# This file is the result of combining several RDB files, specifically # T0528.t04.dssp-ebghstl.rdb (weight 1.53986) # T0528.t04.stride-ebghtl.rdb (weight 1.24869) # T0528.t04.str2.rdb (weight 1.54758) # T0528.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 T0528.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0528 # 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 T0528.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 1749 # # ============================================ # Comments from T0528.t04.stride-ebghtl.rdb # ============================================ # TARGET T0528 # 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 T0528.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 1749 # # ============================================ # Comments from T0528.t04.str2.rdb # ============================================ # TARGET T0528 # 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 T0528.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 1749 # # ============================================ # Comments from T0528.t04.alpha.rdb # ============================================ # TARGET T0528 # 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 T0528.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 1749 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0170 0.7826 0.2004 2 T 0.0179 0.9024 0.0797 3 A 0.0146 0.9328 0.0527 4 T 0.0115 0.9480 0.0405 5 A 0.0117 0.9483 0.0400 6 V 0.0082 0.9524 0.0395 7 A 0.0070 0.9482 0.0448 8 L 0.0068 0.9249 0.0683 9 A 0.0116 0.8473 0.1411 10 T 0.0229 0.7720 0.2051 11 T 0.0275 0.7065 0.2660 12 A 0.0317 0.7163 0.2520 13 V 0.0329 0.6884 0.2787 14 H 0.0479 0.5649 0.3872 15 A 0.0602 0.4019 0.5379 16 A 0.0537 0.2460 0.7002 17 D 0.0629 0.1106 0.8264 18 D 0.1563 0.0479 0.7958 19 L 0.5834 0.0066 0.4099 20 K 0.8271 0.0063 0.1666 21 I 0.9235 0.0041 0.0724 22 A 0.9236 0.0049 0.0715 23 L 0.9226 0.0044 0.0730 24 I 0.8458 0.0127 0.1415 25 Y 0.5061 0.0220 0.4719 26 G 0.1671 0.0870 0.7459 27 K 0.0841 0.0945 0.8214 28 T 0.1013 0.0948 0.8039 29 G 0.0768 0.1803 0.7430 30 P 0.0750 0.5169 0.4081 31 L 0.0401 0.7517 0.2082 32 E 0.0324 0.7983 0.1693 33 A 0.0327 0.7767 0.1906 34 Y 0.0351 0.6691 0.2958 35 A 0.0326 0.6904 0.2771 36 K 0.0223 0.8083 0.1694 37 Q 0.0243 0.8168 0.1589 38 T 0.0153 0.8946 0.0901 39 E 0.0068 0.9381 0.0552 40 T 0.0051 0.9540 0.0410 41 G 0.0047 0.9603 0.0351 42 L 0.0047 0.9605 0.0348 43 M 0.0046 0.9613 0.0341 44 M 0.0046 0.9591 0.0362 45 G 0.0046 0.9538 0.0416 46 L 0.0047 0.9584 0.0369 47 E 0.0047 0.9593 0.0361 48 Y 0.0048 0.9509 0.0443 49 A 0.0051 0.9341 0.0607 50 T 0.0122 0.7974 0.1904 51 K 0.0112 0.5905 0.3983 52 G 0.0388 0.2607 0.7005 53 T 0.0734 0.0964 0.8302 54 M 0.1744 0.0598 0.7658 55 T 0.4222 0.0457 0.5321 56 L 0.4554 0.0599 0.4847 57 D 0.1557 0.0403 0.8040 58 G 0.1600 0.0355 0.8045 59 R 0.6248 0.0081 0.3671 60 K 0.8448 0.0032 0.1520 61 I 0.8843 0.0042 0.1115 62 V 0.9235 0.0035 0.0730 63 V 0.9267 0.0032 0.0701 64 I 0.9141 0.0036 0.0823 65 T 0.8712 0.0046 0.1241 66 K 0.6305 0.0141 0.3554 67 D 0.2647 0.0294 0.7058 68 D 0.0503 0.1422 0.8076 69 Q 0.0268 0.1675 0.8057 70 S 0.0555 0.1014 0.8431 71 K 0.0827 0.0612 0.8561 72 P 0.0113 0.8444 0.1443 73 D 0.0056 0.9413 0.0530 74 L 0.0049 0.9528 0.0424 75 S 0.0047 0.9572 0.0381 76 K 0.0047 0.9602 0.0352 77 A 0.0046 0.9611 0.0343 78 A 0.0047 0.9603 0.0351 79 L 0.0047 0.9591 0.0362 80 A 0.0047 0.9577 0.0376 81 E 0.0048 0.9510 0.0442 82 A 0.0052 0.9391 0.0557 83 Y 0.0064 0.9008 0.0928 84 Q 0.0087 0.7827 0.2087 85 D 0.0346 0.4515 0.5139 86 D 0.0440 0.1532 0.8028 87 G 0.0938 0.0337 0.8725 88 A 0.3703 0.0097 0.6201 89 D 0.5694 0.0219 0.4087 90 I 0.9128 0.0037 0.0835 91 A 0.9257 0.0032 0.0710 92 I 0.8847 0.0136 0.1017 93 G 0.6847 0.0116 0.3036 94 T 0.3073 0.0360 0.6567 95 S 0.1361 0.0856 0.7783 96 S 0.1013 0.1212 0.7775 97 S 0.0759 0.2507 0.6734 98 A 0.0212 0.7408 0.2380 99 A 0.0214 0.8117 0.1669 100 A 0.0266 0.8322 0.1411 101 L 0.0252 0.7998 0.1750 102 A 0.0258 0.7236 0.2506 103 D 0.0271 0.6903 0.2826 104 L 0.0152 0.7662 0.2185 105 P 0.0075 0.8872 0.1052 106 V 0.0074 0.9318 0.0609 107 A 0.0075 0.9368 0.0558 108 E 0.0055 0.9295 0.0649 109 E 0.0074 0.8449 0.1477 110 N 0.0478 0.2641 0.6881 111 K 0.0349 0.0314 0.9337 112 K 0.1490 0.0112 0.8397 113 I 0.6754 0.0075 0.3171 114 L 0.8776 0.0078 0.1146 115 I 0.8729 0.0085 0.1186 116 V 0.7283 0.0146 0.2571 117 E 0.3823 0.0407 0.5770 118 P 0.1574 0.1272 0.7154 119 A 0.1211 0.1888 0.6901 120 V 0.1125 0.2272 0.6602 121 A 0.0810 0.3011 0.6179 122 D 0.0529 0.5036 0.4435 123 Q 0.0820 0.5177 0.4003 124 I 0.1702 0.3961 0.4337 125 T 0.1100 0.2439 0.6460 126 G 0.0578 0.1143 0.8279 127 E 0.0959 0.1661 0.7380 128 K 0.2052 0.1729 0.6220 129 W 0.2742 0.1116 0.6141 130 N 0.1780 0.0490 0.7730 131 R 0.0837 0.1408 0.7755 132 Y 0.2218 0.0854 0.6928 133 I 0.7919 0.0299 0.1782 134 F 0.8850 0.0111 0.1039 135 R 0.8698 0.0117 0.1185 136 T 0.6790 0.0253 0.2957 137 G 0.3249 0.0285 0.6466 138 R 0.1534 0.0556 0.7910 139 N 0.1086 0.0661 0.8253 140 S 0.0539 0.1856 0.7605 141 S 0.0263 0.5206 0.4531 142 Q 0.0199 0.7636 0.2165 143 D 0.0197 0.8034 0.1769 144 A 0.0135 0.8754 0.1111 145 I 0.0086 0.9213 0.0701 146 S 0.0072 0.9419 0.0509 147 N 0.0058 0.9460 0.0481 148 A 0.0050 0.9590 0.0360 149 V 0.0047 0.9610 0.0343 150 A 0.0047 0.9604 0.0349 151 I 0.0047 0.9575 0.0377 152 G 0.0052 0.9341 0.0606 153 K 0.0089 0.8345 0.1566 154 Q 0.0419 0.2903 0.6678 155 G 0.0376 0.0157 0.9467 156 V 0.0887 0.0072 0.9041 157 T 0.5915 0.0130 0.3955 158 I 0.9141 0.0033 0.0826 159 A 0.9320 0.0033 0.0647 160 T 0.9319 0.0032 0.0649 161 L 0.8980 0.0062 0.0958 162 A 0.5927 0.0073 0.4001 163 Q 0.1805 0.0737 0.7458 164 D 0.0783 0.0779 0.8438 165 Y 0.0848 0.1475 0.7677 166 A 0.0824 0.2498 0.6677 167 F 0.0863 0.2297 0.6839 168 G 0.0506 0.3465 0.6030 169 R 0.0144 0.7725 0.2131 170 D 0.0161 0.8239 0.1600 171 G 0.0058 0.9249 0.0693 172 V 0.0047 0.9584 0.0369 173 A 0.0047 0.9612 0.0341 174 A 0.0047 0.9612 0.0341 175 F 0.0047 0.9597 0.0356 176 K 0.0046 0.9613 0.0341 177 E 0.0046 0.9618 0.0336 178 A 0.0046 0.9617 0.0337 179 L 0.0047 0.9610 0.0344 180 A 0.0047 0.9546 0.0406 181 K 0.0054 0.9205 0.0741 182 T 0.0408 0.3868 0.5724 183 G 0.0400 0.0192 0.9408 184 A 0.0923 0.0095 0.8982 185 T 0.7640 0.0077 0.2283 186 L 0.8913 0.0034 0.1053 187 A 0.8206 0.0244 0.1550 188 T 0.7862 0.0148 0.1990 189 E 0.7208 0.0356 0.2436 190 E 0.6648 0.0320 0.3032 191 Y 0.6163 0.0280 0.3557 192 V 0.4113 0.0150 0.5737 193 P 0.1713 0.0221 0.8065 194 T 0.0528 0.1105 0.8367 195 T 0.0446 0.1060 0.8494 196 T 0.0910 0.1507 0.7583 197 T 0.1218 0.2297 0.6485 198 D 0.1475 0.2922 0.5603 199 F 0.0647 0.6404 0.2949 200 T 0.0330 0.8380 0.1289 201 A 0.0188 0.9246 0.0566 202 V 0.0086 0.9497 0.0417 203 G 0.0055 0.9581 0.0364 204 Q 0.0047 0.9589 0.0364 205 R 0.0047 0.9577 0.0376 206 L 0.0048 0.9512 0.0441 207 F 0.0049 0.9391 0.0560 208 D 0.0053 0.9058 0.0889 209 A 0.0086 0.8177 0.1737 210 L 0.0363 0.5470 0.4168 211 K 0.0199 0.3960 0.5841 212 D 0.0361 0.2486 0.7153 213 K 0.0644 0.0797 0.8559 214 P 0.0461 0.1216 0.8323 215 G 0.0766 0.0698 0.8537 216 K 0.2490 0.0374 0.7136 217 K 0.8855 0.0040 0.1105 218 I 0.9293 0.0033 0.0674 219 I 0.9311 0.0032 0.0657 220 W 0.9160 0.0043 0.0796 221 V 0.7916 0.0147 0.1937 222 I 0.5410 0.0228 0.4362 223 W 0.2659 0.0661 0.6680 224 A 0.1168 0.1002 0.7830 225 G 0.0562 0.1508 0.7930 226 G 0.0470 0.1558 0.7972 227 G 0.0553 0.2456 0.6991 228 D 0.0598 0.3398 0.6004 229 P 0.0768 0.6060 0.3171 230 L 0.1166 0.7180 0.1654 231 T 0.1740 0.6793 0.1467 232 K 0.1907 0.6018 0.2075 233 L 0.1231 0.5250 0.3519 234 Q 0.0584 0.3143 0.6273 235 D 0.0464 0.0500 0.9036 236 M 0.1037 0.0215 0.8749 237 D 0.0975 0.0244 0.8781 238 P 0.1264 0.0886 0.7850 239 K 0.2482 0.1030 0.6488 240 R 0.6134 0.0566 0.3300 241 Y 0.6905 0.0396 0.2699 242 G 0.6375 0.0372 0.3253 243 I 0.4893 0.0677 0.4430 244 E 0.3985 0.0891 0.5124 245 L 0.2853 0.1536 0.5611 246 S 0.1977 0.1555 0.6468 247 T 0.1478 0.1375 0.7147 248 G 0.0757 0.1210 0.8032 249 G 0.0211 0.5249 0.4540 250 N 0.0339 0.6308 0.3354 251 I 0.0257 0.8147 0.1596 252 L 0.0239 0.8420 0.1341 253 P 0.0161 0.8290 0.1549 254 A 0.0185 0.7916 0.1899 255 L 0.0357 0.6823 0.2820 256 A 0.0308 0.4650 0.5042 257 A 0.0305 0.5477 0.4218 258 Y 0.0303 0.5352 0.4345 259 K 0.0308 0.4950 0.4742 260 R 0.0496 0.3838 0.5666 261 L 0.0934 0.0971 0.8095 262 P 0.0311 0.1675 0.8014 263 G 0.0662 0.1042 0.8296 264 M 0.4333 0.0675 0.4992 265 E 0.6716 0.0538 0.2745 266 G 0.6532 0.0431 0.3038 267 A 0.5275 0.0566 0.4159 268 T 0.3941 0.0873 0.5186 269 Y 0.2989 0.1465 0.5546 270 Y 0.2790 0.1883 0.5326 271 Y 0.2035 0.2069 0.5896 272 Y 0.1127 0.1743 0.7130 273 D 0.0964 0.1131 0.7905 274 I 0.0681 0.0727 0.8592 275 P 0.0327 0.1580 0.8093 276 K 0.0408 0.1164 0.8427 277 N 0.0693 0.0525 0.8782 278 P 0.0092 0.7771 0.2136 279 I 0.0094 0.8407 0.1499 280 N 0.0072 0.9030 0.0898 281 E 0.0048 0.9536 0.0416 282 W 0.0047 0.9564 0.0389 283 L 0.0047 0.9563 0.0390 284 V 0.0047 0.9592 0.0361 285 T 0.0047 0.9592 0.0361 286 E 0.0047 0.9572 0.0381 287 H 0.0047 0.9511 0.0441 288 Q 0.0051 0.9535 0.0414 289 K 0.0054 0.9448 0.0497 290 R 0.0106 0.8762 0.1132 291 F 0.0517 0.5683 0.3800 292 N 0.0332 0.0582 0.9086 293 A 0.0509 0.0120 0.9370 294 P 0.0678 0.0130 0.9192 295 P 0.0774 0.0973 0.8252 296 D 0.0639 0.1760 0.7602 297 F 0.0506 0.5883 0.3611 298 F 0.0497 0.6636 0.2866 299 T 0.0451 0.7290 0.2258 300 A 0.0210 0.8384 0.1407 301 G 0.0155 0.8321 0.1524 302 G 0.0073 0.9161 0.0766 303 F 0.0047 0.9506 0.0446 304 S 0.0047 0.9601 0.0353 305 A 0.0046 0.9615 0.0339 306 A 0.0046 0.9614 0.0339 307 M 0.0046 0.9615 0.0339 308 A 0.0046 0.9617 0.0337 309 V 0.0046 0.9613 0.0341 310 V 0.0046 0.9617 0.0337 311 T 0.0046 0.9611 0.0342 312 A 0.0046 0.9606 0.0347 313 V 0.0047 0.9580 0.0373 314 Q 0.0049 0.9465 0.0486 315 K 0.0066 0.8885 0.1049 316 A 0.0501 0.4974 0.4525 317 K 0.0243 0.0947 0.8811 318 S 0.0700 0.0405 0.8895 319 T 0.0652 0.0545 0.8803 320 D 0.0997 0.0267 0.8736 321 T 0.0051 0.9317 0.0632 322 E 0.0047 0.9590 0.0363 323 K 0.0047 0.9598 0.0355 324 L 0.0047 0.9580 0.0372 325 I 0.0050 0.9560 0.0390 326 A 0.0054 0.9498 0.0448 327 A 0.0061 0.9379 0.0560 328 M 0.0107 0.8920 0.0972 329 E 0.0125 0.6868 0.3007 330 G 0.0176 0.2055 0.7769 331 M 0.0822 0.0421 0.8757 332 E 0.1535 0.0235 0.8230 333 F 0.2887 0.0248 0.6864 334 D 0.2765 0.0331 0.6904 335 T 0.1577 0.0276 0.8147 336 P 0.1301 0.0868 0.7831 337 K 0.2333 0.0357 0.7310 338 G 0.3700 0.0210 0.6089 339 K 0.5427 0.0179 0.4394 340 M 0.8367 0.0081 0.1552 341 V 0.8622 0.0064 0.1314 342 F 0.8107 0.0069 0.1824 343 R 0.3661 0.0108 0.6230 344 K 0.0322 0.3338 0.6341 345 E 0.0222 0.2769 0.7008 346 D 0.0593 0.2411 0.6996 347 H 0.0929 0.2033 0.7038 348 Q 0.1743 0.2720 0.5537 349 A 0.3368 0.2136 0.4497 350 L 0.3794 0.1131 0.5076 351 Q 0.4112 0.0637 0.5251 352 S 0.5419 0.0247 0.4334 353 M 0.7677 0.0068 0.2255 354 Y 0.8984 0.0038 0.0977 355 H 0.9228 0.0036 0.0736 356 F 0.9086 0.0048 0.0867 357 K 0.9215 0.0035 0.0751 358 V 0.8752 0.0062 0.1186 359 K 0.6575 0.0168 0.3257 360 V 0.2536 0.0485 0.6980 361 D 0.1085 0.0264 0.8651 362 P 0.2111 0.0475 0.7414 363 A 0.5540 0.0301 0.4159 364 V 0.7349 0.0202 0.2449 365 A 0.7731 0.0264 0.2005 366 W 0.7490 0.0404 0.2106 367 A 0.7110 0.0423 0.2467 368 V 0.6499 0.0611 0.2890 369 L 0.5064 0.0631 0.4305 370 E 0.4176 0.0589 0.5234 371 P 0.3564 0.1035 0.5401 372 V 0.3050 0.1148 0.5803 373 R 0.3399 0.0851 0.5749 374 E 0.3574 0.0927 0.5498 375 L 0.2205 0.0485 0.7310 376 K 0.1491 0.0635 0.7874 377 I 0.0526 0.5157 0.4317 378 E 0.0549 0.5902 0.3549 379 E 0.0588 0.6250 0.3163 380 M 0.1519 0.3703 0.4778 381 N 0.1672 0.1934 0.6394 382 I 0.1445 0.0910 0.7646 383 P 0.1456 0.0768 0.7777 384 I 0.0501 0.4558 0.4941 385 K 0.0388 0.4576 0.5037 386 N 0.0384 0.3366 0.6249 387 K 0.0540 0.1286 0.8175 388 K 0.0447 0.0597 0.8956