# This file is the result of combining several RDB files, specifically # T0618.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0618.t2k.stride-ebghtl.rdb (weight 1.24869) # T0618.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 T0618.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0618 # 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 T0618.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 36 # # ============================================ # Comments from T0618.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0618 # 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 T0618.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 36 # # ============================================ # Comments from T0618.t2k.str.rdb # ============================================ # TARGET T0618 # 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 T0618.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 36 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0121 0.0292 0.9588 2 K 0.0491 0.2771 0.6738 3 K 0.0296 0.4890 0.4815 4 E 0.0286 0.5468 0.4245 5 S 0.0291 0.5518 0.4191 6 Q 0.0269 0.6381 0.3350 7 V 0.0302 0.6914 0.2784 8 I 0.0290 0.6538 0.3171 9 F 0.0249 0.6313 0.3438 10 D 0.0075 0.7525 0.2400 11 K 0.0039 0.9285 0.0676 12 N 0.0038 0.9475 0.0487 13 V 0.0037 0.9736 0.0226 14 I 0.0037 0.9763 0.0200 15 E 0.0037 0.9763 0.0200 16 F 0.0040 0.9761 0.0199 17 V 0.0037 0.9770 0.0193 18 T 0.0037 0.9770 0.0193 19 V 0.0037 0.9763 0.0200 20 A 0.0037 0.9759 0.0204 21 A 0.0037 0.9748 0.0214 22 E 0.0037 0.9711 0.0252 23 F 0.0038 0.9524 0.0439 24 C 0.0042 0.9149 0.0809 25 A 0.0051 0.7993 0.1955 26 F 0.0096 0.7030 0.2875 27 L 0.0221 0.6156 0.3623 28 E 0.0175 0.4914 0.4911 29 R 0.0141 0.4096 0.5763 30 A 0.0081 0.5876 0.4042 31 E 0.0071 0.5082 0.4847 32 S 0.0096 0.4834 0.5070 33 M 0.0182 0.3783 0.6035 34 K 0.0190 0.2970 0.6840 35 R 0.0058 0.7929 0.2013 36 S 0.0057 0.8475 0.1469 37 T 0.0057 0.8777 0.1166 38 F 0.0042 0.9335 0.0623 39 V 0.0038 0.9616 0.0346 40 D 0.0038 0.9657 0.0305 41 T 0.0037 0.9699 0.0264 42 T 0.0037 0.9708 0.0255 43 L 0.0037 0.9631 0.0331 44 K 0.0038 0.9335 0.0627 45 I 0.0038 0.9279 0.0683 46 L 0.0042 0.9154 0.0804 47 P 0.0039 0.9266 0.0694 48 L 0.0039 0.9329 0.0632 49 L 0.0047 0.9177 0.0776 50 Y 0.0085 0.8844 0.1071 51 L 0.0143 0.8428 0.1429 52 K 0.0173 0.8152 0.1675 53 A 0.0249 0.6981 0.2770 54 S 0.0311 0.4500 0.5189 55 M 0.0557 0.2908 0.6535 56 L 0.0584 0.0844 0.8573 57 P 0.0437 0.0767 0.8796 58 K 0.0549 0.1908 0.7544 59 C 0.0833 0.2046 0.7121 60 E 0.0958 0.1591 0.7451 61 M 0.0918 0.1329 0.7753 62 I 0.0768 0.1431 0.7801 63 G 0.0409 0.2217 0.7373 64 D 0.0397 0.2238 0.7364 65 E 0.0630 0.1369 0.8001 66 S 0.0398 0.0530 0.9072 67 P 0.0535 0.0540 0.8925 68 E 0.1012 0.0634 0.8354 69 T 0.1054 0.0887 0.8058 70 Y 0.1516 0.0675 0.7809 71 V 0.1360 0.0402 0.8239 72 T 0.0389 0.0379 0.9232 73 E 0.0051 0.8877 0.1072 74 E 0.0044 0.9139 0.0817 75 I 0.0039 0.9457 0.0504 76 Y 0.0038 0.9640 0.0322 77 E 0.0038 0.9651 0.0311 78 V 0.0038 0.9645 0.0317 79 L 0.0038 0.9645 0.0317 80 R 0.0038 0.9656 0.0306 81 I 0.0042 0.9631 0.0327 82 N 0.0038 0.9587 0.0375 83 L 0.0041 0.9586 0.0373 84 A 0.0039 0.9472 0.0489 85 S 0.0040 0.9136 0.0824 86 I 0.0042 0.8515 0.1443 87 L 0.0095 0.5449 0.4456 88 A 0.0161 0.0937 0.8902 89 E 0.0253 0.1521 0.8226 90 K 0.0857 0.2035 0.7108 91 D 0.1517 0.1732 0.6751 92 D 0.2974 0.2805 0.4221 93 Y 0.3465 0.4020 0.2515 94 L 0.3375 0.4028 0.2597 95 E 0.3951 0.3396 0.2653 96 V 0.3595 0.2332 0.4073 97 F 0.3592 0.1236 0.5172 98 L 0.1212 0.0492 0.8296 99 P 0.0371 0.3753 0.5877 100 D 0.0282 0.4024 0.5694 101 M 0.0724 0.4440 0.4837 102 A 0.1411 0.2378 0.6211 103 Y 0.0862 0.1338 0.7801 104 S 0.0374 0.0654 0.8972 105 D 0.0329 0.0526 0.9145 106 E 0.0801 0.0376 0.8822 107 P 0.1627 0.0420 0.7953 108 I 0.2714 0.0650 0.6636 109 K 0.2796 0.1222 0.5982 110 K 0.1663 0.1502 0.6834 111 N 0.1627 0.1487 0.6887 112 I 0.0441 0.7089 0.2470 113 S 0.0260 0.7353 0.2387 114 E 0.0219 0.7225 0.2556 115 D 0.0238 0.7090 0.2671 116 L 0.0041 0.9643 0.0316 117 A 0.0041 0.9699 0.0260 118 D 0.0038 0.9668 0.0293 119 I 0.0037 0.9732 0.0231 120 Y 0.0038 0.9688 0.0274 121 Q 0.0038 0.9535 0.0427 122 D 0.0039 0.9273 0.0687 123 I 0.0041 0.9465 0.0494 124 K 0.0037 0.9301 0.0661 125 D 0.0037 0.8484 0.1478 126 F 0.0055 0.8739 0.1206 127 I 0.0180 0.8528 0.1292 128 F 0.0418 0.8389 0.1193 129 V 0.0614 0.8272 0.1115 130 F 0.1067 0.7522 0.1412 131 Q 0.0956 0.6600 0.2443 132 L 0.0312 0.4557 0.5131 133 G 0.0165 0.1651 0.8184 134 L 0.0109 0.3045 0.6846 135 N 0.0124 0.4403 0.5473 136 E 0.0188 0.5473 0.4338 137 T 0.0179 0.5795 0.4026 138 M 0.0081 0.7923 0.1996 139 N 0.0041 0.9425 0.0533 140 D 0.0044 0.9594 0.0362 141 S 0.0037 0.9694 0.0269 142 L 0.0037 0.9737 0.0225 143 A 0.0037 0.9745 0.0218 144 I 0.0037 0.9723 0.0240 145 C 0.0037 0.9688 0.0275 146 Q 0.0037 0.9646 0.0316 147 E 0.0037 0.9392 0.0571 148 N 0.0041 0.8499 0.1460 149 F 0.0094 0.7470 0.2436 150 G 0.0112 0.7303 0.2585 151 L 0.0096 0.7441 0.2464 152 L 0.0147 0.7187 0.2665 153 W 0.0078 0.8317 0.1605 154 G 0.0038 0.9343 0.0619 155 Q 0.0038 0.9683 0.0279 156 K 0.0037 0.9731 0.0232 157 L 0.0037 0.9759 0.0204 158 V 0.0037 0.9762 0.0200 159 N 0.0037 0.9755 0.0208 160 T 0.0037 0.9748 0.0215 161 M 0.0037 0.9748 0.0215 162 R 0.0037 0.9724 0.0238 163 A 0.0037 0.9700 0.0263 164 L 0.0037 0.9697 0.0266 165 H 0.0038 0.9633 0.0329 166 D 0.0040 0.9371 0.0589 167 V 0.0051 0.9133 0.0816 168 K 0.0114 0.8464 0.1422 169 Y 0.0142 0.7355 0.2503 170 S 0.0196 0.5488 0.4315 171 P 0.0190 0.5683 0.4126 172 K 0.0229 0.5798 0.3973 173 A 0.0249 0.4648 0.5102 174 R 0.0210 0.3562 0.6228 175 L 0.0194 0.4682 0.5124 176 E 0.0183 0.5247 0.4570 177 H 0.0155 0.6192 0.3653 178 H 0.0152 0.6065 0.3783 179 H 0.0144 0.6125 0.3730 180 H 0.0159 0.5132 0.4709 181 H 0.0173 0.3331 0.6496 182 H 0.0125 0.0844 0.9031