0305 0.1469 0.8226 72 D 0.0286 0.1264 0.8450 73 N 0.0743 0.1018 0.8239 74 P 0.0403 0.5564 0.4033 75 E 0.0666 0.6924 0.2410 76 I 0.0561 0.7816 0.1623 77 V 0.0518 0.8382 0.1100 78 R 0.0449 0.8632 0.0919 79 A 0.0496 0.8586 0.0917 80 R 0.0401 0.8580 0.1019 81 M 0.0355 0.8060 0.1585 82 E 0.0391 0.5284 0.4325 83 R 0.0364 0.1235 0.8402 84 V 0.0896 0.1064 0.8040 85 P 0.1973 0.2841 0.5186 86 I 0.1622 0.5458 0.2920 87 E 0.1399 0.5845 0.2756 88 N 0.1066 0.5990 0.2944 89 R 0.0423 0.7887 0.1690 90 L 0.0254 0.8756 0.0990 91 H 0.0158 0.9072 0.0769 92 Y 0.0121 0.9099 0.0780 93 F 0.0090 0.8912 0.0998 94 R 0.0093 0.8522 0.1386 95 D 0.0132 0.7503 0.2364 96 T 0.0267 0.6145 0.3588 97 L 0.0642 0.3324 0.6035 98 K 0.0244 0.3485 0.6271 99 R 0.0334 0.2784 0.6882 100 E 0.0584 0.1904 0.7512 101 K 0.0728 0.0675 0.8597 102 K 0.1680 0.0178 0.8142 103 E 0.4724 0.0215 0.5060 104 E 0.9002 0.0051 0.0947 105 F 0.9234 0.0042 0.0724 106 A 0.9214 0.0042 0.0744 107 V 0.8915 0.0089 0.0996 108 T 0.7173 0.0188 0.2639 109 G 0.2452 0.0229 0.7319 110 T 0.0536 0.0808 0.8656 111 D 0.0483 0.0590 0.8927 112 G 0.0364 0.0723 0.8913 113 K 0.0401 0.4627 0.4973 114 T 0.0291 0.7784 0.1925 115 T 0.0158 0.8947 0.0895 116 T 0.0051 0.9445 0.0503 117 T 0.0044 0.9591 0.0365 118 A 0.0044 0.9606 0.0350 119 M 0.0043 0.9608 0.0349 120 V 0.0044 0.9603 0.0354 121 A 0.0044 0.9595 0.0361 122 H 0.0044 0.9592 0.0365 123 V 0.0044 0.9582 0.0374 124 L 0.0045 0.9534 0.0421 125 K 0.0050 0.9273 0.0677 126 H 0.0069 0.8548 0.1383 127 L 0.0434 0.3977 0.5588 128 R 0.0378 0.0335 0.9287 129 K 0.0902 0.0270 0.8829 130 S 0.2727 0.0326 0.6947 131 P 0.4329 0.0774 0.4897 132 T 0.5683 0.0799 0.3519 133 V 0.6511 0.0646 0.2843 134 F 0.5533 0.0739 0.3729 135 L 0.3469 0.0948 0.5583 136 G 0.2099 0.0905 0.6996 137 G 0.1643 0.1385 0.6972 138 I 0.1862 0.1584 0.6555 139 M 0.1864 0.1930 0.6206 140 D 0.1681 0.1936 0.6383 141 S 0.1893 0.2661 0.5445 142 L 0.2102 0.3442 0.4456 143 E 0.2924 0.4242 0.2834 144 H 0.3445 0.4166 0.2389 145 G 0.3571 0.4194 0.2235 146 N 0.4007 0.3661 0.2332 147 Y 0.3719 0.2995 0.3286 148 E 0.2311 0.1927 0.5761 149 K 0.0768 0.1218 0.8014 150 G 0.0691 0.0755 0.8553 151 N 0.2089 0.0223 0.7688 152 G 0.3560 0.0335 0.6106 153 P 0.8818 0.0045 0.1137 154 V 0.9234 0.0037 0.0729 155 V 0.9271 0.0036 0.0693 156 Y 0.9030 0.0069 0.0901 157 E 0.8805 0.0052 0.1143 158 L 0.6953 0.0145 0.2902 159 D 0.3007 0.0362 0.6631 160 E 0.1002 0.1489 0.7509 161 S 0.0796 0.1031 0.8173 162 E 0.0977 0.1035 0.7988 163 E 0.1484 0.1121 0.7395 164 F 0.3013 0.1404 0.5583 165 F 0.3747 0.1209 0.5045 166 S 0.4134 0.1338 0.4528 167 E 0.5154 0.0754 0.4092 168 F 0.4716 0.0339 0.4945 169 S 0.3425 0.0176 0.6398 170 P 0.3361 0.0206 0.6433 171 N 0.4310 0.0431 0.5260 172 Y 0.9142 0.0041 0.0817 173 L 0.9267 0.0038 0.0695 174 I 0.9276 0.0037 0.0687 175 I 0.9027 0.0053 0.0921 176 T 0.7085 0.0261 0.2655 177 N 0.3949 0.0225 0.5826 178 A 0.1951 0.0429 0.7619 179 R 0.1007 0.0480 0.8513 180 G 0.0171 0.6979 0.2850 181 D 0.0108 0.7539 0.2353 182 H 0.0177 0.7824 0.1999 183 L 0.0166 0.7787 0.2046 184 E 0.0198 0.6843 0.2959 185 N 0.0292 0.5564 0.4145 186 Y 0.0511 0.2634 0.6855 187 G 0.0393 0.1221 0.8387 188 N 0.0462 0.0898 0.8640 189 S 0.0654 0.1585 0.7761 190 L 0.0057 0.9361 0.0582 191 T 0.0049 0.9515 0.0436 192 R 0.0047 0.9530 0.0423 193 Y 0.0044 0.9570 0.0386 194 R 0.0046 0.9552 0.0403 195 S 0.0046 0.9481 0.0473 196 A 0.0047 0.9414 0.0539 197 F 0.0046 0.9442 0.0512 198 E 0.0054 0.9376 0.0571 199 K 0.0054 0.9264 0.0682 200 I 0.0066 0.9048 0.0886 201 S 0.0140 0.8569 0.1291 202 R 0.0175 0.7516 0.2309 203 N 0.0320 0.4561 0.5118 204 T 0.1076 0.1044 0.7881 205 D 0.1257 0.0483 0.8261 206 L 0.6742 0.0160 0.3098 207 V 0.8682 0.0073 0.1245 208 V 0.8959 0.0061 0.0980 209 T 0.8150 0.0141 0.1710 210 F 0.4153 0.0201 0.5645 211 A 0.0508 0.1122 0.8370 212 E 0.0450 0.0662 0.8888 213 D 0.0732 0.1154 0.8114 214 E 0.0110 0.6270 0.3619 215 L 0.0194 0.6216 0.3590 216 T 0.0551 0.6420 0.3029 217 S 0.0854 0.4918 0.4228 218 H 0.1397 0.2847 0.5756 219 L 0.2237 0.0652 0.7110 220 G 0.2824 0.0425 0.6750 221 D 0.7062 0.0207 0.2731 222 V 0.8217 0.0130 0.1653 223 T 0.8425 0.0108 0.1466 224 F 0.7467 0.0193 0.2340 225 G 0.5301 0.0218 0.4481 226 V 0.3078 0.0502 0.6420 227 K 0.1427 0.0432 0.8141 228 K 0.0870 0.1106 0.8024 229 G 0.0684 0.1540 0.7776 230 T 0.2353 0.1384 0.6264 231 Y 0.5373 0.0649 0.3978 232 T 0.7337 0.0379 0.2283 233 L 0.7879 0.0497 0.1623 234 E 0.7332 0.0703 0.1965 235 M 0.7360 0.0553 0.2088 236 R 0.7638 0.0425 0.1938 237 S 0.8104 0.0322 0.1574 238 A 0.8104 0.0321 0.1575 239 S 0.6425 0.0499 0.3076 240 R 0.3235 0.1107 0.5658 241 A 0.1325 0.0752 0.7923 242 E 0.1925 0.0436 0.7639 243 Q 0.5233 0.0173 0.4595 244 K 0.8252 0.0060 0.1687 245 A 0.8845 0.0048 0.1108 246 M 0.9046 0.0043 0.0910 247 V 0.9013 0.0046 0.0942 248 E 0.8702 0.0071 0.1226 249 K 0.6795 0.0142 0.3063 250 N 0.1748 0.0700 0.7552 251 G 0.1223 0.0774 0.8003 252 K 0.4211 0.0600 0.5189 253 R 0.6293 0.0428 0.3279 254 Y 0.6458 0.0397 0.3145 255 L 0.5575 0.0500 0.3925 256 E 0.6769 0.0297 0.2935 257 L 0.7647 0.0148 0.2206 258 K 0.7375 0.0148 0.2477 259 L 0.6273 0.0183 0.3545 260 K 0.3950 0.0355 0.5695 261 V 0.2605 0.0659 0.6736 262 P 0.1476 0.1188 0.7336 263 G 0.0886 0.2333 0.6780 264 F 0.0340 0.7125 0.2535 265 H 0.0333 0.7562 0.2105 266 N 0.0156 0.8619 0.1225 267 V 0.0045 0.9421 0.0534 268 L 0.0044 0.9504 0.0452 269 N 0.0044 0.9561 0.0395 270 A 0.0044 0.9595 0.0361 271 L 0.0043 0.9610 0.0346 272 A 0.0043 0.9613 0.0344 273 V 0.0043 0.9612 0.0345 274 I 0.0043 0.9611 0.0346 275 A 0.0043 0.9614 0.0342 276 L 0.0043 0.9612 0.0345 277 F 0.0045 0.9587 0.0368 278 D 0.0051 0.9476 0.0473 279 S 0.0068 0.8850 0.1081 280 L 0.0440 0.4130 0.5430 281 G 0.0424 0.0268 0.9308 282 Y 0.0561 0.0089 0.9350 283 D 0.0714 0.0107 0.9179 284 L 0.0050 0.9189 0.0760 285 A 0.0045 0.9490 0.0465 286 P 0.0045 0.9526 0.0429 287 V 0.0044 0.9575 0.0381 288 L 0.0044 0.9539 0.0417 289 E 0.0045 0.9439 0.0516 290 A 0.0047 0.9288 0.0665 291 L 0.0067 0.9044 0.0888 292 E 0.0054 0.8325 0.1621 293 E 0.0100 0.6152 0.3748 294 F 0.0674 0.2774 0.6552 295 R 0.0622 0.1751 0.7628 296 G 0.0822 0.1251 0.7926 297 V 0.1062 0.0989 0.7949 298 H 0.0906 0.1602 0.7492 299 R 0.1485 0.1502 0.7013 300 R 0.3312 0.1893 0.4796 301 F 0.5239 0.1672 0.3089 302 S 0.6215 0.1540 0.2244 303 I 0.6336 0.1509 0.2155 304 A 0.5732 0.1575 0.2693 305 F 0.4903 0.1546 0.3551 306 H 0.2541 0.1834 0.5625 307 D 0.1713 0.1412 0.6876 308 P 0.1540 0.1533 0.6927 309 E 0.1471 0.1664 0.6865 310 T 0.1143 0.0911 0.7945 311 N 0.1362 0.0497 0.8142 312 I 0.5507 0.0111 0.4382 313 Y 0.8575 0.0059 0.1366 314 V 0.9082 0.0042 0.0876 315 I 0.8935 0.0073 0.0992 316 D 0.8075 0.0143 0.1782 317 D 0.3989 0.0392 0.5619 318 Y 0.0837 0.1141 0.8023 319 A 0.0539 0.0856 0.8606 320 H 0.0532 0.0714 0.8755 321 T 0.0731 0.0359 0.8910 322 P 0.0175 0.7446 0.2379 323 D 0.0064 0.8997 0.0938 324 E 0.0055 0.9341 0.0603 325 I 0.0044 0.9579 0.0377 326 R 0.0044 0.9604 0.0353 327 N 0.0044 0.9597 0.0359 328 L 0.0044 0.9599 0.0358 329 L 0.0044 0.9600 0.0356 330 Q 0.0044 0.9582 0.0374 331 T 0.0044 0.9520 0.0436 332 A 0.0047 0.9405 0.0548 333 K 0.0052 0.9153 0.0795 334 E 0.0097 0.8079 0.1824 335 V 0.0354 0.6143 0.3503 336 F 0.0630 0.1874 0.7496 337 E 0.0338 0.1143 0.8519 338 N 0.0278 0.0612 0.9110 339 E 0.1954 0.0240 0.7807 340 K 0.7746 0.0041 0.2214 341 I 0.9095 0.0037 0.0867 342 V 0.9218 0.0039 0.0743 343 V 0.9114 0.0045 0.0842 344 I 0.8093 0.0164 0.1743 345 F 0.4604 0.0151 0.5245 346 Q 0.2249 0.0234 0.7517 347 P 0.1637 0.0682 0.7680 348 H 0.1186 0.1244 0.7569 349 R 0.0951 0.1814 0.7235 350 Y 0.1082 0.2068 0.6850 351 S 0.1328 0.2340 0.6332 352 R 0.1285 0.2642 0.6073 353 L 0.0882 0.3321 0.5797 354 E 0.0326 0.7242 0.2432 355 R 0.0273 0.7559 0.2168 356 E 0.0321 0.7479 0.2200 357 D 0.0270 0.7662 0.2068 358 G 0.0201 0.7741 0.2058 359 N 0.0190 0.7581 0.2229 360 F 0.0337 0.6193 0.3470 361 A 0.0341 0.4395 0.5264 362 K 0.0360 0.3238 0.6402 363 A 0.0422 0.2575 0.7003 364 L 0.0418 0.2111 0.7471 365 Q 0.0380 0.2175 0.7445 366 L 0.0457 0.3059 0.6485 367 A 0.0708 0.4104 0.5188 368 D 0.0999 0.4223 0.4777 369 E 0.0684 0.7307 0.2009 370 V 0.0539 0.8022 0.1439 371 V 0.0478 0.8056 0.1466 372 V 0.0366 0.7937 0.1697 373 T 0.0313 0.7660 0.2027 374 E 0.0219 0.7902 0.1878 375 V 0.0220 0.7588 0.2193 376 Y 0.0403 0.5987 0.3610 377 D 0.0296 0.5215 0.4489 378 A 0.0299 0.5534 0.4167 379 F 0.0513 0.4981 0.4507 380 E 0.0869 0.4327 0.4804 381 E 0.1306 0.4125 0.4569 382 K 0.1221 0.5037 0.3742 383 K 0.0869 0.6456 0.2675 384 N 0.0613 0.7033 0.2354 385 G 0.0529 0.7163 0.2309 386 I 0.0527 0.7550 0.1923 387 S 0.0504 0.7312 0.2184 388 G 0.0246 0.8264 0.1490 389 K 0.0180 0.8550 0.1271 390 M 0.0197 0.8437 0.1366 391 I 0.0281 0.8494 0.1225 392 W 0.0373 0.8499 0.1128 393 D 0.0332 0.8506 0.1161 394 S 0.0601 0.8174 0.1225 395 L 0.1421 0.7268 0.1311 396 K 0.1852 0.6685 0.1463 397 S 0.1874 0.5947 0.2179 398 L 0.1420 0.3871 0.4709 399 G 0.0955 0.1076 0.7969 400 K 0.0691 0.1004 0.8305 401 E 0.0876 0.0874 0.8250 402 A 0.0948 0.1731 0.7321 403 Y 0.0939 0.2481 0.6580 404 F 0.1048 0.2629 0.6323 405 V 0.0893 0.2422 0.6685 406 E 0.0916 0.1816 0.7268 407 K 0.0307 0.6843 0.2851 408 L 0.0144 0.8397 0.1459 409 P 0.0116 0.8747 0.1137 410 E 0.0115 0.8912 0.0973 411 L 0.0078 0.9146 0.0777 412 E 0.0076 0.9251 0.0673 413 K 0.0064 0.9171 0.0765 414 V 0.0060 0.9134 0.0806 415 I 0.0060 0.9118 0.0822 416 S 0.0062 0.8906 0.1032 417 V 0.0071 0.8703 0.1227 418 S 0.0125 0.8375 0.1500 419 E 0.0180 0.8160 0.1660 420 N 0.0244 0.7519 0.2237 421 T 0.0329 0.6938 0.2733 422 V 0.0472 0.6252 0.3276 423 F 0.0732 0.5980 0.3288 424 L 0.1006 0.5697 0.3297 425 F 0.1487 0.5079 0.3435 426 V 0.1852 0.4747 0.3401 427 G 0.1932 0.4006 0.4062 428 A 0.1193 0.3710 0.5096 429 G 0.0903 0.2649 0.6448 430 D 0.0925 0.2958 0.6118 431 I 0.0693 0.3549 0.5757 432 I 0.0660 0.3033 0.6307 433 Y 0.0123 0.7252 0.2624 434 S 0.0072 0.8109 0.1819 435 S 0.0076 0.8620 0.1304 436 R 0.0049 0.9167 0.0784 437 R 0.0045 0.9415 0.0539 438 F 0.0048 0.9480 0.0472 439 V 0.0047 0.9469 0.0483 440 E 0.0047 0.9382 0.0571 441 R 0.0050 0.9194 0.0756 442 Y 0.0072 0.8469 0.1458 443 Q 0.0139 0.6575 0.3286 444 S 0.0837 0.2564 0.6599 445 S 0.0618 0.0473 0.8910 446 K 0.0330 0.1033 0.8636 447 S 0.0279 0.0452 0.9269 448 S 0.2887 0.0147 0.6966 449 P 0.8844 0.0036 0.1120 450 S 0.9267 0.0036 0.0697 451 R 0.9222 0.0036 0.0742 452 V 0.8894 0.0038 0.1068 453 L 0.6052 0.0202 0.3746 454 G 0.2788 0.0168 0.7044 455 S 0.1192 0.0404 0.8404 456 N 0.0779 0.0312 0.8908 457 K 0.0511 0.0310 0.9180