# This file is the result of combining several RDB files, specifically # T0333.t06.dssp-ebghstl.rdb (weight 1.53986) # T0333.t06.stride-ebghtl.rdb (weight 1.24869) # T0333.t06.str2.rdb (weight 1.54758) # T0333.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 T0333.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0333 # 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 T0333.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 4708 # # ============================================ # Comments from T0333.t06.stride-ebghtl.rdb # ============================================ # TARGET T0333 # 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 T0333.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 4708 # # ============================================ # Comments from T0333.t06.str2.rdb # ============================================ # TARGET T0333 # 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 T0333.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 4708 # # ============================================ # Comments from T0333.t06.alpha.rdb # ============================================ # TARGET T0333 # 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 T0333.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 4708 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1797 0.0118 0.8085 2 L 0.6937 0.0131 0.2931 3 F 0.8130 0.0128 0.1742 4 V 0.7658 0.0127 0.2215 5 S 0.5074 0.0216 0.4710 6 S 0.1925 0.0368 0.7707 7 P 0.0660 0.0989 0.8351 8 G 0.0593 0.1222 0.8186 9 I 0.0718 0.2263 0.7019 10 G 0.0798 0.2863 0.6339 11 H 0.1243 0.3849 0.4909 12 L 0.1284 0.5613 0.3103 13 F 0.0537 0.7578 0.1885 14 P 0.0378 0.8261 0.1360 15 L 0.0051 0.9468 0.0482 16 I 0.0047 0.9590 0.0363 17 Q 0.0047 0.9594 0.0359 18 L 0.0047 0.9589 0.0364 19 A 0.0047 0.9600 0.0354 20 W 0.0047 0.9593 0.0360 21 G 0.0047 0.9585 0.0368 22 F 0.0048 0.9554 0.0399 23 R 0.0049 0.9463 0.0488 24 T 0.0062 0.8942 0.0996 25 A 0.0405 0.3345 0.6250 26 G 0.0414 0.0170 0.9415 27 H 0.0857 0.0137 0.9007 28 D 0.6323 0.0090 0.3587 29 V 0.9101 0.0034 0.0866 30 L 0.9302 0.0033 0.0665 31 I 0.9315 0.0033 0.0652 32 A 0.9085 0.0048 0.0867 33 V 0.7324 0.0074 0.2601 34 A 0.2815 0.0381 0.6804 35 E 0.1127 0.0946 0.7928 36 H 0.0759 0.2516 0.6724 37 A 0.0427 0.5389 0.4184 38 D 0.0382 0.6974 0.2644 39 R 0.0350 0.7968 0.1682 40 A 0.0441 0.8117 0.1443 41 A 0.0392 0.7667 0.1941 42 A 0.0316 0.7138 0.2546 43 A 0.0485 0.3696 0.5820 44 G 0.0412 0.0641 0.8947 45 L 0.2108 0.0262 0.7630 46 E 0.5953 0.0281 0.3766 47 V 0.7697 0.0276 0.2027 48 V 0.7180 0.0234 0.2587 49 D 0.6674 0.0212 0.3113 50 V 0.4032 0.0418 0.5550 51 A 0.1580 0.0415 0.8005 52 P 0.0598 0.0911 0.8490 53 D 0.0802 0.0930 0.8268 54 Y 0.0642 0.3689 0.5670 55 S 0.0613 0.5056 0.4332 56 A 0.0557 0.7176 0.2267 57 V 0.0694 0.7793 0.1512 58 K 0.1059 0.7747 0.1194 59 V 0.1067 0.7854 0.1079 60 F 0.1209 0.7559 0.1232 61 E 0.1210 0.7577 0.1213 62 Q 0.0838 0.7679 0.1483 63 V 0.0780 0.7248 0.1972 64 A 0.0752 0.6293 0.2956 65 K 0.0474 0.4442 0.5084 66 D 0.0432 0.2785 0.6783 67 N 0.0831 0.0877 0.8292 68 P 0.0727 0.1818 0.7456 69 R 0.1885 0.2434 0.5682 70 F 0.2815 0.2724 0.4461 71 A 0.3174 0.2757 0.4069 72 E 0.3462 0.2704 0.3834 73 T 0.3452 0.2424 0.4124 74 V 0.3065 0.1997 0.4938 75 A 0.2144 0.1645 0.6211 76 T 0.1484 0.1405 0.7111 77 R 0.1107 0.0786 0.8107 78 P 0.0934 0.1358 0.7708 79 A 0.0879 0.2467 0.6654 80 I 0.1053 0.2431 0.6516 81 D 0.1233 0.2689 0.6078 82 L 0.0213 0.8163 0.1624 83 E 0.0120 0.8608 0.1272 84 E 0.0128 0.8640 0.1232 85 W 0.0256 0.8124 0.1619 86 G 0.0245 0.7492 0.2263 87 V 0.0337 0.7942 0.1721 88 Q 0.0304 0.8406 0.1290 89 I 0.0211 0.8850 0.0939 90 A 0.0240 0.8659 0.1101 91 A 0.0208 0.8423 0.1369 92 V 0.0307 0.7291 0.2402 93 N 0.0268 0.6471 0.3261 94 R 0.0285 0.6748 0.2967 95 P 0.0179 0.7135 0.2685 96 L 0.0203 0.6879 0.2918 97 V 0.0181 0.7366 0.2453 98 D 0.0100 0.7757 0.2143 99 G 0.0080 0.8401 0.1519 100 T 0.0074 0.9208 0.0719 101 M 0.0063 0.9410 0.0527 102 A 0.0059 0.9420 0.0521 103 L 0.0052 0.9356 0.0592 104 V 0.0070 0.9112 0.0818 105 D 0.0081 0.8132 0.1787 106 D 0.0134 0.6265 0.3602 107 Y 0.0658 0.2481 0.6860 108 R 0.0923 0.0196 0.8881 109 P 0.1161 0.0194 0.8645 110 D 0.1924 0.0578 0.7498 111 L 0.9144 0.0040 0.0816 112 V 0.9309 0.0033 0.0659 113 V 0.9240 0.0038 0.0722 114 Y 0.8434 0.0119 0.1447 115 E 0.3171 0.0205 0.6624 116 Q 0.0757 0.0958 0.8286 117 G 0.0567 0.1419 0.8014 118 A 0.0657 0.3235 0.6108 119 T 0.0368 0.7389 0.2243 120 V 0.0169 0.8886 0.0945 121 G 0.0143 0.9275 0.0582 122 L 0.0083 0.9498 0.0419 123 L 0.0067 0.9523 0.0411 124 A 0.0052 0.9527 0.0421 125 A 0.0056 0.9509 0.0435 126 D 0.0053 0.9448 0.0498 127 R 0.0079 0.9010 0.0911 128 A 0.0446 0.4312 0.5242 129 G 0.0340 0.0187 0.9473 130 V 0.0669 0.0085 0.9246 131 P 0.2142 0.0078 0.7780 132 A 0.8640 0.0070 0.1291 133 V 0.9171 0.0052 0.0777 134 Q 0.9176 0.0069 0.0755 135 R 0.8725 0.0154 0.1121 136 N 0.6397 0.0231 0.3372 137 Q 0.2692 0.0773 0.6535 138 S 0.1480 0.1074 0.7447 139 A 0.1047 0.2241 0.6712 140 W 0.0901 0.3095 0.6004 141 R 0.0859 0.3703 0.5438 142 T 0.0724 0.4072 0.5205 143 R 0.0605 0.3881 0.5513 144 G 0.0485 0.3956 0.5559 145 M 0.0592 0.4904 0.4504 146 H 0.0460 0.6263 0.3277 147 R 0.0215 0.8208 0.1577 148 S 0.0175 0.8742 0.1083 149 I 0.0090 0.9233 0.0677 150 A 0.0116 0.9144 0.0740 151 S 0.0122 0.8911 0.0967 152 F 0.0109 0.8633 0.1258 153 L 0.0161 0.8206 0.1633 154 T 0.0181 0.7785 0.2034 155 D 0.0178 0.6382 0.3440 156 L 0.0342 0.5153 0.4504 157 M 0.1302 0.1003 0.7695 158 D 0.1105 0.1214 0.7681 159 K 0.6924 0.0666 0.2410 160 H 0.8561 0.0276 0.1162 161 Q 0.8711 0.0198 0.1091 162 V 0.7325 0.0191 0.2483 163 S 0.2920 0.0313 0.6766 164 L 0.0994 0.0227 0.8779 165 P 0.0373 0.2900 0.6727 166 E 0.0473 0.4692 0.4835 167 P 0.0418 0.6808 0.2774 168 V 0.0442 0.7201 0.2358 169 A 0.0620 0.6644 0.2736 170 T 0.0656 0.5670 0.3674 171 I 0.0831 0.3765 0.5403 172 E 0.0617 0.3049 0.6333 173 S 0.0575 0.1911 0.7514 174 F 0.0769 0.0552 0.8679 175 P 0.0678 0.0391 0.8931 176 P 0.0273 0.4576 0.5151 177 S 0.0324 0.5649 0.4027 178 L 0.0535 0.6179 0.3287 179 L 0.1209 0.5023 0.3767 180 L 0.1341 0.4362 0.4297 181 E 0.1102 0.3344 0.5554 182 A 0.0976 0.2463 0.6561 183 E 0.0874 0.0720 0.8406 184 P 0.0564 0.1426 0.8010 185 E 0.0646 0.1674 0.7679 186 G 0.1331 0.1517 0.7153 187 W 0.2258 0.1187 0.6555 188 F 0.3845 0.0863 0.5293 189 M 0.4697 0.0681 0.4623 190 R 0.5356 0.0390 0.4254 191 W 0.5247 0.0252 0.4501 192 V 0.5954 0.0181 0.3865 193 P 0.6117 0.0199 0.3685 194 Y 0.6417 0.0340 0.3243 195 G 0.4309 0.0374 0.5318 196 G 0.2245 0.0642 0.7114 197 G 0.1962 0.0803 0.7235 198 A 0.2302 0.1013 0.6686 199 V 0.2876 0.0896 0.6227 200 L 0.2322 0.0715 0.6962 201 G 0.0839 0.1966 0.7195 202 D 0.0649 0.2313 0.7038 203 R 0.1050 0.1915 0.7034 204 L 0.1376 0.0408 0.8216 205 P 0.1046 0.0214 0.8741 206 P 0.1250 0.0256 0.8494 207 V 0.0970 0.0198 0.8832 208 P 0.0682 0.0421 0.8897 209 A 0.0637 0.0581 0.8781 210 R 0.0842 0.0198 0.8960 211 P 0.1289 0.0175 0.8537 212 E 0.6658 0.0114 0.3229 213 V 0.9144 0.0035 0.0821 214 A 0.9315 0.0033 0.0652 215 I 0.9318 0.0032 0.0650 216 T 0.9174 0.0035 0.0791 217 M 0.7530 0.0183 0.2287 218 G 0.4322 0.0247 0.5431 219 T 0.3357 0.0539 0.6104 220 I 0.2210 0.2073 0.5717 221 E 0.1751 0.2664 0.5585 222 L 0.1161 0.3788 0.5052 223 Q 0.0640 0.4489 0.4871 224 A 0.0596 0.4833 0.4570 225 F 0.0658 0.3591 0.5751 226 G 0.0600 0.2204 0.7196 227 I 0.0285 0.6134 0.3581 228 G 0.0152 0.7623 0.2225 229 A 0.0170 0.8299 0.1531 230 V 0.0085 0.9088 0.0828 231 E 0.0048 0.9472 0.0481 232 P 0.0048 0.9537 0.0416 233 I 0.0048 0.9534 0.0418 234 I 0.0051 0.9457 0.0492 235 A 0.0055 0.9204 0.0742 236 A 0.0071 0.8394 0.1535 237 A 0.0420 0.6280 0.3299 238 G 0.0276 0.4040 0.5684 239 E 0.0334 0.3152 0.6514 240 V 0.0734 0.1320 0.7946 241 D 0.0899 0.0257 0.8844 242 A 0.2552 0.0086 0.7361 243 D 0.7651 0.0087 0.2262 244 F 0.9252 0.0034 0.0715 245 V 0.9313 0.0033 0.0654 246 L 0.9277 0.0036 0.0687 247 A 0.8884 0.0056 0.1061 248 L 0.5320 0.0175 0.4505 249 G 0.1310 0.0311 0.8379 250 D 0.0888 0.0590 0.8521 251 L 0.0707 0.1431 0.7862 252 D 0.1036 0.1344 0.7620 253 I 0.0889 0.2641 0.6470 254 S 0.0608 0.3098 0.6294 255 P 0.0828 0.3745 0.5428 256 L 0.0629 0.5087 0.4284 257 G 0.0602 0.3643 0.5755 258 T 0.0765 0.2996 0.6239 259 L 0.1020 0.0508 0.8472 260 P 0.1047 0.0643 0.8309 261 R 0.1012 0.1362 0.7626 262 N 0.3226 0.0655 0.6119 263 V 0.7750 0.0076 0.2174 264 R 0.8943 0.0069 0.0987 265 A 0.8845 0.0063 0.1092 266 V 0.6525 0.0389 0.3086 267 G 0.3472 0.0276 0.6252 268 W 0.1976 0.0433 0.7591 269 T 0.1409 0.0392 0.8200 270 P 0.1266 0.0580 0.8155 271 L 0.0145 0.8245 0.1610 272 H 0.0098 0.9093 0.0809 273 T 0.0098 0.9181 0.0721 274 L 0.0122 0.9025 0.0853 275 L 0.0220 0.8678 0.1102 276 R 0.0186 0.7360 0.2453 277 T 0.0570 0.4034 0.5396 278 C 0.2065 0.0463 0.7472 279 T 0.1663 0.0550 0.7786 280 A 0.9035 0.0055 0.0910 281 V 0.9263 0.0046 0.0691 282 V 0.9110 0.0077 0.0813 283 H 0.7599 0.0134 0.2267 284 H 0.2190 0.0362 0.7448 285 G 0.0635 0.0703 0.8661 286 G 0.0548 0.1082 0.8370 287 G 0.0325 0.5294 0.4382 288 G 0.0186 0.7920 0.1894 289 T 0.0223 0.8935 0.0842 290 V 0.0088 0.9490 0.0422 291 M 0.0086 0.9521 0.0393 292 T 0.0080 0.9539 0.0381 293 A 0.0060 0.9541 0.0399 294 I 0.0060 0.9454 0.0486 295 D 0.0086 0.8983 0.0930 296 A 0.0450 0.4368 0.5182 297 G 0.0331 0.0278 0.9390 298 I 0.0754 0.0109 0.9137 299 P 0.2624 0.0095 0.7281 300 Q 0.8409 0.0105 0.1486 301 L 0.9049 0.0064 0.0887 302 L 0.8793 0.0116 0.1091 303 A 0.6680 0.0107 0.3213 304 P 0.2418 0.0246 0.7336 305 D 0.1071 0.0193 0.8736 306 P 0.0434 0.2834 0.6732 307 R 0.0184 0.4848 0.4968 308 D 0.0292 0.6054 0.3654 309 Q 0.0288 0.6791 0.2921 310 F 0.0446 0.6410 0.3144 311 Q 0.0470 0.6761 0.2770 312 H 0.0425 0.6551 0.3024 313 T 0.0412 0.6738 0.2849 314 A 0.0210 0.8063 0.1727 315 R 0.0109 0.8921 0.0970 316 E 0.0153 0.9153 0.0694 317 A 0.0174 0.9227 0.0600 318 V 0.0354 0.8853 0.0794 319 S 0.0437 0.8258 0.1306 320 R 0.0461 0.6011 0.3528 321 R 0.0620 0.1459 0.7922 322 G 0.0659 0.0342 0.8999 323 I 0.3299 0.0194 0.6507 324 G 0.7866 0.0095 0.2039 325 L 0.8921 0.0059 0.1020 326 V 0.8810 0.0064 0.1127 327 S 0.7184 0.0129 0.2686 328 T 0.3341 0.0174 0.6485 329 S 0.0800 0.0610 0.8590 330 D 0.0668 0.0362 0.8971 331 K 0.0182 0.6372 0.3446 332 V 0.0248 0.6735 0.3018 333 D 0.0475 0.7492 0.2033 334 A 0.0052 0.9339 0.0610 335 D 0.0048 0.9365 0.0586 336 L 0.0050 0.9454 0.0496 337 L 0.0048 0.9543 0.0409 338 R 0.0048 0.9553 0.0399 339 R 0.0050 0.9498 0.0452 340 L 0.0058 0.9167 0.0775 341 I 0.0113 0.7792 0.2095 342 G 0.0190 0.3933 0.5877 343 D 0.0816 0.0367 0.8817 344 E 0.0050 0.9112 0.0837 345 S 0.0050 0.9250 0.0700 346 L 0.0048 0.9507 0.0445 347 R 0.0047 0.9587 0.0366 348 T 0.0047 0.9568 0.0385 349 A 0.0047 0.9527 0.0425 350 A 0.0048 0.9514 0.0438 351 R 0.0047 0.9530 0.0423 352 E 0.0048 0.9484 0.0468 353 V 0.0051 0.9376 0.0574 354 R 0.0052 0.9365 0.0583 355 E 0.0050 0.9269 0.0681 356 E 0.0056 0.9164 0.0780 357 M 0.0080 0.8970 0.0949 358 V 0.0214 0.7782 0.2004 359 A 0.0254 0.5105 0.4641 360 L 0.0589 0.0744 0.8668 361 P 0.0462 0.0570 0.8968 362 T 0.0634 0.0272 0.9093 363 P 0.0076 0.8598 0.1326 364 A 0.0049 0.9445 0.0506 365 E 0.0048 0.9553 0.0400 366 T 0.0048 0.9572 0.0380 367 V 0.0047 0.9604 0.0349 368 R 0.0046 0.9610 0.0344 369 R 0.0046 0.9601 0.0352 370 I 0.0047 0.9590 0.0363 371 V 0.0047 0.9588 0.0365 372 E 0.0048 0.9535 0.0417 373 R 0.0054 0.9291 0.0655 374 I 0.0118 0.8350 0.1532 375 S 0.0280 0.4793 0.4928 376 G 0.0296 0.0451 0.9253