# This file is the result of combining several RDB files, specifically # T0558.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0558.t2k.stride-ebghtl.rdb (weight 1.24869) # T0558.t2k.str.rdb (weight 1.53983) # 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 T0558.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0558 # 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 T0558.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 97 # # ============================================ # Comments from T0558.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0558 # 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 T0558.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 97 # # ============================================ # Comments from T0558.t2k.str.rdb # ============================================ # TARGET T0558 # 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 T0558.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 97 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0138 0.1088 0.8774 2 K 0.0542 0.5485 0.3973 3 N 0.0346 0.7796 0.1858 4 F 0.0204 0.8792 0.1005 5 I 0.0155 0.9241 0.0604 6 L 0.0180 0.9358 0.0463 7 L 0.0218 0.9365 0.0417 8 V 0.0216 0.9359 0.0425 9 A 0.0205 0.9290 0.0505 10 L 0.0158 0.9196 0.0646 11 F 0.0126 0.9009 0.0865 12 L 0.0146 0.8495 0.1359 13 V 0.0255 0.7948 0.1797 14 A 0.0581 0.6507 0.2911 15 P 0.0794 0.5393 0.3813 16 F 0.0865 0.5108 0.4027 17 A 0.1003 0.5331 0.3667 18 Q 0.1425 0.5010 0.3565 19 G 0.2112 0.3812 0.4076 20 S 0.2366 0.2656 0.4979 21 S 0.1645 0.1508 0.6847 22 P 0.0729 0.1591 0.7681 23 Q 0.0563 0.1046 0.8391 24 H 0.1603 0.0727 0.7670 25 L 0.5583 0.0245 0.4172 26 L 0.8515 0.0089 0.1396 27 V 0.9099 0.0078 0.0823 28 G 0.9200 0.0077 0.0723 29 G 0.9038 0.0088 0.0874 30 S 0.7978 0.0131 0.1891 31 G 0.4838 0.0268 0.4895 32 W 0.1633 0.0374 0.7993 33 N 0.1107 0.0441 0.8452 34 K 0.4750 0.0223 0.5028 35 I 0.8876 0.0049 0.1075 36 A 0.9536 0.0028 0.0436 37 I 0.9672 0.0027 0.0300 38 I 0.9644 0.0027 0.0328 39 N 0.9424 0.0041 0.0535 40 K 0.7098 0.0178 0.2723 41 D 0.3611 0.0469 0.5920 42 T 0.1005 0.0415 0.8580 43 K 0.1723 0.0239 0.8038 44 E 0.6354 0.0076 0.3570 45 I 0.9263 0.0034 0.0704 46 V 0.9315 0.0043 0.0642 47 W 0.9251 0.0074 0.0675 48 E 0.8872 0.0123 0.1005 49 Y 0.8083 0.0164 0.1753 50 P 0.5521 0.0333 0.4147 51 L 0.3125 0.0494 0.6381 52 E 0.1455 0.0805 0.7740 53 K 0.1132 0.0818 0.8050 54 G 0.2303 0.0862 0.6835 55 W 0.4798 0.0558 0.4644 56 E 0.6668 0.0394 0.2938 57 C 0.7317 0.0318 0.2365 58 N 0.7075 0.0284 0.2641 59 S 0.7657 0.0250 0.2093 60 V 0.8459 0.0172 0.1368 61 A 0.8982 0.0105 0.0913 62 A 0.8587 0.0088 0.1324 63 T 0.5006 0.0228 0.4766 64 K 0.0536 0.0406 0.9057 65 A 0.0357 0.0296 0.9346 66 G 0.3732 0.0182 0.6086 67 E 0.8128 0.0028 0.1844 68 I 0.9564 0.0024 0.0412 69 L 0.9665 0.0024 0.0311 70 F 0.9587 0.0028 0.0385 71 S 0.8679 0.0058 0.1263 72 Y 0.5027 0.0194 0.4779 73 S 0.1046 0.0326 0.8627 74 K 0.1351 0.0282 0.8367 75 G 0.7319 0.0084 0.2597 76 A 0.9348 0.0026 0.0626 77 K 0.9699 0.0025 0.0276 78 M 0.9697 0.0024 0.0278 79 I 0.9541 0.0025 0.0434 80 T 0.5622 0.0067 0.4312 81 R 0.0437 0.0234 0.9329 82 D 0.0129 0.0200 0.9671 83 G 0.0502 0.0211 0.9288 84 R 0.3693 0.0078 0.6229 85 E 0.9164 0.0027 0.0809 86 L 0.9399 0.0026 0.0575 87 W 0.9234 0.0058 0.0709 88 N 0.8465 0.0149 0.1386 89 I 0.7446 0.0236 0.2319 90 A 0.4999 0.0386 0.4615 91 A 0.2142 0.0385 0.7472 92 P 0.0900 0.0485 0.8616 93 A 0.0716 0.0487 0.8797 94 G 0.1514 0.0425 0.8061 95 C 0.3386 0.0291 0.6323 96 E 0.5516 0.0255 0.4229 97 M 0.7060 0.0255 0.2685 98 Q 0.7338 0.0222 0.2440 99 T 0.8062 0.0169 0.1770 100 A 0.8531 0.0097 0.1371 101 R 0.8870 0.0047 0.1082 102 I 0.8756 0.0037 0.1207 103 L 0.3351 0.0143 0.6506 104 P 0.0407 0.0269 0.9324 105 D 0.0181 0.0242 0.9576 106 G 0.0440 0.0171 0.9390 107 N 0.2589 0.0058 0.7353 108 A 0.9332 0.0026 0.0642 109 L 0.9671 0.0025 0.0305 110 V 0.9714 0.0025 0.0261 111 A 0.9509 0.0041 0.0450 112 W 0.8881 0.0062 0.1057 113 C 0.5489 0.0181 0.4330 114 G 0.0975 0.0271 0.8753 115 H 0.0575 0.0404 0.9021 116 P 0.0762 0.0408 0.8830 117 S 0.3584 0.0236 0.6180 118 T 0.8536 0.0037 0.1427 119 I 0.9591 0.0024 0.0385 120 L 0.9718 0.0024 0.0258 121 E 0.9702 0.0024 0.0274 122 V 0.9478 0.0026 0.0496 123 N 0.3924 0.0096 0.5981 124 M 0.0301 0.0179 0.9521 125 K 0.0114 0.0166 0.9720 126 G 0.0666 0.0166 0.9168 127 E 0.4759 0.0046 0.5195 128 V 0.9392 0.0025 0.0582 129 L 0.9582 0.0025 0.0393 130 S 0.9511 0.0029 0.0460 131 K 0.9360 0.0037 0.0602 132 T 0.9037 0.0040 0.0923 133 E 0.7288 0.0097 0.2614 134 F 0.4053 0.0319 0.5628 135 E 0.1874 0.0607 0.7520 136 T 0.1072 0.0930 0.7999 137 G 0.0803 0.0968 0.8229 138 I 0.0677 0.1425 0.7898 139 E 0.0490 0.1826 0.7685 140 R 0.0614 0.1666 0.7720 141 P 0.1017 0.2078 0.6905 142 H 0.2017 0.2069 0.5913 143 A 0.2224 0.2122 0.5654 144 Q 0.2933 0.1672 0.5395 145 F 0.4038 0.1845 0.4117 146 R 0.5308 0.1376 0.3317 147 Q 0.6604 0.1017 0.2378 148 I 0.7698 0.0449 0.1853 149 N 0.8391 0.0212 0.1397 150 K 0.8746 0.0090 0.1164 151 N 0.3398 0.0164 0.6438 152 K 0.0285 0.0290 0.9426 153 K 0.0133 0.0201 0.9666 154 G 0.0603 0.0175 0.9222 155 N 0.3466 0.0053 0.6481 156 Y 0.9386 0.0025 0.0589 157 L 0.9600 0.0025 0.0374 158 V 0.9619 0.0026 0.0355 159 P 0.9290 0.0054 0.0656 160 L 0.8048 0.0150 0.1802 161 F 0.3574 0.0475 0.5951 162 A 0.1563 0.0567 0.7870 163 T 0.0656 0.0450 0.8894 164 S 0.2059 0.0253 0.7688 165 E 0.8207 0.0039 0.1754 166 V 0.9568 0.0025 0.0407 167 R 0.9724 0.0024 0.0251 168 E 0.9700 0.0024 0.0276 169 I 0.9592 0.0025 0.0383 170 A 0.4313 0.0082 0.5605 171 P 0.0295 0.0166 0.9539 172 N 0.0107 0.0153 0.9739 173 G 0.0449 0.0145 0.9406 174 Q 0.3847 0.0042 0.6111 175 L 0.9463 0.0025 0.0512 176 L 0.9613 0.0025 0.0362 177 N 0.9633 0.0025 0.0342 178 S 0.9489 0.0027 0.0485 179 V 0.9301 0.0033 0.0666 180 K 0.7827 0.0085 0.2087 181 L 0.4378 0.0192 0.5430 182 S 0.1354 0.0309 0.8337 183 G 0.0830 0.0322 0.8848 184 T 0.2465 0.0217 0.7317 185 P 0.5602 0.0200 0.4198 186 F 0.7780 0.0149 0.2071 187 S 0.8791 0.0128 0.1081 188 S 0.9190 0.0083 0.0727 189 A 0.9409 0.0053 0.0537 190 F 0.9379 0.0032 0.0589 191 L 0.6221 0.0096 0.3683 192 D 0.0810 0.0333 0.8857 193 N 0.0202 0.0282 0.9516 194 G 0.0626 0.0219 0.9155 195 D 0.3606 0.0077 0.6317 196 C 0.9310 0.0025 0.0666 197 L 0.9670 0.0024 0.0306 198 V 0.9722 0.0024 0.0253 199 A 0.9605 0.0025 0.0370 200 C 0.8651 0.0052 0.1297 201 G 0.3970 0.0230 0.5800 202 D 0.0793 0.0341 0.8867 203 A 0.0290 0.0359 0.9351 204 H 0.1148 0.0254 0.8598 205 C 0.7931 0.0040 0.2030 206 F 0.9610 0.0025 0.0365 207 V 0.9769 0.0024 0.0207 208 Q 0.9802 0.0024 0.0174 209 L 0.9741 0.0025 0.0234 210 N 0.9402 0.0027 0.0571 211 L 0.2590 0.0316 0.7094 212 E 0.0211 0.0344 0.9446 213 S 0.0121 0.0316 0.9562 214 N 0.0556 0.0189 0.9254 215 R 0.7222 0.0039 0.2740 216 I 0.9540 0.0025 0.0435 217 V 0.9663 0.0025 0.0312 218 R 0.9654 0.0025 0.0321 219 R 0.9423 0.0033 0.0545 220 V 0.8599 0.0036 0.1365 221 N 0.4172 0.0181 0.5647 222 A 0.1103 0.0507 0.8389 223 N 0.0693 0.0692 0.8616 224 D 0.0796 0.0675 0.8530 225 I 0.0823 0.0697 0.8480 226 E 0.0811 0.0932 0.8257 227 G 0.1366 0.1083 0.7551 228 V 0.3323 0.0651 0.6027 229 Q 0.5042 0.0512 0.4446 230 L 0.6460 0.0494 0.3046 231 F 0.6559 0.0402 0.3039 232 F 0.5709 0.0402 0.3888 233 V 0.4246 0.0646 0.5109 234 A 0.3960 0.0617 0.5423 235 Q 0.5162 0.0475 0.4363 236 L 0.7622 0.0147 0.2231 237 F 0.8820 0.0066 0.1114 238 P 0.9020 0.0034 0.0945 239 L 0.3643 0.0171 0.6186 240 Q 0.0456 0.0307 0.9237 241 N 0.0244 0.0241 0.9515 242 G 0.0876 0.0158 0.8967 243 G 0.2997 0.0048 0.6955 244 L 0.9335 0.0025 0.0640 245 Y 0.9676 0.0024 0.0299 246 I 0.9637 0.0025 0.0338 247 C 0.8848 0.0047 0.1105 248 N 0.6212 0.0120 0.3668 249 W 0.1839 0.0346 0.7815 250 Q 0.0595 0.0457 0.8948 251 G 0.0716 0.0692 0.8592 252 H 0.1755 0.0675 0.7570 253 D 0.4666 0.0599 0.4735 254 R 0.6410 0.0663 0.2926 255 E 0.6821 0.0623 0.2555 256 A 0.6022 0.0581 0.3397 257 G 0.4491 0.0525 0.4985 258 K 0.2236 0.0617 0.7147 259 G 0.0881 0.0732 0.8387 260 K 0.0710 0.0532 0.8759 261 H 0.1885 0.0252 0.7863 262 P 0.4626 0.0072 0.5302 263 Q 0.8438 0.0036 0.1526 264 L 0.9442 0.0025 0.0534 265 V 0.9634 0.0024 0.0342 266 E 0.9602 0.0024 0.0374 267 I 0.9095 0.0025 0.0880 268 D 0.3814 0.0070 0.6116 269 S 0.0323 0.0227 0.9450 270 E 0.0151 0.0221 0.9628 271 G 0.0964 0.0195 0.8841 272 K 0.3793 0.0064 0.6143 273 V 0.9211 0.0026 0.0763 274 V 0.9521 0.0025 0.0454 275 W 0.9628 0.0024 0.0348 276 Q 0.9481 0.0026 0.0493 277 L 0.8717 0.0045 0.1238 278 N 0.5549 0.0176 0.4274 279 D 0.1723 0.0279 0.7998 280 K 0.1440 0.0603 0.7958 281 V 0.0953 0.0922 0.8125 282 K 0.1506 0.0899 0.7594 283 F 0.4223 0.0334 0.5443 284 G 0.6835 0.0095 0.3070 285 M 0.8675 0.0049 0.1276 286 I 0.9092 0.0035 0.0873 287 S 0.8626 0.0055 0.1319 288 T 0.8547 0.0091 0.1361 289 I 0.8722 0.0064 0.1214 290 C 0.8511 0.0068 0.1420 291 P 0.7430 0.0101 0.2469 292 I 0.4408 0.0152 0.5440 293 R 0.1366 0.0171 0.8463 294 E 0.0134 0.0144 0.9721