# This file is the result of combining several RDB files, specifically # T0151.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0151.t2k.stride-ebghtl.rdb (weight 1.24869) # T0151.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 T0151.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0151 # 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 T0151.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 132 # # ============================================ # Comments from T0151.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0151 # 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 T0151.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 132 # # ============================================ # Comments from T0151.t2k.str.rdb # ============================================ # TARGET T0151 # 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 T0151.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 132 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0382 0.0541 0.9077 2 A 0.0743 0.1141 0.8115 3 G 0.0920 0.1067 0.8013 4 D 0.1541 0.0711 0.7748 5 T 0.2556 0.0228 0.7216 6 T 0.7096 0.0126 0.2778 7 I 0.9441 0.0040 0.0519 8 T 0.9646 0.0042 0.0312 9 I 0.9493 0.0031 0.0476 10 V 0.8762 0.0056 0.1182 11 G 0.7664 0.0164 0.2172 12 N 0.6626 0.0295 0.3079 13 L 0.4859 0.0485 0.4656 14 T 0.3174 0.0392 0.6434 15 A 0.1884 0.0289 0.7827 16 D 0.0749 0.0175 0.9076 17 P 0.0975 0.2338 0.6687 18 E 0.2928 0.2376 0.4696 19 L 0.5967 0.1613 0.2420 20 R 0.7141 0.0562 0.2297 21 F 0.8203 0.0193 0.1604 22 T 0.2864 0.0188 0.6948 23 P 0.0350 0.0273 0.9377 24 S 0.0119 0.0199 0.9681 25 G 0.0264 0.0179 0.9557 26 A 0.2401 0.0071 0.7528 27 A 0.8072 0.0029 0.1899 28 V 0.9417 0.0025 0.0558 29 A 0.9745 0.0024 0.0231 30 N 0.9762 0.0024 0.0214 31 F 0.9775 0.0024 0.0201 32 T 0.9755 0.0024 0.0221 33 V 0.9581 0.0024 0.0395 34 A 0.8762 0.0047 0.1191 35 S 0.7356 0.0056 0.2588 36 T 0.4679 0.0116 0.5204 37 P 0.2551 0.0681 0.6768 38 R 0.2748 0.0974 0.6278 39 I 0.2861 0.1171 0.5968 40 Y 0.3102 0.0632 0.6266 41 D 0.1517 0.0658 0.7825 42 R 0.0414 0.0852 0.8734 43 Q 0.0335 0.0737 0.8928 44 T 0.0600 0.0674 0.8726 45 G 0.1590 0.0662 0.7748 46 E 0.4395 0.0749 0.4857 47 W 0.5062 0.0904 0.4034 48 K 0.4107 0.1026 0.4866 49 D 0.2616 0.0865 0.6520 50 G 0.2562 0.0852 0.6586 51 E 0.3684 0.0530 0.5787 52 A 0.4747 0.0353 0.4900 53 L 0.6389 0.0298 0.3314 54 F 0.8485 0.0224 0.1291 55 L 0.8999 0.0147 0.0854 56 R 0.9095 0.0160 0.0745 57 C 0.9049 0.0206 0.0744 58 N 0.8921 0.0249 0.0829 59 I 0.7450 0.0571 0.1979 60 W 0.3603 0.1149 0.5248 61 R 0.0667 0.3386 0.5946 62 E 0.0452 0.5944 0.3604 63 A 0.0203 0.8563 0.1234 64 A 0.0087 0.9305 0.0607 65 E 0.0062 0.9518 0.0420 66 N 0.0085 0.9437 0.0478 67 V 0.0070 0.9422 0.0507 68 A 0.0072 0.9440 0.0488 69 E 0.0068 0.9121 0.0811 70 S 0.0068 0.8439 0.1493 71 L 0.0231 0.6173 0.3596 72 T 0.0303 0.3223 0.6475 73 R 0.0315 0.1362 0.8322 74 G 0.0320 0.0294 0.9386 75 A 0.1229 0.0120 0.8651 76 R 0.6745 0.0040 0.3215 77 V 0.9258 0.0026 0.0716 78 I 0.9630 0.0024 0.0345 79 V 0.9594 0.0024 0.0382 80 S 0.9269 0.0025 0.0706 81 G 0.9189 0.0028 0.0783 82 R 0.9212 0.0032 0.0756 83 L 0.8891 0.0050 0.1059 84 K 0.8870 0.0055 0.1075 85 Q 0.8515 0.0085 0.1399 86 R 0.6831 0.0135 0.3034 87 S 0.7538 0.0111 0.2351 88 F 0.8014 0.0116 0.1871 89 E 0.8438 0.0086 0.1476 90 T 0.3976 0.0257 0.5767 91 R 0.0850 0.0406 0.8743 92 E 0.0269 0.0248 0.9483 93 G 0.0664 0.0161 0.9176 94 E 0.4490 0.0049 0.5462 95 K 0.9132 0.0027 0.0842 96 R 0.9045 0.0026 0.0929 97 T 0.9323 0.0026 0.0651 98 V 0.9273 0.0027 0.0701 99 I 0.9475 0.0025 0.0499 100 E 0.9713 0.0028 0.0259 101 V 0.9677 0.0031 0.0292 102 E 0.9626 0.0049 0.0325 103 V 0.9381 0.0103 0.0516 104 D 0.8449 0.0160 0.1391 105 E 0.6431 0.0434 0.3136 106 I 0.3214 0.0315 0.6471 107 G 0.1771 0.0232 0.7997 108 P 0.0831 0.0248 0.8921 109 S 0.0129 0.0113 0.9758