# This file is the result of combining several RDB files, specifically # T0171.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0171.t2k.stride-ebghtl.rdb (weight 1.24869) # T0171.t2k.str.rdb (weight 1.53983) # T0171.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 T0171.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0171 # 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 T0171.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 704 # # ============================================ # Comments from T0171.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0171 # 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 T0171.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 704 # # ============================================ # Comments from T0171.t2k.str.rdb # ============================================ # TARGET T0171 # 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 T0171.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 704 # # ============================================ # Comments from T0171.t2k.alpha.rdb # ============================================ # TARGET T0171 # 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 T0171.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 704 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0692 0.0272 0.9036 2 N 0.4373 0.0090 0.5538 3 N 0.8084 0.0047 0.1870 4 I 0.8778 0.0041 0.1181 5 W 0.8962 0.0049 0.0989 6 W 0.8967 0.0054 0.0979 7 Q 0.8525 0.0086 0.1388 8 T 0.7569 0.0168 0.2263 9 K 0.3181 0.0376 0.6443 10 G 0.1211 0.0314 0.8475 11 Q 0.0922 0.0438 0.8641 12 G 0.0850 0.0317 0.8833 13 N 0.1063 0.0227 0.8710 14 V 0.1576 0.0093 0.8331 15 H 0.6528 0.0049 0.3424 16 L 0.9271 0.0037 0.0692 17 V 0.9309 0.0040 0.0651 18 L 0.9266 0.0042 0.0692 19 L 0.8776 0.0076 0.1148 20 H 0.4936 0.0266 0.4798 21 G 0.1558 0.0372 0.8069 22 W 0.0870 0.0800 0.8330 23 G 0.0513 0.1600 0.7888 24 L 0.0424 0.2159 0.7418 25 N 0.0507 0.2042 0.7451 26 A 0.0291 0.5554 0.4155 27 E 0.0193 0.6465 0.3342 28 V 0.0333 0.6861 0.2806 29 W 0.0168 0.8336 0.1496 30 R 0.0094 0.8992 0.0914 31 C 0.0080 0.8998 0.0922 32 I 0.0077 0.8970 0.0953 33 D 0.0084 0.9116 0.0799 34 E 0.0063 0.9125 0.0812 35 E 0.0079 0.8638 0.1283 36 L 0.0207 0.8090 0.1703 37 S 0.0268 0.6727 0.3005 38 S 0.0183 0.3034 0.6783 39 H 0.0294 0.0764 0.8941 40 F 0.2379 0.0136 0.7486 41 T 0.6179 0.0092 0.3729 42 L 0.9179 0.0035 0.0787 43 H 0.9213 0.0042 0.0745 44 L 0.9013 0.0042 0.0945 45 V 0.7889 0.0077 0.2034 46 D 0.4111 0.0183 0.5706 47 L 0.1297 0.0520 0.8182 48 P 0.0767 0.1249 0.7984 49 G 0.0811 0.1266 0.7923 50 F 0.1156 0.0956 0.7889 51 G 0.1245 0.0817 0.7939 52 R 0.1089 0.0976 0.7935 53 S 0.1135 0.0956 0.7909 54 R 0.0768 0.1031 0.8201 55 G 0.0711 0.0883 0.8406 56 F 0.0748 0.0924 0.8328 57 G 0.0849 0.0926 0.8225 58 A 0.1120 0.0965 0.7915 59 L 0.1177 0.0850 0.7973 60 S 0.1185 0.0637 0.8178 61 L 0.0057 0.9178 0.0765 62 A 0.0045 0.9417 0.0538 63 D 0.0044 0.9511 0.0445 64 M 0.0045 0.9489 0.0466 65 A 0.0045 0.9448 0.0507 66 E 0.0046 0.9291 0.0663 67 A 0.0047 0.9148 0.0805 68 V 0.0068 0.9095 0.0837 69 L 0.0068 0.8745 0.1187 70 Q 0.0121 0.7125 0.2755 71 Q 0.0476 0.3161 0.6363 72 A 0.0538 0.0637 0.8825 73 P 0.0696 0.0423 0.8881 74 D 0.1118 0.0492 0.8390 75 K 0.5279 0.0165 0.4556 76 A 0.8919 0.0042 0.1039 77 I 0.9256 0.0040 0.0704 78 W 0.9308 0.0033 0.0659 79 L 0.8894 0.0108 0.0998 80 G 0.7117 0.0182 0.2701 81 W 0.3023 0.0676 0.6301 82 S 0.0922 0.1771 0.7307 83 L 0.0142 0.7545 0.2313 84 G 0.0055 0.9219 0.0726 85 G 0.0045 0.9535 0.0421 86 L 0.0044 0.9603 0.0354 87 V 0.0043 0.9609 0.0348 88 A 0.0044 0.9602 0.0355 89 S 0.0044 0.9601 0.0356 90 Q 0.0044 0.9596 0.0360 91 I 0.0045 0.9519 0.0436 92 A 0.0047 0.9371 0.0582 93 L 0.0068 0.8801 0.1131 94 T 0.0166 0.7074 0.2760 95 H 0.0783 0.1633 0.7584 96 P 0.0131 0.5398 0.4471 97 E 0.0095 0.4528 0.5377 98 R 0.0433 0.5453 0.4115 99 V 0.3795 0.1641 0.4564 100 Q 0.6157 0.0918 0.2925 101 A 0.8450 0.0296 0.1254 102 L 0.9101 0.0127 0.0773 103 V 0.9197 0.0085 0.0718 104 T 0.8909 0.0141 0.0951 105 V 0.7711 0.0398 0.1891 106 A 0.4396 0.0520 0.5084 107 S 0.1991 0.0824 0.7185 108 S 0.1463 0.0999 0.7537 109 P 0.0961 0.1486 0.7553 110 C 0.0748 0.1830 0.7422 111 F 0.0645 0.2245 0.7111 112 S 0.0549 0.2478 0.6973 113 A 0.0584 0.2586 0.6830 114 R 0.0569 0.3053 0.6379 115 D 0.0528 0.3623 0.5849 116 E 0.0468 0.4102 0.5429 117 W 0.0449 0.4541 0.5010 118 P 0.0445 0.4977 0.4577 119 G 0.0409 0.5399 0.4192 120 I 0.0482 0.5303 0.4216 121 K 0.0404 0.6202 0.3394 122 P 0.0240 0.7706 0.2055 123 D 0.0245 0.7836 0.1919 124 V 0.0222 0.7979 0.1799 125 L 0.0246 0.7889 0.1865 126 A 0.0238 0.7730 0.2032 127 G 0.0258 0.7395 0.2347 128 F 0.0289 0.7033 0.2678 129 Q 0.0281 0.6931 0.2788 130 Q 0.0331 0.6267 0.3402 131 Q 0.0354 0.5304 0.4342 132 L 0.0459 0.4554 0.4987 133 S 0.0466 0.4451 0.5083 134 D 0.0311 0.5070 0.4619 135 D 0.0378 0.5036 0.4586 136 F 0.0206 0.7269 0.2525 137 Q 0.0140 0.8158 0.1702 138 R 0.0154 0.8154 0.1692 139 T 0.0167 0.8274 0.1559 140 V 0.0199 0.8303 0.1498 141 E 0.0198 0.8170 0.1632 142 R 0.0250 0.7707 0.2043 143 F 0.0284 0.7321 0.2394 144 L 0.0325 0.6891 0.2784 145 A 0.0381 0.6219 0.3399 146 L 0.0461 0.5221 0.4318 147 Q 0.0518 0.4687 0.4795 148 T 0.0622 0.4003 0.5376 149 M 0.0647 0.3161 0.6193 150 G 0.0519 0.3408 0.6073 151 T 0.0476 0.3391 0.6133 152 E 0.0514 0.2732 0.6754 153 T 0.0626 0.1774 0.7600 154 A 0.0473 0.2062 0.7465 155 R 0.0081 0.8777 0.1142 156 Q 0.0060 0.9080 0.0861 157 D 0.0060 0.9241 0.0699 158 A 0.0057 0.9361 0.0582 159 R 0.0059 0.9332 0.0609 160 A 0.0055 0.9290 0.0655 161 L 0.0067 0.9086 0.0847 162 K 0.0072 0.8972 0.0956 163 K 0.0090 0.8490 0.1420 164 T 0.0129 0.7750 0.2122 165 V 0.0293 0.6381 0.3326 166 L 0.0325 0.5141 0.4534 167 A 0.0485 0.3701 0.5814 168 L 0.0393 0.3485 0.6122 169 P 0.0396 0.3372 0.6232 170 M 0.0366 0.4453 0.5181 171 P 0.0340 0.4943 0.4718 172 E 0.0396 0.5702 0.3902 173 V 0.0172 0.8119 0.1709 174 D 0.0156 0.8703 0.1141 175 V 0.0173 0.8845 0.0982 176 L 0.0207 0.8893 0.0900 177 N 0.0220 0.8848 0.0931 178 G 0.0240 0.8671 0.1090 179 G 0.0211 0.8455 0.1334 180 L 0.0221 0.8257 0.1521 181 E 0.0198 0.7918 0.1884 182 I 0.0222 0.7372 0.2406 183 L 0.0335 0.6331 0.3334 184 K 0.0358 0.5383 0.4260 185 T 0.0474 0.4278 0.5249 186 V 0.0391 0.4468 0.5141 187 D 0.0463 0.4455 0.5083 188 L 0.0285 0.5893 0.3822 189 R 0.0175 0.7111 0.2714 190 Q 0.0144 0.7148 0.2708 191 P 0.0165 0.6865 0.2970 192 L 0.0327 0.6460 0.3212 193 Q 0.0211 0.5190 0.4598 194 N 0.0448 0.3148 0.6404 195 V 0.1309 0.0818 0.7874 196 S 0.1201 0.0445 0.8354 197 M 0.1671 0.0141 0.8188 198 P 0.2723 0.0117 0.7160 199 F 0.8829 0.0049 0.1122 200 L 0.9289 0.0037 0.0674 201 R 0.9267 0.0038 0.0695 202 L 0.9112 0.0053 0.0835 203 Y 0.7155 0.0160 0.2685 204 G 0.2516 0.0285 0.7199 205 Y 0.0708 0.1156 0.8136 206 L 0.0624 0.1155 0.8222 207 D 0.0987 0.0763 0.8250 208 G 0.0556 0.1629 0.7815 209 L 0.1282 0.1378 0.7340 210 V 0.1448 0.0650 0.7902 211 P 0.0921 0.0644 0.8435 212 R 0.0125 0.8074 0.1802 213 K 0.0064 0.8782 0.1154 214 V 0.0054 0.9087 0.0859 215 V 0.0056 0.9267 0.0677 216 P 0.0059 0.9384 0.0556 217 M 0.0054 0.9398 0.0548 218 L 0.0052 0.9385 0.0563 219 D 0.0056 0.9258 0.0686 220 K 0.0070 0.8403 0.1527 221 L 0.0150 0.6563 0.3286 222 W 0.0705 0.0905 0.8390 223 P 0.0226 0.1144 0.8631 224 H 0.0349 0.0623 0.9027 225 S 0.2653 0.0240 0.7107 226 E 0.7086 0.0148 0.2767 227 S 0.9036 0.0041 0.0923 228 Y 0.9110 0.0040 0.0850 229 I 0.8822 0.0047 0.1131 230 F 0.6003 0.0108 0.3889 231 A 0.1103 0.0788 0.8108 232 K 0.0478 0.0556 0.8966 233 A 0.1042 0.0719 0.8239 234 A 0.1127 0.0905 0.7967 235 H 0.1556 0.1062 0.7382 236 A 0.1392 0.1397 0.7211 237 P 0.1359 0.2496 0.6146 238 F 0.0783 0.4309 0.4908 239 I 0.0484 0.5008 0.4509 240 S 0.0433 0.4044 0.5523 241 H 0.0813 0.1924 0.7262 242 P 0.0057 0.8737 0.1206 243 A 0.0047 0.9271 0.0682 244 E 0.0047 0.9459 0.0495 245 F 0.0046 0.9530 0.0424 246 C 0.0044 0.9579 0.0377 247 H 0.0044 0.9578 0.0378 248 L 0.0045 0.9560 0.0395 249 L 0.0045 0.9546 0.0408 250 V 0.0045 0.9527 0.0428 251 A 0.0047 0.9392 0.0561 252 L 0.0049 0.9279 0.0672 253 K 0.0065 0.8824 0.1112 254 Q 0.0057 0.7185 0.2758 255 R 0.0116 0.4829 0.5055 256 V 0.0404 0.0629 0.8967