# This file is the result of combining several RDB files, specifically # T0203.t04.dssp-ebghstl.rdb (weight 1.53986) # T0203.t04.stride-ebghtl.rdb (weight 1.24869) # T0203.t04.str2.rdb (weight 1.54758) # T0203.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 T0203.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0203 # 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 T0203.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 24.2794 # # ============================================ # Comments from T0203.t04.stride-ebghtl.rdb # ============================================ # TARGET T0203 # 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 T0203.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 24.2794 # # ============================================ # Comments from T0203.t04.str2.rdb # ============================================ # TARGET T0203 # 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 T0203.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 24.2794 # # ============================================ # Comments from T0203.t04.alpha.rdb # ============================================ # TARGET T0203 # 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 T0203.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 24.2794 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0676 0.0588 0.8736 2 E 0.0767 0.1826 0.7406 3 E 0.0966 0.2280 0.6754 4 S 0.1030 0.2120 0.6850 5 R 0.0930 0.1388 0.7682 6 E 0.1083 0.0912 0.8005 7 S 0.1014 0.0335 0.8651 8 P 0.0894 0.1244 0.7862 9 A 0.0527 0.3043 0.6430 10 E 0.0615 0.3588 0.5797 11 H 0.0866 0.2068 0.7067 12 G 0.0916 0.0904 0.8180 13 Y 0.2245 0.0515 0.7239 14 Y 0.3167 0.0472 0.6361 15 M 0.1647 0.0287 0.8066 16 P 0.1155 0.0972 0.7873 17 A 0.0577 0.3855 0.5568 18 E 0.0778 0.4140 0.5082 19 W 0.0912 0.3922 0.5166 20 D 0.0816 0.2486 0.6699 21 S 0.0463 0.4247 0.5290 22 H 0.0830 0.3485 0.5684 23 A 0.1308 0.2683 0.6009 24 Q 0.4361 0.1697 0.3942 25 T 0.7366 0.0855 0.1779 26 W 0.8208 0.0700 0.1093 27 I 0.8017 0.0619 0.1365 28 G 0.6611 0.0543 0.2846 29 W 0.3494 0.0378 0.6128 30 P 0.1592 0.0814 0.7594 31 E 0.1043 0.1219 0.7737 32 R 0.0802 0.1361 0.7837 33 Q 0.0395 0.3156 0.6449 34 D 0.0387 0.3181 0.6432 35 N 0.0585 0.3167 0.6248 36 W 0.0509 0.4949 0.4543 37 R 0.0380 0.5855 0.3765 38 H 0.0323 0.6176 0.3502 39 N 0.0320 0.5221 0.4459 40 A 0.0384 0.5118 0.4498 41 L 0.0195 0.7290 0.2515 42 P 0.0146 0.8478 0.1376 43 A 0.0073 0.9166 0.0761 44 Q 0.0070 0.9360 0.0569 45 R 0.0050 0.9555 0.0395 46 V 0.0047 0.9560 0.0393 47 F 0.0047 0.9574 0.0378 48 A 0.0047 0.9612 0.0342 49 D 0.0046 0.9616 0.0337 50 V 0.0047 0.9607 0.0346 51 A 0.0047 0.9599 0.0354 52 K 0.0047 0.9590 0.0364 53 A 0.0050 0.9484 0.0466 54 I 0.0058 0.9083 0.0858 55 S 0.0094 0.7424 0.2482 56 K 0.0162 0.4277 0.5561 57 F 0.0663 0.1184 0.8153 58 E 0.1097 0.0158 0.8745 59 P 0.2575 0.0103 0.7322 60 V 0.7679 0.0071 0.2250 61 T 0.9101 0.0038 0.0861 62 V 0.9154 0.0038 0.0808 63 C 0.8744 0.0049 0.1207 64 A 0.5421 0.0077 0.4502 65 S 0.0867 0.0089 0.9044 66 P 0.0057 0.8555 0.1388 67 A 0.0055 0.9058 0.0887 68 Q 0.0051 0.9216 0.0733 69 W 0.0050 0.9412 0.0538 70 E 0.0050 0.9481 0.0470 71 N 0.0049 0.9446 0.0505 72 A 0.0050 0.9382 0.0568 73 R 0.0069 0.9141 0.0791 74 K 0.0079 0.8274 0.1646 75 Q 0.0176 0.6157 0.3667 76 L 0.0778 0.0918 0.8303 77 P 0.0415 0.1128 0.8457 78 E 0.0199 0.1710 0.8091 79 D 0.0702 0.0730 0.8568 80 I 0.4749 0.0103 0.5147 81 R 0.8522 0.0058 0.1420 82 V 0.9247 0.0032 0.0721 83 V 0.9099 0.0052 0.0849 84 E 0.8948 0.0035 0.1017 85 M 0.6557 0.0079 0.3364 86 S 0.3245 0.0162 0.6593 87 M 0.0777 0.1626 0.7597 88 N 0.0632 0.1980 0.7388 89 D 0.1206 0.2314 0.6480 90 S 0.2545 0.3147 0.4308 91 W 0.4424 0.3510 0.2066 92 F 0.4929 0.2941 0.2130 93 R 0.4936 0.2360 0.2704 94 D 0.3766 0.1103 0.5132 95 S 0.1968 0.0701 0.7331 96 G 0.1462 0.0345 0.8193 97 P 0.2652 0.0712 0.6635 98 T 0.5724 0.0861 0.3415 99 F 0.8197 0.0454 0.1348 100 I 0.8705 0.0299 0.0996 101 V 0.8058 0.0416 0.1526 102 R 0.6164 0.0329 0.3507 103 K 0.2109 0.0620 0.7271 104 R 0.1659 0.0442 0.7899 105 P 0.1357 0.1127 0.7516 106 V 0.1520 0.1602 0.6878 107 K 0.2212 0.1751 0.6037 108 L 0.2305 0.2526 0.5169 109 S 0.2262 0.2283 0.5455 110 S 0.2194 0.2521 0.5285 111 L 0.2289 0.2355 0.5355 112 N 0.1671 0.1894 0.6435 113 R 0.1766 0.1267 0.6967 114 N 0.3437 0.0473 0.6090 115 I 0.6474 0.0222 0.3303 116 A 0.7189 0.0390 0.2421 117 G 0.8671 0.0123 0.1207 118 I 0.8783 0.0069 0.1148 119 D 0.8505 0.0084 0.1411 120 W 0.7827 0.0166 0.2006 121 N 0.7704 0.0213 0.2083 122 F 0.7581 0.0272 0.2147 123 N 0.6016 0.0360 0.3624 124 A 0.3943 0.0820 0.5237 125 W 0.2914 0.0933 0.6153 126 G 0.2377 0.0604 0.7019 127 G 0.1449 0.0577 0.7974 128 A 0.1232 0.0985 0.7783 129 N 0.1180 0.1311 0.7509 130 D 0.0722 0.1778 0.7500 131 G 0.0781 0.1868 0.7351 132 C 0.1508 0.1920 0.6572 133 Y 0.1612 0.1876 0.6512 134 N 0.1155 0.1363 0.7482 135 D 0.0663 0.2537 0.6800 136 W 0.0473 0.4468 0.5059 137 S 0.0437 0.5142 0.4421 138 H 0.0311 0.5518 0.4171 139 D 0.0421 0.6954 0.2625 140 L 0.0085 0.9121 0.0794 141 L 0.0106 0.9255 0.0639 142 V 0.0095 0.9309 0.0596 143 S 0.0079 0.9420 0.0501 144 R 0.0055 0.9539 0.0406 145 K 0.0059 0.9515 0.0427 146 I 0.0055 0.9500 0.0445 147 L 0.0063 0.9379 0.0558 148 A 0.0075 0.8956 0.0969 149 L 0.0105 0.8358 0.1537 150 E 0.0304 0.6138 0.3558 151 R 0.0334 0.2133 0.7533 152 I 0.0800 0.0397 0.8803 153 P 0.1089 0.0997 0.7914 154 R 0.2419 0.1969 0.5613 155 F 0.3053 0.1354 0.5593 156 Q 0.2820 0.0954 0.6226 157 H 0.2309 0.0623 0.7068 158 S 0.2901 0.0652 0.6446 159 M 0.6944 0.0324 0.2732 160 I 0.8401 0.0181 0.1418 161 L 0.8284 0.0137 0.1579 162 E 0.6883 0.0330 0.2788 163 G 0.3546 0.0268 0.6186 164 G 0.3506 0.0284 0.6210 165 S 0.5850 0.0279 0.3871 166 I 0.7739 0.0180 0.2080 167 H 0.8200 0.0138 0.1662 168 V 0.7437 0.0245 0.2319 169 D 0.3214 0.0242 0.6544 170 G 0.0990 0.0665 0.8345 171 E 0.1554 0.0691 0.7755 172 G 0.4454 0.0760 0.4786 173 T 0.6750 0.0684 0.2566 174 C 0.8371 0.0471 0.1158 175 L 0.8381 0.0387 0.1232 176 V 0.7504 0.0384 0.2112 177 T 0.4431 0.0505 0.5065 178 E 0.0910 0.6152 0.2938 179 E 0.0769 0.6701 0.2530 180 C 0.0881 0.6544 0.2575 181 L 0.1286 0.5249 0.3465 182 L 0.1291 0.3994 0.4715 183 N 0.1023 0.1439 0.7538 184 K 0.0148 0.3111 0.6741 185 N 0.0248 0.2428 0.7324 186 R 0.1075 0.1714 0.7211 187 N 0.0974 0.0319 0.8708 188 P 0.0187 0.1521 0.8291 189 H 0.0330 0.1177 0.8493 190 M 0.1237 0.0627 0.8137 191 S 0.0752 0.0366 0.8881 192 K 0.0048 0.9520 0.0432 193 E 0.0046 0.9615 0.0339 194 Q 0.0046 0.9616 0.0338 195 I 0.0046 0.9613 0.0340 196 E 0.0046 0.9613 0.0341 197 E 0.0047 0.9608 0.0345 198 E 0.0047 0.9592 0.0361 199 L 0.0047 0.9580 0.0372 200 K 0.0049 0.9555 0.0397 201 K 0.0062 0.9309 0.0630 202 Y 0.0110 0.8569 0.1321 203 L 0.0532 0.3060 0.6408 204 G 0.0471 0.0205 0.9324 205 V 0.1071 0.0097 0.8832 206 Q 0.2573 0.0445 0.6982 207 S 0.8262 0.0121 0.1618 208 F 0.9239 0.0036 0.0725 209 I 0.9290 0.0036 0.0674 210 W 0.9103 0.0041 0.0856 211 L 0.6232 0.0082 0.3687 212 P 0.2540 0.0421 0.7038 213 R 0.1077 0.0708 0.8214 214 G 0.1377 0.0744 0.7878 215 L 0.2260 0.0594 0.7146 216 Y 0.2254 0.0646 0.7101 217 G 0.1079 0.0528 0.8392 218 D 0.0780 0.0667 0.8552 219 E 0.0644 0.1789 0.7568 220 D 0.0928 0.1691 0.7381 221 T 0.1330 0.1526 0.7144 222 N 0.0899 0.1828 0.7273 223 G 0.0919 0.3584 0.5497 224 H 0.1323 0.4210 0.4467 225 I 0.1247 0.5547 0.3205 226 D 0.1583 0.5163 0.3253 227 N 0.1587 0.5747 0.2666 228 M 0.2015 0.6124 0.1861 229 C 0.2574 0.5525 0.1901 230 C 0.2930 0.5107 0.1964 231 F 0.3607 0.3190 0.3203 232 A 0.2735 0.1022 0.6243 233 R 0.1223 0.0250 0.8526 234 P 0.0329 0.0648 0.9022 235 G 0.0366 0.0376 0.9257 236 V 0.6484 0.0088 0.3428 237 V 0.9241 0.0033 0.0726 238 L 0.9259 0.0040 0.0701 239 L 0.9127 0.0043 0.0831 240 S 0.8114 0.0066 0.1820 241 W 0.5365 0.0126 0.4509 242 T 0.2706 0.0205 0.7089 243 D 0.1183 0.0407 0.8410 244 D 0.0718 0.0339 0.8943 245 E 0.0199 0.1597 0.8204 246 T 0.0388 0.0947 0.8665 247 D 0.0798 0.0422 0.8779 248 P 0.0122 0.5287 0.4591 249 Q 0.0194 0.5332 0.4474 250 Y 0.0171 0.7783 0.2046 251 E 0.0073 0.9217 0.0711 252 R 0.0094 0.9152 0.0754 253 S 0.0057 0.9331 0.0611 254 V 0.0047 0.9596 0.0357 255 E 0.0047 0.9592 0.0361 256 A 0.0049 0.9558 0.0393 257 L 0.0047 0.9592 0.0361 258 S 0.0047 0.9588 0.0365 259 V 0.0048 0.9531 0.0421 260 L 0.0050 0.9297 0.0653 261 S 0.0050 0.8749 0.1201 262 N 0.0069 0.7450 0.2481 263 S 0.0185 0.6669 0.3147 264 I 0.0737 0.4842 0.4421 265 D 0.0630 0.2415 0.6954 266 A 0.0254 0.2949 0.6797 267 R 0.0501 0.0991 0.8507 268 G 0.0417 0.0523 0.9060 269 R 0.1420 0.0166 0.8414 270 K 0.5102 0.0084 0.4814 271 I 0.7285 0.0055 0.2660 272 Q 0.8880 0.0038 0.1083 273 V 0.9227 0.0031 0.0742 274 I 0.8976 0.0048 0.0977 275 K 0.8817 0.0040 0.1143 276 L 0.5835 0.0092 0.4072 277 Y 0.3346 0.0159 0.6495 278 I 0.1433 0.0122 0.8445 279 P 0.0981 0.0193 0.8826 280 E 0.0928 0.0329 0.8743 281 P 0.1676 0.0698 0.7626 282 L 0.4110 0.0978 0.4911 283 Y 0.5250 0.0631 0.4119 284 M 0.4389 0.0533 0.5078 285 T 0.2395 0.0532 0.7073 286 E 0.0633 0.6364 0.3003 287 E 0.0652 0.6659 0.2689 288 E 0.0687 0.6291 0.3023 289 S 0.0869 0.5464 0.3667 290 S 0.0589 0.3990 0.5421 291 G 0.0762 0.2068 0.7170 292 I 0.2917 0.1070 0.6013 293 T 0.2879 0.0771 0.6350 294 Q 0.1890 0.1637 0.6473 295 D 0.1016 0.1187 0.7797 296 G 0.0687 0.1089 0.8225 297 E 0.1232 0.1041 0.7726 298 A 0.2975 0.0973 0.6052 299 I 0.2316 0.0742 0.6943 300 P 0.1736 0.1479 0.6785 301 R 0.1075 0.2568 0.6357 302 L 0.1090 0.3439 0.5471 303 A 0.0526 0.2222 0.7252 304 G 0.0425 0.1415 0.8161 305 T 0.1629 0.1588 0.6784 306 R 0.2928 0.2115 0.4957 307 L 0.2072 0.2246 0.5682 308 A 0.1402 0.3467 0.5130 309 A 0.1021 0.5431 0.3548 310 S 0.1209 0.5220 0.3571 311 Y 0.2135 0.4745 0.3119 312 V 0.4434 0.3119 0.2448 313 N 0.4557 0.3008 0.2435 314 F 0.4709 0.3997 0.1294 315 Y 0.5299 0.3545 0.1156 316 I 0.5166 0.3621 0.1213 317 A 0.5369 0.1885 0.2746 318 N 0.1168 0.0864 0.7968 319 G 0.0812 0.0472 0.8716 320 G 0.5421 0.0217 0.4362 321 I 0.8811 0.0059 0.1130 322 I 0.8714 0.0056 0.1230 323 A 0.7635 0.0101 0.2264 324 P 0.5561 0.0318 0.4122 325 Q 0.3120 0.0742 0.6138 326 F 0.1401 0.0797 0.7803 327 G 0.0584 0.0496 0.8921 328 D 0.0665 0.0280 0.9055 329 P 0.0258 0.3484 0.6258 330 I 0.0320 0.5402 0.4278 331 R 0.0393 0.4800 0.4807 332 D 0.0124 0.6803 0.3074 333 K 0.0047 0.9566 0.0386 334 E 0.0047 0.9594 0.0359 335 A 0.0047 0.9603 0.0350 336 I 0.0047 0.9609 0.0344 337 R 0.0047 0.9609 0.0344 338 V 0.0047 0.9587 0.0366 339 L 0.0051 0.9458 0.0491 340 S 0.0055 0.9220 0.0725 341 D 0.0068 0.8502 0.1430 342 T 0.0167 0.7115 0.2718 343 F 0.0656 0.0603 0.8742 344 P 0.0191 0.1302 0.8507 345 H 0.0266 0.0722 0.9012 346 H 0.2346 0.0342 0.7311 347 S 0.7032 0.0139 0.2829 348 V 0.9007 0.0047 0.0946 349 V 0.8583 0.0247 0.1170 350 G 0.7932 0.0097 0.1971 351 I 0.3586 0.0338 0.6076 352 E 0.1131 0.0961 0.7908 353 N 0.0977 0.1326 0.7697 354 A 0.0475 0.6862 0.2662 355 R 0.0437 0.7562 0.2001 356 E 0.0604 0.8334 0.1061 357 I 0.1007 0.8110 0.0883 358 V 0.1381 0.7600 0.1018 359 L 0.1184 0.6852 0.1964 360 A 0.0791 0.4043 0.5166 361 G 0.0677 0.1048 0.8275 362 G 0.0793 0.0521 0.8686 363 N 0.2539 0.0605 0.6856 364 I 0.4990 0.0837 0.4173 365 H 0.6242 0.0740 0.3018 366 C 0.6250 0.0958 0.2792 367 I 0.5016 0.1094 0.3890 368 T 0.3900 0.1055 0.5044 369 Q 0.2599 0.1270 0.6130 370 Q 0.2507 0.0973 0.6520 371 Q 0.1590 0.0503 0.7907 372 P 0.1056 0.0456 0.8489 373 A 0.0904 0.0804 0.8292 374 E 0.0831 0.0484 0.8685 375 P 0.1082 0.1416 0.7503 376 T 0.1811 0.1800 0.6388 377 S 0.2496 0.2229 0.5275 378 V 0.1835 0.3737 0.4428 379 A 0.1993 0.3104 0.4904 380 E 0.1332 0.2759 0.5908 381 N 0.0807 0.0945 0.8248 382 H 0.0549 0.0279 0.9172