# This file is the result of combining several RDB files, specifically # T0159.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0159.t2k.stride-ebghtl.rdb (weight 1.24869) # T0159.t2k.str.rdb (weight 1.53983) # T0159.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 T0159.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0159 # 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 T0159.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 45 # # ============================================ # Comments from T0159.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0159 # 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 T0159.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 45 # # ============================================ # Comments from T0159.t2k.str.rdb # ============================================ # TARGET T0159 # 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 T0159.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 45 # # ============================================ # Comments from T0159.t2k.alpha.rdb # ============================================ # TARGET T0159 # 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 T0159.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 45 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 A 0.1052 0.1606 0.7341 2 D 0.1177 0.1753 0.7070 3 L 0.1128 0.1503 0.7369 4 P 0.0469 0.3214 0.6317 5 G 0.0313 0.3434 0.6254 6 K 0.0615 0.2700 0.6684 7 G 0.0659 0.0891 0.8450 8 I 0.1453 0.0445 0.8102 9 T 0.5286 0.0147 0.4567 10 V 0.7597 0.0066 0.2337 11 N 0.8401 0.0060 0.1539 12 P 0.8309 0.0091 0.1600 13 V 0.7403 0.0189 0.2408 14 Q 0.5209 0.0185 0.4606 15 S 0.2248 0.0376 0.7375 16 T 0.1305 0.0367 0.8329 17 I 0.0320 0.5464 0.4216 18 T 0.0145 0.6839 0.3015 19 E 0.0085 0.8457 0.1458 20 E 0.0071 0.9082 0.0848 21 T 0.0100 0.9183 0.0718 22 F 0.0101 0.9364 0.0535 23 Q 0.0053 0.9464 0.0483 24 T 0.0045 0.9544 0.0411 25 L 0.0044 0.9590 0.0366 26 L 0.0044 0.9596 0.0360 27 V 0.0044 0.9595 0.0361 28 S 0.0044 0.9597 0.0359 29 R 0.0044 0.9589 0.0367 30 A 0.0044 0.9578 0.0378 31 L 0.0044 0.9557 0.0399 32 E 0.0047 0.9426 0.0526 33 K 0.0058 0.8880 0.1062 34 L 0.0422 0.4082 0.5497 35 G 0.0363 0.0297 0.9340 36 Y 0.0968 0.0202 0.8830 37 T 0.2637 0.0220 0.7142 38 V 0.3948 0.0281 0.5771 39 N 0.4157 0.0481 0.5362 40 K 0.5415 0.0223 0.4362 41 P 0.4594 0.0219 0.5187 42 S 0.4644 0.0312 0.5044 43 E 0.4285 0.0638 0.5077 44 V 0.2136 0.1154 0.6709 45 D 0.1731 0.1377 0.6892 46 Y 0.2249 0.2692 0.5058 47 N 0.2126 0.4482 0.3392 48 V 0.2164 0.6226 0.1610 49 G 0.1986 0.7003 0.1011 50 Y 0.1780 0.7468 0.0752 51 T 0.1543 0.7726 0.0731 52 S 0.1192 0.7887 0.0920 53 L 0.0795 0.8020 0.1185 54 A 0.0403 0.7560 0.2037 55 S 0.0540 0.3860 0.5600 56 G 0.0415 0.0575 0.9010 57 D 0.1092 0.0513 0.8395 58 A 0.4283 0.0534 0.5183 59 T 0.5043 0.0787 0.4169 60 F 0.6975 0.0832 0.2192 61 T 0.6791 0.0859 0.2350 62 A 0.3751 0.3581 0.2668 63 V 0.1882 0.5017 0.3101 64 N 0.1154 0.5196 0.3650 65 W 0.1136 0.4431 0.4432 66 T 0.1022 0.2740 0.6239 67 P 0.0634 0.3363 0.6003 68 L 0.0566 0.3159 0.6275 69 H 0.0528 0.3060 0.6412 70 D 0.0348 0.5567 0.4086 71 N 0.0189 0.8276 0.1535 72 M 0.0135 0.8731 0.1133 73 Y 0.0114 0.8910 0.0976 74 E 0.0146 0.8939 0.0916 75 A 0.0171 0.8763 0.1067 76 A 0.0248 0.8354 0.1398 77 G 0.0383 0.7065 0.2551 78 G 0.0247 0.5291 0.4462 79 D 0.0416 0.2904 0.6680 80 K 0.0564 0.0921 0.8514 81 K 0.2315 0.0785 0.6900 82 F 0.6464 0.0643 0.2893 83 Y 0.6889 0.0632 0.2479 84 R 0.6904 0.0599 0.2497 85 E 0.5398 0.0828 0.3774 86 G 0.3687 0.0949 0.5363 87 V 0.3381 0.1435 0.5185 88 F 0.2835 0.1306 0.5859 89 V 0.2149 0.1191 0.6659 90 N 0.1189 0.1661 0.7149 91 G 0.1500 0.1431 0.7069 92 A 0.3930 0.1188 0.4882 93 A 0.6213 0.0788 0.2999 94 Q 0.7358 0.0690 0.1952 95 G 0.7711 0.0498 0.1791 96 Y 0.8183 0.0308 0.1509 97 L 0.7700 0.0286 0.2014 98 I 0.5624 0.0271 0.4105 99 D 0.2085 0.1173 0.6742 100 K 0.0346 0.5939 0.3715 101 K 0.0422 0.6731 0.2847 102 T 0.0303 0.7236 0.2461 103 A 0.0270 0.5969 0.3761 104 D 0.0258 0.4636 0.5106 105 Q 0.0623 0.1334 0.8043 106 Y 0.0376 0.1145 0.8478 107 K 0.0500 0.0581 0.8919 108 I 0.1735 0.0461 0.7805 109 T 0.1806 0.0709 0.7484 110 N 0.1666 0.0438 0.7896 111 I 0.0117 0.7725 0.2157 112 A 0.0120 0.7473 0.2407 113 Q 0.0147 0.7646 0.2207 114 L 0.0393 0.6610 0.2997 115 K 0.0216 0.5086 0.4699 116 D 0.0331 0.3624 0.6045 117 P 0.0626 0.3056 0.6318 118 K 0.0644 0.3705 0.5651 119 I 0.1196 0.4472 0.4332 120 A 0.1221 0.4127 0.4652 121 K 0.1630 0.3630 0.4740 122 L 0.1922 0.1623 0.6455 123 F 0.1930 0.0961 0.7108 124 D 0.1312 0.0517 0.8171 125 T 0.0411 0.2064 0.7525 126 N 0.0399 0.1916 0.7684 127 G 0.0647 0.1720 0.7633 128 D 0.0707 0.1746 0.7546 129 G 0.1034 0.1286 0.7679 130 K 0.1284 0.1089 0.7627 131 A 0.2980 0.0953 0.6067 132 D 0.5449 0.0800 0.3750 133 L 0.6578 0.0758 0.2664 134 T 0.4968 0.0830 0.4202 135 G 0.3186 0.0417 0.6397 136 C 0.2037 0.0365 0.7597 137 N 0.1482 0.0473 0.8046 138 P 0.0712 0.1309 0.7979 139 G 0.0638 0.1533 0.7830 140 W 0.0569 0.2786 0.6645 141 G 0.0493 0.4103 0.5404 142 C 0.0316 0.7305 0.2380 143 E 0.0200 0.8101 0.1698 144 G 0.0141 0.8856 0.1004 145 A 0.0099 0.9165 0.0736 146 I 0.0055 0.9369 0.0577 147 N 0.0049 0.9469 0.0483 148 H 0.0053 0.9418 0.0529 149 Q 0.0048 0.9427 0.0525 150 L 0.0059 0.9326 0.0615 151 A 0.0070 0.9073 0.0857 152 A 0.0140 0.8112 0.1748 153 Y 0.0464 0.4387 0.5149 154 E 0.0479 0.1248 0.8272 155 L 0.0677 0.1128 0.8195 156 T 0.0603 0.1391 0.8005 157 N 0.0398 0.1413 0.8189 158 T 0.1585 0.0667 0.7748 159 V 0.6886 0.0099 0.3014 160 T 0.8534 0.0054 0.1412 161 H 0.8437 0.0082 0.1481 162 N 0.6632 0.0176 0.3192 163 Q 0.3174 0.0545 0.6282 164 G 0.0981 0.0561 0.8458 165 N 0.0580 0.1488 0.7932 166 Y 0.0177 0.7610 0.2213 167 A 0.0081 0.9051 0.0868 168 A 0.0073 0.9335 0.0592 169 M 0.0052 0.9486 0.0462 170 M 0.0050 0.9509 0.0441 171 A 0.0046 0.9552 0.0401 172 D 0.0046 0.9530 0.0424 173 T 0.0044 0.9512 0.0444 174 I 0.0045 0.9516 0.0440 175 S 0.0046 0.9453 0.0502 176 R 0.0050 0.9385 0.0566 177 Y 0.0064 0.8964 0.0972 178 K 0.0101 0.6769 0.3130 179 E 0.0414 0.2416 0.7169 180 G 0.0288 0.0322 0.9390 181 K 0.0694 0.0104 0.9202 182 P 0.2728 0.0075 0.7197 183 V 0.8206 0.0053 0.1741 184 F 0.9229 0.0042 0.0730 185 Y 0.9182 0.0040 0.0778 186 Y 0.8849 0.0096 0.1055 187 T 0.7434 0.0149 0.2418 188 W 0.4618 0.0301 0.5080 189 T 0.2244 0.0272 0.7484 190 P 0.1523 0.1130 0.7347 191 Y 0.1227 0.2664 0.6109 192 W 0.1087 0.4402 0.4511 193 V 0.0857 0.5021 0.4122 194 S 0.0776 0.5687 0.3538 195 N 0.0902 0.4186 0.4912 196 E 0.1152 0.3457 0.5391 197 L 0.2120 0.1085 0.6795 198 K 0.0814 0.0428 0.8759 199 P 0.0400 0.0900 0.8700 200 G 0.0360 0.0884 0.8756 201 K 0.1560 0.0964 0.7476 202 D 0.3347 0.0594 0.6059 203 V 0.4379 0.1261 0.4360 204 V 0.4533 0.1501 0.3966 205 W 0.4666 0.1392 0.3942 206 L 0.3239 0.1052 0.5709 207 Q 0.1997 0.1122 0.6882 208 V 0.1230 0.0676 0.8094 209 P 0.0765 0.1127 0.8108 210 F 0.0567 0.2109 0.7323 211 S 0.0641 0.2487 0.6872 212 A 0.0856 0.1903 0.7241 213 L 0.0805 0.1471 0.7724 214 P 0.0651 0.1546 0.7803 215 G 0.0704 0.2055 0.7240 216 D 0.0868 0.2251 0.6881 217 K 0.1117 0.2121 0.6762 218 N 0.1328 0.1649 0.7023 219 A 0.1083 0.2456 0.6462 220 D 0.1208 0.2394 0.6399 221 T 0.1049 0.2307 0.6644 222 K 0.1016 0.1558 0.7426 223 L 0.1159 0.1049 0.7792 224 P 0.0864 0.1431 0.7706 225 N 0.0903 0.1458 0.7639 226 G 0.0758 0.2414 0.6827 227 A 0.0815 0.3191 0.5994 228 N 0.0870 0.3449 0.5681 229 Y 0.0855 0.2679 0.6467 230 G 0.0846 0.1639 0.7516 231 F 0.1292 0.1035 0.7672 232 P 0.1227 0.1186 0.7586 233 V 0.0821 0.4822 0.4357 234 S 0.0690 0.6445 0.2864 235 T 0.1126 0.6788 0.2086 236 M 0.1598 0.7021 0.1381 237 H 0.1704 0.7219 0.1077 238 I 0.1854 0.7268 0.0878 239 V 0.1599 0.7314 0.1087 240 A 0.1064 0.7366 0.1570 241 N 0.0843 0.6893 0.2264 242 K 0.0183 0.7621 0.2196 243 A 0.0156 0.7274 0.2570 244 W 0.0102 0.8001 0.1897 245 A 0.0059 0.8587 0.1354 246 E 0.0065 0.7718 0.2218 247 K 0.0131 0.7193 0.2676 248 N 0.0605 0.3092 0.6303 249 P 0.0075 0.8038 0.1887 250 A 0.0060 0.8660 0.1280 251 A 0.0046 0.9410 0.0544 252 A 0.0047 0.9545 0.0408 253 K 0.0047 0.9545 0.0408 254 L 0.0045 0.9512 0.0443 255 F 0.0047 0.9427 0.0525 256 A 0.0050 0.9067 0.0883 257 I 0.0079 0.7237 0.2684 258 M 0.0794 0.2988 0.6218 259 Q 0.0776 0.0414 0.8810 260 L 0.1012 0.0147 0.8841 261 P 0.0634 0.0134 0.9231 262 V 0.0086 0.8285 0.1629 263 A 0.0050 0.8969 0.0982 264 D 0.0061 0.9055 0.0884 265 I 0.0046 0.9376 0.0578 266 N 0.0047 0.9313 0.0640 267 A 0.0046 0.9402 0.0552 268 Q 0.0047 0.9444 0.0509 269 N 0.0051 0.9496 0.0453 270 A 0.0051 0.9506 0.0443 271 I 0.0046 0.9483 0.0470 272 M 0.0057 0.9365 0.0577 273 H 0.0087 0.8733 0.1181 274 A 0.0258 0.5747 0.3995 275 G 0.0406 0.2538 0.7056 276 A 0.0433 0.2073 0.7494 277 A 0.0637 0.1812 0.7550 278 S 0.0623 0.1422 0.7955 279 E 0.0471 0.1673 0.7856 280 G 0.0654 0.1385 0.7960 281 D 0.0868 0.1046 0.8086 282 I 0.0079 0.8994 0.0927 283 Q 0.0048 0.9373 0.0579 284 G 0.0044 0.9512 0.0444 285 H 0.0044 0.9531 0.0425 286 V 0.0044 0.9562 0.0394 287 D 0.0044 0.9579 0.0377 288 G 0.0044 0.9593 0.0363 289 W 0.0044 0.9556 0.0400 290 I 0.0045 0.9505 0.0451 291 K 0.0053 0.9291 0.0656 292 A 0.0134 0.8325 0.1540 293 H 0.0703 0.4888 0.4409 294 Q 0.0064 0.8825 0.1111 295 Q 0.0067 0.8819 0.1114 296 Q 0.0091 0.8687 0.1222 297 F 0.0113 0.8532 0.1355 298 D 0.0107 0.8342 0.1551 299 G 0.0105 0.7973 0.1921 300 W 0.0164 0.6814 0.3023 301 V 0.0557 0.4716 0.4728 302 N 0.0497 0.4198 0.5305 303 E 0.0087 0.8572 0.1341 304 A 0.0102 0.8551 0.1347 305 L 0.0141 0.8467 0.1391 306 A 0.0226 0.7554 0.2220 307 A 0.0298 0.5937 0.3765 308 Q 0.0505 0.3405 0.6090 309 K 0.0343 0.0552 0.9105