# This file is the result of combining several RDB files, specifically # T0628.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0628.t2k.stride-ebghtl.rdb (weight 1.24869) # T0628.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 T0628.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0628 # 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 T0628.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 206 # # ============================================ # Comments from T0628.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0628 # 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 T0628.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 206 # # ============================================ # Comments from T0628.t2k.str.rdb # ============================================ # TARGET T0628 # 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 T0628.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 206 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0319 0.0487 0.9194 2 N 0.0713 0.1409 0.7879 3 A 0.1292 0.1332 0.7376 4 M 0.1374 0.1229 0.7397 5 T 0.1792 0.0658 0.7550 6 A 0.2854 0.0674 0.6472 7 R 0.5842 0.0329 0.3829 8 Y 0.9315 0.0090 0.0596 9 I 0.9586 0.0069 0.0345 10 A 0.9466 0.0069 0.0465 11 I 0.8638 0.0131 0.1231 12 D 0.5266 0.0241 0.4493 13 W 0.1465 0.0579 0.7956 14 G 0.0987 0.0892 0.8121 15 S 0.1158 0.1542 0.7300 16 T 0.1461 0.2358 0.6181 17 N 0.3193 0.3301 0.3505 18 L 0.4389 0.3613 0.1998 19 R 0.6033 0.2999 0.0968 20 A 0.6864 0.2527 0.0609 21 W 0.7053 0.2396 0.0551 22 L 0.8299 0.1069 0.0632 23 Y 0.7433 0.0847 0.1720 24 Q 0.3080 0.0519 0.6401 25 G 0.0478 0.0558 0.8965 26 E 0.0280 0.0377 0.9343 27 E 0.1911 0.0426 0.7663 28 C 0.5787 0.0342 0.3871 29 L 0.8055 0.0410 0.1534 30 E 0.7828 0.0609 0.1563 31 S 0.7542 0.0848 0.1610 32 R 0.6712 0.0996 0.2292 33 Q 0.5912 0.0932 0.3155 34 S 0.3212 0.1039 0.5749 35 E 0.1678 0.1659 0.6663 36 A 0.0963 0.2260 0.6777 37 G 0.1371 0.1856 0.6773 38 V 0.3167 0.1957 0.4876 39 T 0.4287 0.2039 0.3674 40 R 0.4371 0.2121 0.3508 41 L 0.3166 0.1480 0.5355 42 N 0.1087 0.0839 0.8074 43 G 0.0268 0.1604 0.8128 44 R 0.0129 0.1993 0.7879 45 S 0.0226 0.2352 0.7422 46 P 0.0137 0.6028 0.3835 47 A 0.0052 0.9133 0.0815 48 A 0.0045 0.9511 0.0444 49 V 0.0041 0.9609 0.0350 50 L 0.0038 0.9649 0.0313 51 A 0.0038 0.9611 0.0351 52 E 0.0038 0.9446 0.0516 53 I 0.0039 0.9214 0.0748 54 T 0.0069 0.8825 0.1107 55 Q 0.0058 0.8037 0.1905 56 H 0.0062 0.7026 0.2912 57 W 0.0131 0.5780 0.4088 58 R 0.0282 0.3884 0.5834 59 D 0.0212 0.1870 0.7918 60 G 0.0197 0.0953 0.8850 61 A 0.0291 0.0369 0.9341 62 T 0.1163 0.0161 0.8676 63 P 0.5046 0.0083 0.4871 64 V 0.9457 0.0032 0.0511 65 V 0.9696 0.0032 0.0273 66 M 0.9528 0.0036 0.0436 67 A 0.7953 0.0078 0.1969 68 G 0.3652 0.0159 0.6189 69 M 0.2953 0.0332 0.6715 70 V 0.2482 0.0545 0.6973 71 G 0.1544 0.0914 0.7542 72 S 0.0783 0.1256 0.7961 73 N 0.0691 0.1751 0.7558 74 V 0.1175 0.1729 0.7096 75 G 0.2442 0.1368 0.6189 76 W 0.5199 0.1099 0.3702 77 K 0.6169 0.1022 0.2810 78 I 0.5816 0.1102 0.3081 79 A 0.2904 0.0524 0.6571 80 P 0.1799 0.0541 0.7660 81 Y 0.2541 0.0682 0.6777 82 L 0.3508 0.0545 0.5947 83 P 0.3038 0.0429 0.6533 84 L 0.2125 0.0301 0.7574 85 P 0.1676 0.0276 0.8048 86 A 0.1117 0.0275 0.8609 87 A 0.0521 0.0324 0.9155 88 F 0.0053 0.8144 0.1803 89 S 0.0041 0.8616 0.1342 90 D 0.0047 0.8630 0.1323 91 I 0.0084 0.8269 0.1647 92 G 0.0187 0.7265 0.2548 93 Q 0.0238 0.5954 0.3808 94 Q 0.0392 0.4837 0.4770 95 L 0.1234 0.3163 0.5603 96 T 0.2668 0.1841 0.5491 97 A 0.2979 0.1174 0.5846 98 V 0.1613 0.0594 0.7793 99 G 0.0855 0.0307 0.8838 100 D 0.0781 0.0547 0.8672 101 N 0.2368 0.0494 0.7138 102 I 0.7113 0.0205 0.2683 103 W 0.8538 0.0121 0.1341 104 I 0.8634 0.0122 0.1244 105 I 0.7514 0.0144 0.2342 106 P 0.5155 0.0180 0.4664 107 G 0.3735 0.0388 0.5878 108 L 0.3401 0.0741 0.5859 109 C 0.3798 0.1055 0.5147 110 V 0.3314 0.1214 0.5472 111 S 0.1916 0.1151 0.6933 112 R 0.0943 0.1176 0.7881 113 D 0.0603 0.0755 0.8642 114 D 0.0538 0.0523 0.8939 115 N 0.0648 0.0665 0.8686 116 H 0.0740 0.0988 0.8272 117 N 0.1540 0.1407 0.7053 118 V 0.3069 0.1825 0.5106 119 M 0.2250 0.2164 0.5586 120 R 0.1136 0.2587 0.6277 121 G 0.0631 0.3441 0.5927 122 E 0.0527 0.6212 0.3261 123 E 0.0713 0.8092 0.1196 124 T 0.1181 0.7690 0.1129 125 Q 0.1002 0.8412 0.0586 126 L 0.0419 0.9210 0.0372 127 L 0.0353 0.9265 0.0382 128 G 0.0514 0.9041 0.0445 129 A 0.0449 0.9099 0.0452 130 R 0.0502 0.8660 0.0837 131 A 0.0599 0.6426 0.2975 132 L 0.0619 0.3363 0.6017 133 A 0.0444 0.0495 0.9061 134 P 0.0274 0.0631 0.9095 135 S 0.0433 0.0597 0.8971 136 S 0.3706 0.0283 0.6012 137 V 0.8804 0.0052 0.1145 138 Y 0.9526 0.0024 0.0450 139 V 0.9355 0.0025 0.0621 140 M 0.7637 0.0037 0.2326 141 P 0.2697 0.0179 0.7124 142 G 0.0716 0.0426 0.8858 143 T 0.0526 0.1050 0.8424 144 H 0.1110 0.1126 0.7764 145 C 0.2645 0.0815 0.6540 146 K 0.6009 0.0691 0.3299 147 W 0.8473 0.0330 0.1198 148 V 0.8920 0.0176 0.0903 149 L 0.9464 0.0072 0.0464 150 A 0.8686 0.0063 0.1250 151 D 0.7096 0.0139 0.2765 152 R 0.0925 0.0302 0.8773 153 R 0.0916 0.0190 0.8894 154 Q 0.8217 0.0052 0.1731 155 I 0.9183 0.0035 0.0782 156 H 0.9013 0.0082 0.0905 157 D 0.8156 0.0202 0.1642 158 F 0.7168 0.0806 0.2026 159 R 0.5008 0.2006 0.2986 160 T 0.3063 0.3782 0.3155 161 V 0.1422 0.5196 0.3382 162 L 0.0757 0.6450 0.2793 163 T 0.0161 0.8216 0.1623 164 G 0.0048 0.9184 0.0767 165 E 0.0055 0.9593 0.0352 166 L 0.0037 0.9723 0.0240 167 H 0.0037 0.9752 0.0211 168 H 0.0037 0.9745 0.0218 169 L 0.0037 0.9675 0.0288 170 L 0.0037 0.9422 0.0541 171 L 0.0038 0.8639 0.1324 172 Q 0.0044 0.6782 0.3173 173 L 0.0109 0.5777 0.4114 174 S 0.0546 0.5137 0.4317 175 L 0.1055 0.5787 0.3158 176 V 0.1035 0.6133 0.2831 177 G 0.0779 0.6104 0.3118 178 A 0.0693 0.5161 0.4146 179 G 0.0610 0.4091 0.5298 180 L 0.0547 0.2687 0.6766 181 P 0.0321 0.1938 0.7741 182 P 0.0177 0.2960 0.6863 183 Q 0.0157 0.3406 0.6437 184 E 0.0219 0.2734 0.7047 185 T 0.0238 0.1677 0.8085 186 S 0.0155 0.1346 0.8500 187 A 0.0056 0.7420 0.2524 188 A 0.0046 0.9052 0.0902 189 A 0.0044 0.9268 0.0688 190 F 0.0052 0.9336 0.0612 191 A 0.0049 0.9325 0.0627 192 A 0.0047 0.9178 0.0775 193 G 0.0052 0.8975 0.0973 194 L 0.0068 0.8864 0.1069 195 Q 0.0062 0.8642 0.1296 196 R 0.0064 0.7907 0.2030 197 G 0.0092 0.6681 0.3227 198 I 0.0159 0.4623 0.5219 199 N 0.0167 0.2129 0.7704 200 N 0.0081 0.4524 0.5395 201 P 0.0052 0.5993 0.3954 202 A 0.0088 0.6596 0.3316 203 V 0.0092 0.8087 0.1821 204 L 0.0050 0.9232 0.0718 205 P 0.0039 0.9390 0.0571 206 Q 0.0039 0.9527 0.0434 207 L 0.0041 0.9601 0.0358 208 F 0.0038 0.9650 0.0313 209 E 0.0038 0.9623 0.0339 210 V 0.0049 0.9585 0.0366 211 R 0.0069 0.9524 0.0406 212 A 0.0038 0.9559 0.0403 213 S 0.0038 0.9503 0.0459 214 H 0.0038 0.9331 0.0631 215 V 0.0046 0.8998 0.0956 216 L 0.0062 0.7742 0.2196 217 G 0.0065 0.3980 0.5955 218 A 0.0110 0.2199 0.7692 219 L 0.0305 0.0646 0.9049 220 P 0.0162 0.0446 0.9392 221 R 0.0045 0.8235 0.1721 222 E 0.0045 0.8577 0.1378 223 Q 0.0042 0.9021 0.0937 224 V 0.0040 0.9365 0.0595 225 S 0.0039 0.9362 0.0599 226 E 0.0039 0.9262 0.0699 227 F 0.0043 0.9144 0.0813 228 L 0.0054 0.9131 0.0816 229 S 0.0043 0.9058 0.0898 230 G 0.0052 0.9413 0.0535 231 L 0.0080 0.9589 0.0331 232 L 0.0100 0.9595 0.0305 233 I 0.0089 0.9531 0.0380 234 G 0.0042 0.9623 0.0335 235 A 0.0038 0.9704 0.0259 236 E 0.0038 0.9679 0.0283 237 V 0.0038 0.9656 0.0306 238 A 0.0052 0.9438 0.0510 239 T 0.0062 0.8881 0.1056 240 L 0.0112 0.8271 0.1617 241 S 0.0150 0.7766 0.2084 242 D 0.0169 0.6964 0.2868 243 T 0.0211 0.6693 0.3096 244 F 0.0477 0.4399 0.5124 245 A 0.0368 0.2030 0.7601 246 G 0.0169 0.1165 0.8666 247 Q 0.0169 0.0393 0.9438 248 Q 0.1663 0.0163 0.8174 249 A 0.6210 0.0030 0.3759 250 I 0.9431 0.0024 0.0545 251 S 0.9755 0.0024 0.0221 252 L 0.9725 0.0024 0.0252 253 V 0.9074 0.0026 0.0900 254 A 0.3675 0.0064 0.6261 255 G 0.0374 0.0808 0.8818 256 S 0.0057 0.6190 0.3753 257 S 0.0049 0.8117 0.1835 258 L 0.0043 0.8926 0.1031 259 T 0.0038 0.9424 0.0538 260 S 0.0038 0.9546 0.0416 261 R 0.0038 0.9652 0.0310 262 Y 0.0038 0.9706 0.0257 263 Q 0.0038 0.9708 0.0255 264 Q 0.0038 0.9702 0.0261 265 A 0.0037 0.9718 0.0244 266 F 0.0038 0.9693 0.0269 267 A 0.0038 0.9597 0.0365 268 A 0.0038 0.9174 0.0788 269 I 0.0046 0.5387 0.4567 270 G 0.0098 0.0274 0.9628 271 R 0.0391 0.0168 0.9440 272 E 0.2448 0.0250 0.7301 273 V 0.6187 0.0507 0.3306 274 S 0.7770 0.0383 0.1847 275 A 0.7129 0.0421 0.2450 276 V 0.3620 0.0244 0.6136 277 A 0.0563 0.0280 0.9157 278 G 0.0044 0.8740 0.1216 279 D 0.0041 0.9151 0.0808 280 T 0.0039 0.9434 0.0527 281 A 0.0044 0.9402 0.0554 282 F 0.0038 0.9625 0.0337 283 Q 0.0038 0.9571 0.0392 284 T 0.0038 0.9368 0.0594 285 G 0.0038 0.9312 0.0650 286 I 0.0037 0.9564 0.0398 287 R 0.0037 0.9706 0.0257 288 S 0.0037 0.9681 0.0282 289 I 0.0037 0.9656 0.0307 290 A 0.0037 0.9525 0.0438 291 Y 0.0038 0.9034 0.0928 292 A 0.0040 0.8283 0.1677 293 V 0.0086 0.6821 0.3093 294 A 0.0184 0.2785 0.7031 295 N 0.0093 0.0100 0.9807