INFERNAL1/a [1.1.4 | Dec 2020] NAME TLS-PK5 ACC RF01088 DESC Pseudoknot of tRNA-like structure STATES 208 NODES 52 CLEN 68 W 84 ALPH RNA RF no CONS yes MAP yes DATE Wed Mar 5 14:03:55 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/software/bin/cmcalibrate --mpi CM PBEGIN 0.05 PEND 0.05 WBETA 1e-07 QDBBETA1 1e-07 QDBBETA2 1e-15 N2OMEGA 1.52588e-05 N3OMEGA 1.52588e-05 ELSELF -0.08926734 NSEQ 3 EFFN 1.725586 CKSUM 1223899652 NULL 0.000 0.000 0.000 0.000 GA 70.00 TC 79.50 NC 33.70 EFP7GF -8.5775 0.71906 ECMLC 0.57872 -6.90713 3.34522 1600000 452834 0.002650 ECMGC 0.45572 -13.79281 -1.30538 1600000 118453 0.003377 ECMLI 0.57169 -4.65998 4.65860 1600000 247065 0.004857 ECMGI 0.52201 -8.44096 1.72085 1600000 80503 0.004969 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 84 103 -6.785 -8.031 -0.086 -4.484 IL 1 1 2 1 4 1 15 85 105 -2.817 -4.319 -0.613 -2.698 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 16 85 105 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 1 ] - 68 - u - - MR 3 2 3 5 3 1 16 84 103 -8.280 -0.020 -6.598 0.296 -0.796 -0.075 0.318 D 4 2 3 5 3 0 11 82 102 -6.390 -1.568 -0.620 IR 5 5 3 5 3 1 15 84 104 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 67 - c - - MR 6 5 3 8 3 1 15 83 102 -8.280 -0.020 -6.598 0.220 0.640 -1.183 -0.258 D 7 5 3 8 3 0 10 81 101 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 14 83 103 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 66 - u - - MR 9 8 3 11 3 1 14 82 101 -8.280 -0.020 -6.598 0.304 -0.037 -0.981 0.360 D 10 8 3 11 3 0 9 80 100 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 13 82 102 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 65 - U - - MR 12 11 3 14 3 1 13 81 100 -8.280 -0.020 -6.598 -1.340 -1.362 -2.066 1.574 D 13 11 3 14 3 0 8 79 99 -6.390 -1.568 -0.620 IR 14 14 3 14 3 1 13 81 101 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 5 ] - 64 - U - - MR 15 14 3 17 3 1 12 80 99 -8.280 -0.020 -6.598 -1.340 -1.362 -2.066 1.574 D 16 14 3 17 3 0 7 78 98 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 12 80 100 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 63 - U - - MR 18 17 3 20 3 1 12 79 98 -8.280 -0.020 -6.598 -1.340 -1.362 -2.066 1.574 D 19 17 3 20 3 0 6 77 97 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 11 79 99 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 62 - U - - MR 21 20 3 23 3 1 11 78 97 -8.280 -0.020 -6.598 -1.340 -1.362 -2.066 1.574 D 22 20 3 23 3 0 5 76 96 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 10 78 98 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 61 - a - - MR 24 23 3 26 3 1 10 77 96 -8.280 -0.020 -6.598 0.802 -0.886 -1.015 0.288 D 25 23 3 26 3 0 4 75 95 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 9 77 97 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 60 - u - - MR 27 26 3 29 3 1 9 76 95 -8.280 -0.020 -6.598 0.266 -0.793 -1.075 0.804 D 28 26 3 29 3 0 3 74 94 -6.390 -1.568 -0.620 IR 29 29 3 29 3 1 8 76 96 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 59 - u - - MR 30 29 3 32 3 1 9 75 94 -8.280 -0.020 -6.598 0.266 -0.793 -1.075 0.804 D 31 29 3 32 3 0 3 73 93 -6.390 -1.568 -0.620 IR 32 32 3 32 3 1 7 75 95 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 58 - A - - MR 33 32 3 35 3 1 8 74 93 -8.280 -0.020 -6.598 1.682 -2.211 -1.859 -1.738 D 34 32 3 35 3 0 2 72 92 -6.390 -1.568 -0.620 IR 35 35 3 35 3 1 6 74 94 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 57 - A - - MR 36 35 3 38 3 1 7 73 92 -8.280 -0.020 -6.598 1.682 -2.211 -1.859 -1.738 D 37 35 3 38 3 0 1 71 91 -6.390 -1.568 -0.620 IR 38 38 3 38 3 1 6 73 93 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 13 ] - 56 - U - - MR 39 38 3 41 3 1 7 72 91 -8.280 -0.020 -6.598 -1.340 -1.362 -2.066 1.574 D 40 38 3 41 3 0 1 70 90 -6.390 -1.568 -0.620 IR 41 41 3 41 3 1 5 72 92 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 14 ] - 55 - G - - MR 42 41 3 44 5 1 7 71 90 -7.024 -0.041 -6.840 -7.052 -7.943 -1.410 -2.603 1.681 -1.989 D 43 41 3 44 5 0 0 69 89 -5.352 -0.707 -2.978 -4.409 -2.404 IR 44 44 3 44 5 1 4 71 91 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 1 54 G C - - MP 45 44 3 49 6 2 8 70 89 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.590 -3.022 -4.676 0.300 -5.018 -4.633 -0.420 -4.907 -4.227 3.600 -4.575 -0.716 -0.810 -4.368 -2.450 -3.555 ML 46 44 3 49 6 1 2 68 88 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 47 44 3 49 6 1 2 68 88 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 48 44 3 49 6 0 0 66 85 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 49 49 5 49 6 1 3 69 89 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 50 50 6 50 5 1 3 69 89 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 2 53 U A - - MP 51 50 6 55 6 2 7 68 87 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.027 -3.846 -3.883 -0.153 -2.861 -4.462 1.464 -3.544 -3.889 0.126 -4.271 -1.750 3.244 -4.184 -0.541 -2.729 ML 52 50 6 55 6 1 2 66 86 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 53 50 6 55 6 1 2 66 86 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 54 50 6 55 6 0 0 64 83 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 55 55 5 55 6 1 3 67 87 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 56 56 6 56 5 1 3 67 87 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 3 52 C G - - MP 57 56 6 61 6 2 7 66 85 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.391 -4.282 -4.107 -0.529 -2.861 -4.540 3.499 -3.655 -4.152 -0.265 -4.429 -2.228 0.669 -4.470 -0.564 -2.997 ML 58 56 6 61 6 1 2 64 84 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 59 56 6 61 6 1 2 64 84 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 60 56 6 61 6 0 0 62 81 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 61 61 5 61 6 1 3 65 85 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 62 62 6 62 5 1 3 65 85 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 4 51 G C - - MP 63 62 6 67 6 2 6 64 83 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.590 -3.022 -4.676 0.300 -5.018 -4.633 -0.420 -4.907 -4.227 3.600 -4.575 -0.716 -0.810 -4.368 -2.450 -3.555 ML 64 62 6 67 6 1 2 62 82 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 65 62 6 67 6 1 2 62 82 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 66 62 6 67 6 0 0 60 80 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 67 67 5 67 6 1 2 63 83 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 68 68 6 68 5 1 2 63 83 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 19 ] 5 50 u a - - MP 69 68 6 73 6 2 5 62 81 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.349 -3.318 -3.299 0.296 -2.411 -3.930 1.865 -3.072 -3.321 0.535 -3.747 -1.391 2.472 -3.530 1.383 -2.242 ML 70 68 6 73 6 1 1 61 81 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 71 68 6 73 6 1 1 61 80 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 72 68 6 73 6 0 0 59 79 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 73 73 5 73 6 1 2 61 81 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 74 74 6 74 5 1 2 61 81 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 6 49 c g - - MP 75 74 6 79 4 2 3 60 79 -6.862 -7.069 -0.056 -5.483 -3.559 -3.478 -3.453 0.235 -2.443 -4.041 2.471 -3.138 -3.468 0.512 -3.866 -1.464 2.464 -3.705 -0.125 -2.348 ML 76 74 6 79 4 1 1 60 80 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 77 74 6 79 4 1 1 59 79 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 78 74 6 79 4 0 0 58 78 -4.568 -4.250 -2.265 -0.520 IL 79 79 5 79 4 1 2 61 81 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 80 80 6 80 3 1 1 60 80 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 7 - u - - - ML 81 80 6 83 3 1 2 57 77 -7.885 -0.022 -6.539 0.302 -0.796 -0.083 0.319 D 82 80 6 83 3 0 0 56 75 -6.174 -1.687 -0.566 IL 83 83 3 83 3 1 1 59 79 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 8 - G - - - ML 84 83 3 86 3 1 2 56 76 -7.885 -0.022 -6.539 -1.410 -2.603 1.681 -1.989 D 85 83 3 86 3 0 0 55 74 -6.174 -1.687 -0.566 IL 86 86 3 86 3 1 1 58 78 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 9 - G - - - ML 87 86 3 89 3 1 2 55 75 -7.885 -0.022 -6.539 -1.410 -2.603 1.681 -1.989 D 88 86 3 89 3 0 0 54 73 -6.174 -1.687 -0.566 IL 89 89 3 89 3 1 1 57 77 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 10 - A - - - ML 90 89 3 92 3 1 1 54 73 -7.885 -0.022 -6.539 1.682 -2.211 -1.859 -1.738 D 91 89 3 92 3 0 0 53 72 -6.174 -1.687 -0.566 IL 92 92 3 92 3 1 1 56 76 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 11 - U - - - ML 93 92 3 95 3 1 1 53 72 -7.885 -0.022 -6.539 -1.340 -1.362 -2.066 1.574 D 94 92 3 95 3 0 0 52 71 -6.174 -1.687 -0.566 IL 95 95 3 95 3 1 1 55 75 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 12 - G - - - ML 96 95 3 98 3 1 1 52 71 -7.885 -0.022 -6.539 -1.410 -2.603 1.681 -1.989 D 97 95 3 98 3 0 0 51 70 -6.174 -1.687 -0.566 IL 98 98 3 98 3 1 1 54 74 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 13 - g - - - ML 99 98 3 101 3 1 1 51 70 -7.885 -0.022 -6.539 0.410 -1.409 0.787 -0.811 D 100 98 3 101 3 0 0 49 69 -6.174 -1.687 -0.566 IL 101 101 3 101 3 1 1 53 73 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 14 - A - - - ML 102 101 3 104 3 1 1 50 69 -7.885 -0.022 -6.539 1.682 -2.211 -1.859 -1.738 D 103 101 3 104 3 0 0 48 68 -6.174 -1.687 -0.566 IL 104 104 3 104 3 1 1 52 71 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 15 - A - - - ML 105 104 3 107 5 1 1 49 68 -7.024 -0.041 -6.840 -7.052 -7.943 1.682 -2.211 -1.859 -1.738 D 106 104 3 107 5 0 0 47 67 -4.959 -0.803 -4.221 -2.596 -2.508 IL 107 107 3 107 5 1 1 49 68 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 30 ] 16 48 C G - - MP 108 107 3 112 6 2 2 48 67 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.391 -4.282 -4.107 -0.529 -2.861 -4.540 3.499 -3.655 -4.152 -0.265 -4.429 -2.228 0.669 -4.470 -0.564 -2.997 ML 109 107 3 112 6 1 1 46 66 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 110 107 3 112 6 1 1 46 66 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 111 107 3 112 6 0 0 44 63 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 112 112 5 112 6 1 1 47 67 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 113 113 6 113 5 1 1 47 66 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 31 ] 17 47 G C - - MP 114 113 6 118 6 2 2 46 65 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.612 -2.532 -3.638 1.756 -4.057 -4.366 0.391 -3.927 -3.614 3.024 -4.050 -0.168 0.075 -3.705 -1.579 -2.543 ML 115 113 6 118 6 1 1 45 64 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 116 113 6 118 6 1 1 45 64 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 117 113 6 118 6 0 0 43 62 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 118 118 5 118 6 1 1 45 65 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 119 119 6 119 5 1 1 45 64 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 32 ] 18 46 C G - - MP 120 119 6 124 4 2 2 44 63 -6.862 -7.069 -0.056 -5.483 -4.391 -4.282 -4.107 -0.529 -2.861 -4.540 3.499 -3.655 -4.152 -0.265 -4.429 -2.228 0.669 -4.470 -0.564 -2.997 ML 121 119 6 124 4 1 1 44 64 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 122 119 6 124 4 1 1 44 63 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 123 119 6 124 4 0 0 43 62 -4.568 -4.250 -2.265 -0.520 IL 124 124 5 124 4 1 1 46 65 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 125 125 6 125 3 1 1 45 64 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 19 - A - - - ML 126 125 6 128 3 1 1 41 60 -7.885 -0.022 -6.539 1.682 -2.211 -1.859 -1.738 D 127 125 6 128 3 0 0 40 59 -6.174 -1.687 -0.566 IL 128 128 3 128 3 1 1 43 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 20 - A - - - ML 129 128 3 131 3 1 1 40 59 -7.885 -0.022 -6.539 1.682 -2.211 -1.859 -1.738 D 130 128 3 131 3 0 0 39 58 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 42 62 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 21 - u - - - ML 132 131 3 134 3 1 1 39 58 -7.885 -0.305 -2.425 -0.358 -0.841 -0.057 0.766 D 133 131 3 134 3 0 0 38 57 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 41 61 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 36 ] 22 - U - - - ML 135 134 3 137 5 1 1 38 57 -6.786 -0.048 -6.602 -6.814 -7.705 -0.860 -0.975 -1.551 1.378 D 136 134 3 137 5 0 0 37 55 -5.858 -0.375 -5.119 -3.494 -3.407 IL 137 137 3 137 5 1 1 38 57 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 37 ] 23 45 A U - - MP 138 137 3 142 6 2 2 37 56 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.663 -2.728 -3.690 3.241 -3.965 -5.016 0.326 -3.740 -3.588 1.217 -4.129 -0.226 -0.092 -4.225 -1.615 -2.532 ML 139 137 3 142 6 1 1 35 54 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 140 137 3 142 6 1 1 35 54 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 141 137 3 142 6 0 0 33 52 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 142 142 5 142 6 1 1 37 55 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 143 143 6 143 5 1 1 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 38 ] 24 44 a u - - MP 144 143 6 148 6 2 2 35 54 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.014 -2.629 -3.070 2.096 -2.724 -3.905 1.505 -3.114 -3.089 1.439 -3.582 -0.481 1.783 -3.258 -0.456 -2.032 ML 145 143 6 148 6 1 1 33 52 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 146 143 6 148 6 1 1 33 52 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 147 143 6 148 6 0 0 31 50 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 148 148 5 148 6 1 1 35 53 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 149 149 6 149 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 39 ] 25 43 a u - - MP 150 149 6 154 6 2 2 33 52 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -2.760 -2.325 -2.875 2.377 -2.910 -3.840 1.018 -3.075 -2.878 1.486 -3.411 -0.168 0.703 -3.107 -0.788 0.792 ML 151 149 6 154 6 1 1 31 50 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 152 149 6 154 6 1 1 31 50 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 153 149 6 154 6 0 0 29 48 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 154 154 5 154 6 1 1 33 51 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 155 155 6 155 5 1 1 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 40 ] 26 42 U A - - MP 156 155 6 160 6 2 2 31 50 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.027 -3.846 -3.883 -0.153 -2.861 -4.462 1.464 -3.544 -3.889 0.126 -4.271 -1.750 3.244 -4.184 -0.541 -2.729 ML 157 155 6 160 6 1 1 29 48 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 158 155 6 160 6 1 1 29 48 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 159 155 6 160 6 0 0 27 46 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 160 160 5 160 6 1 1 31 49 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 161 161 6 161 5 1 1 30 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 27 41 A U - - MP 162 161 6 166 6 2 2 29 48 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.663 -2.728 -3.690 3.241 -3.965 -5.016 0.326 -3.740 -3.588 1.217 -4.129 -0.226 -0.092 -4.225 -1.615 -2.532 ML 163 161 6 166 6 1 1 27 46 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 164 161 6 166 6 1 1 27 46 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 165 161 6 166 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 166 166 5 166 6 1 1 29 47 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 167 167 6 167 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 42 ] 28 40 C G - - MP 168 167 6 172 6 2 2 27 46 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -4.391 -4.282 -4.107 -0.529 -2.861 -4.540 3.499 -3.655 -4.152 -0.265 -4.429 -2.228 0.669 -4.470 -0.564 -2.997 ML 169 167 6 172 6 1 1 25 44 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 170 167 6 172 6 1 1 25 44 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 171 167 6 172 6 0 0 23 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 172 172 5 172 6 1 1 27 45 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 173 173 6 173 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 43 ] 29 39 A U - - MP 174 173 6 178 6 2 2 25 44 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.663 -2.728 -3.690 3.241 -3.965 -5.016 0.326 -3.740 -3.588 1.217 -4.129 -0.226 -0.092 -4.225 -1.615 -2.532 ML 175 173 6 178 6 1 1 24 42 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 176 173 6 178 6 1 1 24 42 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 177 173 6 178 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 178 178 5 178 6 1 1 25 43 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 179 179 6 179 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 44 ] 30 38 c g - - MP 180 179 6 184 6 2 2 23 42 -9.075 -9.015 -0.022 -7.791 -8.071 -8.466 -3.652 -3.641 -3.493 0.005 -2.409 -4.011 2.524 -3.141 -3.528 0.235 -3.888 -1.726 1.150 -3.777 2.176 -2.421 ML 181 179 6 184 6 1 1 22 41 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 182 179 6 184 6 1 1 22 41 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 183 179 6 184 6 0 0 21 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 184 184 5 184 6 1 1 23 42 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 185 185 6 185 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 45 ] 31 37 G C - - MP 186 185 6 190 4 2 2 21 40 -6.862 -7.069 -0.056 -5.483 -4.590 -3.022 -4.676 0.300 -5.018 -4.633 -0.420 -4.907 -4.227 3.600 -4.575 -0.716 -0.810 -4.368 -2.450 -3.555 ML 187 185 6 190 4 1 1 22 41 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 188 185 6 190 4 1 1 21 40 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 189 185 6 190 4 0 0 20 39 -4.568 -4.250 -2.265 -0.520 IL 190 190 5 190 4 1 1 23 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 191 191 6 191 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 32 - U - - - ML 192 191 6 194 3 1 1 18 36 -7.885 -0.022 -6.539 -1.340 -1.362 -2.066 1.574 D 193 191 6 194 3 0 0 17 36 -6.174 -1.687 -0.566 IL 194 194 3 194 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 33 - G - - - ML 195 194 3 197 3 1 1 16 35 -7.885 -0.022 -6.539 -1.410 -2.603 1.681 -1.989 D 196 194 3 197 3 0 0 16 34 -6.174 -1.687 -0.566 IL 197 197 3 197 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 34 - U - - - ML 198 197 3 200 3 1 1 15 33 -7.885 -0.022 -6.539 -1.340 -1.362 -2.066 1.574 D 199 197 3 200 3 0 0 15 33 -6.174 -1.687 -0.566 IL 200 200 3 200 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 49 ] 35 - G - - - ML 201 200 3 203 3 1 1 13 32 -7.885 -0.022 -6.539 -1.410 -2.603 1.681 -1.989 D 202 200 3 203 3 0 0 13 32 -6.174 -1.687 -0.566 IL 203 203 3 203 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 50 ] 36 - A - - - ML 204 203 3 206 2 1 1 1 1 * 0.000 1.682 -2.211 -1.859 -1.738 D 205 203 3 206 2 0 0 0 0 * 0.000 IL 206 206 3 206 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 51 ] - - - - - - E 207 206 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME TLS-PK5 ACC RF01088 DESC Pseudoknot of tRNA-like structure LENG 68 MAXL 153 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Mar 5 14:03:55 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/software/bin/cmcalibrate --mpi CM NSEQ 3 EFFN 2.510742 CKSUM 1223899652 STATS LOCAL MSV -8.6800 0.71906 STATS LOCAL VITERBI -9.1237 0.71906 STATS LOCAL FORWARD -3.7759 0.71906 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.33134 1.70365 1.31545 1.25349 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 0.00000 * 1 2.63529 3.31935 0.15826 3.25714 1 G - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 2 3.06071 1.97122 2.82097 0.28195 2 U - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 3 3.27848 0.22117 3.06293 2.17170 3 C - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 4 2.63683 3.32125 0.15793 3.25976 4 G - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 5 2.53640 1.50163 2.31146 0.51255 5 U - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 6 2.57180 0.98359 2.32288 0.79486 6 u - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 7 1.17376 2.01200 1.41698 1.15636 7 u - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 8 2.78253 3.67143 0.13493 3.24665 8 G - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 9 2.78253 3.67143 0.13493 3.24665 9 G - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 10 0.14205 3.31964 3.03590 3.03183 10 A - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 11 2.68555 2.63671 3.20591 0.19882 11 U - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 12 2.78253 3.67143 0.13493 3.24665 12 G - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 13 1.09450 2.55338 0.75312 2.14916 13 g - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 14 0.14205 3.31964 3.03590 3.03183 14 A - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 15 0.14205 3.31964 3.03590 3.03183 15 A - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 16 3.28429 0.22059 3.06575 2.17273 16 C - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 17 1.40602 2.59691 0.51714 2.47508 17 G - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 18 3.28025 0.22099 3.06379 2.17201 18 C - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 19 0.14205 3.31964 3.03590 3.03183 19 A - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 20 0.14205 3.31964 3.03590 3.03183 20 A - - - 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 21 1.74395 2.08145 1.39860 0.79080 21 u - - - 1.38629 1.38629 1.38629 1.38629 0.28416 3.93706 1.47909 1.46634 0.26236 1.09861 0.40547 22 2.24826 2.27586 2.74723 0.31800 22 U - - - 1.38629 1.38629 1.38629 1.38629 0.05053 3.70344 3.70344 1.46634 0.26236 0.15804 1.92287 23 0.31231 2.86222 1.90082 2.78618 23 A - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 24 1.10168 1.72336 1.63155 1.22556 24 a - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 25 0.89246 2.17700 1.55674 1.32370 25 a - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 26 3.05071 1.97058 2.81641 0.28305 26 U - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 27 0.31113 2.86719 1.90181 2.79323 27 A - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 28 3.26747 0.22229 3.05755 2.16974 28 C - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 29 0.31101 2.86769 1.90191 2.79394 29 A - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 30 2.81150 0.94485 2.60400 0.73988 30 u - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 31 2.63261 3.31607 0.15883 3.25262 31 G - - < 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 32 2.68555 2.63671 3.20591 0.19882 32 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 33 2.78253 3.67143 0.13493 3.24665 33 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 34 2.68555 2.63671 3.20591 0.19882 34 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 35 2.78253 3.67143 0.13493 3.24665 35 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 36 0.14205 3.31964 3.03590 3.03183 36 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 37 3.44477 0.18855 3.15127 2.33168 37 C - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 38 2.00939 2.76204 0.31923 2.57630 38 G - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 39 3.01358 2.20459 2.67766 0.25895 39 U - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 40 2.44385 3.22172 0.19254 3.02775 40 G - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 41 3.00853 2.20392 2.67567 0.25954 41 U - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 42 0.32190 2.99594 1.80681 2.79580 42 A - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 43 2.28015 1.79267 1.98402 0.52138 43 U - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 44 1.35932 1.81501 1.55128 0.99872 44 u - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 45 2.94659 2.19547 2.65080 0.26712 45 U - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 46 2.44901 3.22895 0.19115 3.03633 46 G - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 47 2.70810 0.59107 2.40933 1.23882 47 C - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 48 2.44656 3.22552 0.19181 3.03225 48 G - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 49 0.89907 2.48947 0.88325 2.33656 49 g - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 50 0.89249 2.47744 0.89875 2.30930 50 a - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 51 3.46180 0.18713 3.15893 2.33492 51 C - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 52 2.45179 3.23285 0.19040 3.04096 52 G - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 53 0.31913 3.01023 1.80849 2.81283 53 A - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 54 3.47713 0.18587 3.16576 2.33780 54 C - - > 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 55 2.78253 3.67143 0.13493 3.24665 55 G - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 56 2.68555 2.63671 3.20591 0.19882 56 U - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 57 0.14205 3.31964 3.03590 3.03183 57 A - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 58 0.14205 3.31964 3.03590 3.03183 58 A - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 59 1.20022 2.04322 2.24725 0.76880 59 u - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 60 1.20022 2.04322 2.24725 0.76880 60 u - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 61 0.77775 2.10117 2.19934 1.17970 61 a - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 62 2.68555 2.63671 3.20591 0.19882 62 U - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 63 2.68555 2.63671 3.20591 0.19882 63 U - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 64 2.68555 2.63671 3.20591 0.19882 64 U - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 65 2.68555 2.63671 3.20591 0.19882 65 U - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 66 1.16444 1.37775 2.15176 1.14106 66 u - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 67 1.24596 0.83673 2.37070 1.68311 67 c - - : 1.38629 1.38629 1.38629 1.38629 0.03979 3.93706 3.93706 1.46634 0.26236 1.09861 0.40547 68 1.17807 2.01257 1.41083 1.15663 68 u - - : 1.38629 1.38629 1.38629 1.38629 0.02009 3.91736 * 1.46634 0.26236 0.00000 * //