# This file is the result of combining several RDB files, specifically # T0514.t2k.dssp-ebghstl.rdb (weight 1.53986) # T0514.t2k.stride-ebghtl.rdb (weight 1.24869) # T0514.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 T0514.t2k.dssp-ebghstl.rdb # ============================================ # TARGET T0514 # 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 T0514.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 83 # # ============================================ # Comments from T0514.t2k.stride-ebghtl.rdb # ============================================ # TARGET T0514 # 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 T0514.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 83 # # ============================================ # Comments from T0514.t2k.str.rdb # ============================================ # TARGET T0514 # 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 T0514.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 83 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0463 0.0189 0.9349 2 S 0.3155 0.0640 0.6205 3 L 0.4098 0.0882 0.5021 4 T 0.4312 0.0954 0.4734 5 E 0.5245 0.0763 0.3992 6 T 0.4502 0.0676 0.4822 7 Y 0.2888 0.0603 0.6509 8 G 0.1762 0.0469 0.7769 9 L 0.2617 0.0637 0.6747 10 W 0.6514 0.0442 0.3044 11 S 0.8339 0.0310 0.1351 12 I 0.8651 0.0373 0.0975 13 N 0.8341 0.0334 0.1325 14 C 0.7526 0.0219 0.2256 15 G 0.6071 0.0241 0.3688 16 I 0.3797 0.0354 0.5850 17 Q 0.1341 0.0657 0.8002 18 E 0.0454 0.1060 0.8486 19 G 0.0457 0.0979 0.8564 20 K 0.1389 0.0822 0.7788 21 K 0.3344 0.0740 0.5916 22 V 0.6052 0.0896 0.3052 23 C 0.7538 0.0786 0.1676 24 F 0.8428 0.0744 0.0828 25 M 0.8857 0.0533 0.0610 26 H 0.8919 0.0515 0.0566 27 R 0.8859 0.0496 0.0645 28 Q 0.8621 0.0490 0.0888 29 E 0.8359 0.0488 0.1153 30 V 0.7422 0.0586 0.1992 31 N 0.3255 0.0605 0.6141 32 D 0.0900 0.0657 0.8443 33 Q 0.0258 0.0406 0.9336 34 N 0.0612 0.0201 0.9186 35 R 0.4811 0.0055 0.5134 36 V 0.8590 0.0026 0.1384 37 V 0.9515 0.0024 0.0461 38 V 0.9753 0.0024 0.0223 39 A 0.9783 0.0024 0.0194 40 M 0.9798 0.0024 0.0179 41 S 0.9771 0.0024 0.0205 42 V 0.9685 0.0024 0.0291 43 V 0.9492 0.0024 0.0483 44 L 0.9001 0.0026 0.0973 45 N 0.4606 0.0114 0.5281 46 A 0.0607 0.0324 0.9069 47 D 0.0198 0.0320 0.9482 48 G 0.0847 0.0238 0.8915 49 V 0.3810 0.0069 0.6121 50 V 0.7955 0.0028 0.2018 51 S 0.9255 0.0024 0.0721 52 G 0.9716 0.0024 0.0260 53 N 0.9767 0.0024 0.0210 54 L 0.9748 0.0024 0.0228 55 T 0.9599 0.0024 0.0377 56 V 0.8436 0.0027 0.1537 57 P 0.4863 0.0162 0.4974 58 F 0.2103 0.1095 0.6803 59 G 0.2198 0.1929 0.5873 60 I 0.3890 0.1343 0.4767 61 L 0.5631 0.0473 0.3897 62 V 0.5124 0.0260 0.4616 63 S 0.1381 0.0507 0.8112 64 K 0.0412 0.0704 0.8884 65 P 0.0907 0.0522 0.8571 66 V 0.5543 0.0134 0.4324 67 R 0.8889 0.0041 0.1070 68 L 0.9514 0.0028 0.0458 69 Q 0.9267 0.0033 0.0699 70 V 0.7975 0.0045 0.1980 71 D 0.2386 0.0251 0.7363 72 E 0.0316 0.0563 0.9122 73 G 0.0502 0.1041 0.8457 74 K 0.1031 0.1087 0.7882 75 A 0.1587 0.0758 0.7655 76 V 0.1995 0.0605 0.7399 77 I 0.3087 0.0633 0.6279 78 E 0.4303 0.0456 0.5241 79 T 0.4947 0.0194 0.4859 80 G 0.5902 0.0140 0.3958 81 I 0.8043 0.0167 0.1790 82 R 0.8352 0.0141 0.1507 83 T 0.7966 0.0172 0.1863 84 C 0.6377 0.0178 0.3445 85 V 0.2888 0.0167 0.6945 86 P 0.1123 0.0300 0.8577 87 A 0.1090 0.0352 0.8557 88 G 0.3282 0.0271 0.6447 89 C 0.6558 0.0122 0.3320 90 I 0.8780 0.0079 0.1141 91 V 0.9079 0.0072 0.0849 92 P 0.8697 0.0087 0.1216 93 I 0.6824 0.0130 0.3046 94 V 0.4357 0.0160 0.5483 95 F 0.2228 0.0154 0.7618 96 D 0.0444 0.0150 0.9406 97 K 0.0041 0.9014 0.0945 98 N 0.0041 0.9382 0.0576 99 Y 0.0038 0.9645 0.0318 100 V 0.0037 0.9723 0.0239 101 A 0.0048 0.9639 0.0313 102 A 0.0044 0.9583 0.0373 103 L 0.0066 0.9342 0.0592 104 R 0.0080 0.8319 0.1601 105 A 0.0064 0.4452 0.5484 106 G 0.0135 0.0615 0.9251 107 K 0.0714 0.0262 0.9023 108 H 0.4339 0.0103 0.5558 109 L 0.7569 0.0039 0.2391 110 K 0.9318 0.0027 0.0655 111 L 0.9676 0.0024 0.0299 112 A 0.9590 0.0024 0.0386 113 M 0.9510 0.0028 0.0462 114 T 0.8873 0.0026 0.1101 115 I 0.6773 0.0063 0.3164 116 A 0.4137 0.0224 0.5639 117 A 0.2425 0.0705 0.6870 118 P 0.1170 0.0800 0.8030 119 G 0.0648 0.0749 0.8603 120 E 0.0450 0.0614 0.8936 121 P 0.0554 0.0407 0.9039 122 P 0.2568 0.0165 0.7267 123 L 0.5150 0.0065 0.4785 124 N 0.6458 0.0046 0.3496 125 D 0.7412 0.0041 0.2546 126 L 0.8189 0.0038 0.1773 127 F 0.8204 0.0036 0.1760 128 V 0.7855 0.0064 0.2081 129 Q 0.6231 0.0142 0.3627 130 L 0.2318 0.1768 0.5914 131 N 0.0489 0.3103 0.6408 132 G 0.0457 0.3826 0.5717 133 F 0.0125 0.7702 0.2173 134 S 0.0045 0.9318 0.0637 135 N 0.0037 0.9364 0.0599 136 A 0.0037 0.9557 0.0406 137 L 0.0037 0.9590 0.0373 138 N 0.0039 0.9390 0.0572 139 R 0.0038 0.9262 0.0700 140 L 0.0058 0.8991 0.0952 141 I 0.0048 0.8611 0.1342 142 A 0.0058 0.8043 0.1899 143 L 0.0098 0.6777 0.3126 144 Q 0.0183 0.4873 0.4944 145 K 0.0093 0.0267 0.9639