INFERNAL1/a [1.1.4 | Dec 2020] NAME Corona_pk3 ACC RF00165 DESC Coronavirus 3' UTR pseudoknot STATES 187 NODES 54 CLEN 61 W 83 ALPH RNA RF no CONS yes MAP yes DATE Fri Apr 10 14:51:38 2020 COM [1] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmcalibrate --cpu 8 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 52 EFFN 32.020752 CKSUM 2063551214 NULL 0.000 0.000 0.000 0.000 GA 35.60 TC 35.60 NC 35.10 EFP7GF -12.8229 0.72290 ECMLC 0.58016 -9.62009 1.29447 1600000 674880 0.001778 ECMGC 0.36705 -18.80333 -3.51912 1600000 109273 0.003661 ECMLI 0.54986 -8.92456 2.18235 1600000 538932 0.002227 ECMGI 0.37860 -16.03321 -1.69789 1600000 91019 0.004395 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 83 108 -10.203 -10.410 -0.005 -8.824 IL 1 1 2 1 4 1 28 86 111 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 28 85 111 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - C - - - ML 3 2 3 5 3 3 29 83 108 -11.124 -0.002 -9.778 -0.591 1.249 -1.443 -0.757 D 4 2 3 5 3 0 23 81 107 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 27 84 110 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - U - - - ML 6 5 3 8 3 2 28 82 107 -11.124 -0.002 -9.778 -4.774 0.413 -5.672 1.385 D 7 5 3 8 3 0 22 80 106 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 26 83 109 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - A - - - ML 9 8 3 11 3 1 27 81 106 -11.124 -0.040 -5.199 1.698 -2.538 -0.897 -4.438 D 10 8 3 11 3 0 21 79 105 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 26 82 108 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - C - - - ML 12 11 3 14 3 2 27 80 105 -11.086 -0.002 -9.740 -5.402 1.581 -0.078 -4.740 D 13 11 3 14 3 0 21 78 104 -7.832 -3.345 -0.157 IL 14 14 3 14 3 1 25 81 107 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - U - - - ML 15 14 3 17 3 2 26 79 104 -11.086 -0.002 -9.740 -2.852 -3.894 -2.636 1.861 D 16 14 3 17 3 0 20 78 103 -7.832 -0.356 -2.223 IL 17 17 3 17 3 1 23 80 106 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - C - - - ML 18 17 3 20 3 1 25 78 103 -11.124 -0.002 -9.778 -1.605 1.855 -5.882 -4.794 D 19 17 3 20 3 0 18 76 102 -6.174 -1.687 -0.566 IL 20 20 3 20 3 1 22 79 105 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - U - - - ML 21 20 3 23 3 1 24 77 102 -11.124 -0.002 -9.778 -2.249 -3.828 -0.940 1.677 D 22 20 3 23 3 0 17 75 101 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 22 78 104 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - U - - - ML 24 23 3 26 3 1 23 76 101 -11.124 -0.002 -9.778 -2.541 -0.762 -4.732 1.678 D 25 23 3 26 3 0 17 74 100 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 21 77 103 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - G - - - ML 27 26 3 29 3 1 22 75 100 -11.124 -0.002 -9.778 0.201 -3.844 1.183 -0.971 D 28 26 3 29 3 0 16 73 99 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 20 76 102 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 10 ] 10 - u - - - ML 30 29 3 32 3 1 21 74 99 -11.124 -0.002 -9.778 -0.915 0.656 -4.053 0.874 D 31 29 3 32 3 0 16 72 98 -6.174 -1.687 -0.566 IL 32 32 3 32 3 1 20 75 101 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 11 ] 11 - A - - - ML 33 32 3 35 3 1 20 73 98 -11.124 -0.002 -9.778 1.473 -2.147 -1.173 -0.849 D 34 32 3 35 3 0 15 71 97 -6.174 -1.687 -0.566 IL 35 35 3 35 3 1 19 74 100 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 12 ] 12 - C - - - ML 36 35 3 38 3 1 19 72 97 -11.124 -0.002 -9.778 -5.436 1.867 -1.761 -4.909 D 37 35 3 38 3 0 15 70 96 -6.174 -1.687 -0.566 IL 38 38 3 38 3 1 18 73 99 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - A - - - ML 39 38 3 41 3 1 18 71 96 -11.124 -0.002 -9.778 1.828 -2.483 -4.520 -2.134 D 40 38 3 41 3 0 14 69 95 -6.174 -1.687 -0.566 IL 41 41 3 41 3 1 18 72 98 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - G - - - ML 42 41 3 44 3 1 17 70 95 -11.124 -0.002 -9.778 -2.179 -0.515 1.454 -1.556 D 43 41 3 44 3 0 13 68 94 -6.174 -1.687 -0.566 IL 44 44 3 44 3 1 17 71 97 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 15 - A - - - ML 45 44 3 47 3 1 16 69 94 -11.124 -0.002 -9.778 1.960 -6.052 -5.919 -3.670 D 46 44 3 47 3 0 13 67 93 -6.174 -1.687 -0.566 IL 47 47 3 47 3 1 16 70 96 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 16 - A - - - ML 48 47 3 50 3 1 15 68 93 -11.124 -0.002 -9.778 1.990 -7.233 -6.553 -6.715 D 49 47 3 50 3 0 12 66 92 -6.174 -1.687 -0.566 IL 50 50 3 50 3 1 15 69 95 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 17 - U - - - ML 51 50 3 53 3 1 14 67 92 -11.124 -0.129 -3.552 -2.617 -0.950 -2.578 1.656 D 52 50 3 53 3 0 12 65 91 -6.174 -1.687 -0.566 IL 53 53 3 53 3 1 14 69 94 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 18 - G - - - ML 54 53 3 56 3 1 13 66 92 -10.997 -0.085 -4.139 -1.874 -0.204 1.411 -2.325 D 55 53 3 56 3 0 11 64 90 -9.165 -4.678 -0.060 IL 56 56 3 56 3 1 14 68 93 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 19 - G - - - ML 57 56 3 59 3 1 12 65 91 -10.915 -0.003 -9.569 0.491 -5.148 1.339 -4.817 D 58 56 3 59 3 0 11 64 90 -9.777 -0.084 -4.169 IL 59 59 3 59 3 1 12 67 92 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 20 - u - - - ML 60 59 3 62 3 1 11 64 90 -11.124 -0.222 -2.812 0.279 -0.086 -2.367 0.723 D 61 59 3 62 3 0 8 63 88 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 12 66 91 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 21 - A - - - ML 63 62 3 65 3 1 12 63 89 -10.904 -0.003 -9.558 1.307 -1.529 -3.363 0.115 D 64 62 3 65 3 0 8 62 88 -9.838 -0.081 -4.229 IL 65 65 3 65 3 1 8 65 90 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 22 - a - - - ML 66 65 3 68 3 1 11 62 88 -11.124 -0.002 -9.778 0.830 -1.180 -0.246 -0.093 D 67 65 3 68 3 0 2 61 86 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 7 64 89 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 23 - u - - - ML 69 68 3 71 3 1 11 61 87 -11.124 -0.002 -9.778 -1.852 -0.255 0.396 0.650 D 70 68 3 71 3 0 2 59 85 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 7 63 88 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 24 - C - - - ML 72 71 3 74 3 1 10 60 86 -2.017 -0.412 -9.778 -5.855 1.929 -6.295 -2.632 D 73 71 3 74 3 0 1 58 83 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 9 60 85 -4.055 -0.104 -6.755 0.000 0.000 0.000 0.000 [ MATL 25 ] 26 - c - - - ML 75 74 3 77 3 1 9 59 84 -11.124 -0.002 -9.778 -0.137 0.675 -3.706 0.503 D 76 74 3 77 3 0 0 57 83 -6.174 -1.687 -0.566 IL 77 77 3 77 3 1 5 60 86 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 27 - a - - - ML 78 77 3 80 3 1 8 58 83 -11.124 -0.002 -9.778 0.157 0.053 0.102 -0.370 D 79 77 3 80 3 0 0 56 82 -6.174 -1.687 -0.566 IL 80 80 3 80 3 1 5 59 85 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 28 - G - - - ML 81 80 3 83 3 1 7 57 82 -11.428 -0.002 -9.746 -0.876 -1.154 1.135 -0.306 D 82 80 3 83 3 0 0 56 81 -5.620 -0.734 -1.403 IL 83 83 3 83 3 1 3 58 83 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 28 ] - 72 - A - - MR 84 83 3 86 3 1 7 56 81 -11.428 -0.002 -9.746 1.329 -1.388 -0.863 -0.846 D 85 83 3 86 3 0 0 54 80 -6.390 -1.568 -0.620 IR 86 86 3 86 3 1 2 57 82 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 29 ] - 71 - u - - MR 87 86 3 89 3 1 6 55 80 -11.428 -0.002 -9.746 -0.954 0.269 -1.089 0.855 D 88 86 3 89 3 0 0 53 79 -6.390 -1.568 -0.620 IR 89 89 3 89 3 1 2 56 81 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 30 ] - 70 - u - - MR 90 89 3 92 3 1 6 54 79 -11.428 -0.002 -9.746 -3.239 0.583 -1.273 0.987 D 91 89 3 92 3 0 0 52 78 -6.390 -1.568 -0.620 IR 92 92 3 92 3 1 1 55 80 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 31 ] - 69 - A - - MR 93 92 3 95 3 1 5 53 78 -11.428 -0.002 -9.746 1.190 -0.364 -1.643 -0.689 D 94 92 3 95 3 0 0 51 77 -6.390 -1.568 -0.620 IR 95 95 3 95 3 1 1 54 79 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 32 ] - 68 - U - - MR 96 95 3 98 5 1 4 52 77 -10.080 -0.005 -9.895 -10.107 -10.999 -0.495 -1.910 -0.943 1.324 D 97 95 3 98 5 0 0 51 76 -5.352 -0.707 -2.978 -4.409 -2.404 IR 98 98 3 98 5 1 1 52 78 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 33 ] 29 67 U A - - MP 99 98 3 103 6 2 4 51 76 -11.199 -11.138 -0.140 -6.273 -3.680 -10.589 -7.900 -7.846 -7.319 -4.082 -5.776 -7.569 0.290 -6.633 -7.372 -4.131 -7.547 -0.310 3.775 -7.867 -3.471 -6.192 ML 100 98 3 103 6 1 1 49 75 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 101 98 3 103 6 1 1 50 75 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 102 98 3 103 6 0 0 47 72 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 1 51 76 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 104 104 6 104 5 1 1 50 76 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 34 ] 30 66 a u - - MP 105 104 6 109 6 2 2 49 74 -1.747 -11.003 -0.815 -6.238 -10.060 -3.071 -5.280 -3.922 -5.107 2.750 -6.231 -5.728 -0.151 -5.775 -5.518 2.697 -5.779 -0.131 -1.574 -4.981 -1.587 -4.064 ML 106 104 6 109 6 1 1 47 72 -6.993 -7.339 -0.636 -1.748 -7.189 -4.719 -0.319 -0.577 -0.954 1.008 MR 107 104 6 109 6 1 1 48 73 -9.250 -0.330 -3.888 -7.958 -3.091 -6.171 -2.188 -2.065 -2.949 1.771 D 108 104 6 109 6 0 0 45 70 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 109 109 5 109 6 1 2 48 74 -6.204 -0.104 -4.384 -8.122 -8.898 -8.558 0.000 0.000 0.000 0.000 IR 110 110 6 110 5 1 2 47 73 -5.706 -0.043 -9.218 -7.385 -8.491 0.000 0.000 0.000 0.000 [ MATP 35 ] 32 64 u a - - MP 111 110 6 115 6 2 2 46 72 -4.364 -10.955 -0.098 -9.732 -10.012 -6.105 -5.353 -5.114 -5.364 1.202 -4.302 -6.189 2.033 -4.946 -5.248 -0.803 -5.758 -1.347 2.604 -5.549 1.175 -4.009 ML 112 110 6 115 6 1 1 45 70 -6.950 -7.296 -0.660 -1.705 -7.146 -4.676 1.138 -1.021 -0.767 -0.476 MR 113 110 6 115 6 1 1 44 70 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 114 110 6 115 6 0 0 44 69 -12.182 -10.880 -0.159 -7.359 -7.377 -3.452 IL 115 115 5 115 6 1 1 45 71 -4.050 -4.313 -0.231 -5.968 -6.745 -6.405 0.000 0.000 0.000 0.000 IR 116 116 6 116 5 1 1 45 71 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 34 63 a u - - MP 117 116 6 121 6 2 2 44 69 -11.181 -11.120 -0.005 -9.897 -10.177 -10.572 -6.413 -1.947 -6.323 2.793 -5.244 -7.075 1.313 -5.879 -6.220 -1.974 -6.667 -3.667 2.514 -6.654 -2.809 -5.026 ML 118 116 6 121 6 1 1 43 68 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 119 116 6 121 6 1 1 42 68 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 120 116 6 121 6 0 0 41 67 -9.957 -8.655 -0.963 -5.135 -5.152 -1.227 IL 121 121 5 121 6 1 1 44 69 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 122 122 6 122 5 1 1 43 69 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 37 ] 35 62 a u - - MP 123 122 6 127 6 2 2 42 67 -11.199 -11.138 -0.005 -9.914 -10.194 -10.589 -4.458 -4.392 -2.298 2.788 -4.091 -5.407 1.363 -1.964 -4.578 1.001 -5.114 -2.452 1.693 -4.715 -1.843 -3.550 ML 124 122 6 127 6 1 1 41 66 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 125 122 6 127 6 1 1 40 66 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 126 122 6 127 6 0 0 38 63 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 127 127 5 127 6 1 1 42 67 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 128 128 6 128 5 1 1 41 67 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 38 ] 36 61 U A - - MP 129 128 6 133 6 2 2 40 65 -11.199 -11.138 -0.054 -9.914 -10.194 -4.871 -7.287 -7.254 -6.905 1.247 -5.439 -7.278 0.766 -6.269 -6.912 -3.090 -7.185 -5.116 3.319 -7.288 0.761 -5.685 ML 130 128 6 133 6 1 1 39 64 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 131 128 6 133 6 1 1 38 64 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 132 128 6 133 6 0 0 36 62 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 133 133 5 133 6 1 1 40 65 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 134 134 6 134 5 1 1 39 65 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 39 ] 37 60 A U - - MP 135 134 6 139 6 2 2 38 64 -4.847 -11.089 -0.056 -9.865 -10.145 -10.540 -6.520 -5.232 -6.568 3.318 -7.730 -8.083 -1.129 -6.783 -6.431 0.745 -6.968 1.207 0.523 -7.075 -5.018 -5.306 ML 136 134 6 139 6 1 1 37 62 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 137 134 6 139 6 1 1 36 62 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 138 134 6 139 6 0 0 36 61 -10.822 -9.520 -0.449 -6.000 -6.017 -2.092 IL 139 139 5 139 6 1 1 37 63 -3.834 -4.097 -0.272 -5.753 -6.529 -6.189 0.000 0.000 0.000 0.000 IR 140 140 6 140 5 1 1 37 63 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 40 ] 39 59 a u - - MP 141 140 6 145 6 2 2 36 61 -11.199 -11.138 -0.005 -9.914 -10.194 -10.589 -5.452 -4.171 -5.303 2.875 -6.083 -5.957 0.468 -5.841 -5.649 2.289 -5.945 -1.066 0.627 -5.213 -3.281 -4.230 ML 142 140 6 145 6 1 1 35 60 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 143 140 6 145 6 1 1 34 60 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 144 140 6 145 6 0 0 32 58 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 145 145 5 145 6 1 1 36 61 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 146 146 6 146 5 1 1 35 61 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 40 58 c g - - MP 147 146 6 151 4 2 2 34 59 -10.203 -2.452 -0.321 -5.973 -5.113 -4.966 -5.175 0.053 -1.376 -6.019 2.828 -4.898 -5.094 0.817 -5.623 -2.752 1.115 -5.346 0.979 0.280 ML 148 146 6 151 4 1 1 33 58 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 149 146 6 151 4 1 1 32 58 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 150 146 6 151 4 0 0 31 57 -4.568 -4.250 -2.265 -0.520 IL 151 151 5 151 4 1 1 35 60 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 152 152 6 152 3 1 1 34 60 -1.051 -0.970 -7.223 0.000 0.000 0.000 0.000 [ MATL 42 ] 41 - A - - - ML 153 152 6 155 3 1 1 27 47 -2.887 -0.211 -9.758 1.850 -5.596 -1.503 -5.465 D 154 152 6 155 3 0 0 23 43 -7.261 -0.566 -1.653 IL 155 155 3 155 3 1 1 28 48 -1.335 -0.753 -6.631 0.000 0.000 0.000 0.000 [ MATL 43 ] 44 - G - - - ML 156 155 3 158 3 1 1 21 40 -11.124 -0.002 -9.778 -4.940 -1.721 1.865 -5.526 D 157 155 3 158 3 0 0 22 40 -6.174 -1.687 -0.566 IL 158 158 3 158 3 1 1 26 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 45 - U - - - ML 159 158 3 161 3 1 1 20 38 -11.124 -0.002 -9.778 -0.893 -1.132 -2.298 1.486 D 160 158 3 161 3 0 0 21 39 -6.174 -1.687 -0.566 IL 161 161 3 161 3 1 1 25 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 46 - a - - - ML 162 161 3 164 3 1 1 19 37 -11.124 -0.002 -9.778 0.892 -3.757 0.626 -0.923 D 163 161 3 164 3 0 0 20 38 -6.174 -1.687 -0.566 IL 164 164 3 164 3 1 1 24 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 47 - C - - - ML 165 164 3 167 3 1 1 18 36 -11.124 -0.002 -9.778 -0.928 1.154 -4.236 0.258 D 166 164 3 167 3 0 0 19 37 -6.174 -1.687 -0.566 IL 167 167 3 167 3 1 1 23 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 48 - A - - - ML 168 167 3 170 3 1 1 17 35 -11.124 -0.002 -9.778 1.670 -4.615 -0.691 -2.660 D 169 167 3 170 3 0 0 18 36 -6.174 -1.687 -0.566 IL 170 170 3 170 3 1 1 22 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 49 - A - - - ML 171 170 3 173 3 1 1 15 34 -5.146 -0.043 -9.778 1.668 -0.842 -4.369 -2.209 D 172 170 3 173 3 0 0 15 34 -6.174 -1.687 -0.566 IL 173 173 3 173 3 1 1 16 34 -2.099 -0.453 -4.799 0.000 0.000 0.000 0.000 [ MATL 49 ] 51 - G - - - ML 174 173 3 176 3 1 1 14 32 -11.124 -0.002 -9.778 -1.358 -4.686 1.777 -2.786 D 175 173 3 176 3 0 0 16 34 -6.174 -1.687 -0.566 IL 176 176 3 176 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 50 ] 52 - a - - - ML 177 176 3 179 3 1 1 13 31 -11.124 -0.002 -9.778 0.992 -1.028 -3.207 0.498 D 178 176 3 179 3 0 0 15 33 -6.174 -1.687 -0.566 IL 179 179 3 179 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 51 ] 53 - A - - - ML 180 179 3 182 3 1 1 11 29 -11.124 -0.002 -9.778 1.990 -7.233 -6.553 -6.715 D 181 179 3 182 3 0 0 13 32 -6.174 -1.687 -0.566 IL 182 182 3 182 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 52 ] 54 - G - - - ML 183 182 3 185 2 1 1 1 1 * 0.000 0.292 -5.376 1.444 -5.014 D 184 182 3 185 2 0 0 0 0 * 0.000 IL 185 185 3 185 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 53 ] - - - - - - E 186 185 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME Corona_pk3 ACC RF00165 DESC Coronavirus 3' UTR pseudoknot LENG 61 MAXL 119 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Fri Apr 10 14:51:38 2020 COM [1] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmbuild -F CM SEED NSEQ 52 EFFN 45.363525 CKSUM 2063551214 STATS LOCAL MSV -7.9186 0.72290 STATS LOCAL VITERBI -8.7482 0.72290 STATS LOCAL FORWARD -3.3394 0.72290 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.11555 1.63675 1.63686 1.26208 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 0.00000 * 1 1.81419 0.49792 2.40471 1.97369 1 C - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 2 5.19293 1.08906 5.81457 0.42323 2 U - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 3 0.20311 3.18455 2.00673 4.83031 3 A - - : 1.38629 1.38629 1.38629 1.38629 0.03063 6.29527 3.56403 1.46634 0.26236 1.09861 0.40547 4 5.62704 0.29743 1.39454 5.16167 4 C - - : 1.38629 1.38629 1.38629 1.38629 0.00380 6.26843 6.26843 1.46634 0.26236 2.85370 0.05936 5 3.44878 4.38138 3.22867 0.08763 5 U - - : 1.38629 1.38629 1.38629 1.38629 0.00380 6.26843 6.26843 1.46634 0.26236 0.12246 2.16055 6 2.46412 0.09889 5.80114 5.10782 6 C - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 7 3.00645 4.36345 2.00952 0.21847 7 U - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 8 3.21421 1.90493 4.98241 0.21800 8 U - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 9 1.23757 4.41848 0.55837 2.07369 9 G - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 10 2.04251 0.92480 4.58090 0.76907 10 u - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 11 0.35005 2.96912 2.21419 2.00426 11 A - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 12 5.47400 0.09168 2.55802 5.12481 12 C - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 13 0.11188 3.15448 4.83212 2.89641 13 A - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 14 3.03895 1.71810 0.36998 2.50154 14 G - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 15 0.02525 5.98901 5.87228 3.93187 15 A - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 16 0.00485 6.74681 6.25256 6.35214 16 A - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 17 3.30285 2.04229 3.20570 0.23198 17 U - - : 1.38629 1.38629 1.38629 1.38629 0.09330 6.29527 2.43916 1.46634 0.26236 1.09861 0.40547 18 2.79310 1.49307 0.40104 3.11310 18 G - - : 1.38629 1.38629 1.38629 1.38629 0.06237 6.20601 2.83960 1.46634 0.26236 3.89754 0.02050 19 1.04303 5.38338 0.45046 5.16920 19 G - - : 1.38629 1.38629 1.38629 1.38629 0.00429 6.14792 6.14792 1.46634 0.26236 0.02623 3.65397 20 1.18798 1.44268 3.19889 0.87212 20 u - - : 1.38629 1.38629 1.38629 1.38629 0.15915 6.29527 1.92902 1.46634 0.26236 1.09861 0.40547 21 0.46248 2.50806 4.11740 1.29986 21 A - - : 1.38629 1.38629 1.38629 1.38629 0.00432 6.14043 6.14043 1.46634 0.26236 0.02508 3.69818 22 0.79271 2.25158 1.54972 1.47037 22 a - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 23 2.88385 1.56063 1.08650 0.92462 23 u - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 24 5.79552 0.04610 6.08151 3.22583 24 C - - : 1.38629 1.38629 1.38629 1.38629 0.29318 1.37725 6.29527 0.01456 4.23650 1.09861 0.40547 25 1.48099 0.90711 4.35838 1.03255 26 c - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 26 1.28291 1.33206 1.29739 1.68418 27 a - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 27 2.04463 2.20463 0.58118 1.60425 28 G - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 28 5.67469 2.62370 2.92124 0.13907 29 U - - < 1.38629 1.38629 1.38629 1.38629 0.09939 6.29527 2.37763 1.46634 0.26236 1.09861 0.40547 29 0.81257 2.86935 0.79628 3.02531 30 g - - < 1.38629 1.38629 1.38629 1.38629 0.68284 1.04081 1.95438 0.01145 4.47513 0.03901 3.26349 30 1.84548 1.37786 2.93295 0.62233 32 U - - < 1.38629 1.38629 1.38629 1.38629 0.08100 2.82530 3.98941 0.06982 2.69655 0.02825 3.58066 31 0.75988 1.90998 4.31993 0.99184 34 a - - < 1.38629 1.38629 1.38629 1.38629 0.00375 6.28085 6.28085 1.46634 0.26236 0.20565 1.68263 32 0.74348 1.75496 2.03069 1.51238 35 a - - < 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 33 1.88760 2.30520 5.09468 0.29747 36 U - - < 1.38629 1.38629 1.38629 1.38629 0.04414 6.29527 3.18608 1.46634 0.26236 1.09861 0.40547 34 0.44790 3.61527 1.42147 2.37769 37 A - - < 1.38629 1.38629 1.38629 1.38629 0.04554 3.15604 6.25498 0.08787 2.47546 0.08551 2.50155 35 0.72273 2.45014 1.13052 2.24976 39 a - - < 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 36 2.74896 0.72928 2.14907 1.08721 40 c - - < 1.38629 1.38629 1.38629 1.38629 0.01766 6.29527 4.15656 1.46634 0.26236 1.09861 0.40547 37 0.10005 5.66566 2.43124 5.56942 41 A - - _ 1.38629 1.38629 1.38629 1.38629 0.15148 1.97546 6.28135 0.52796 0.89112 0.21157 1.65713 38 5.30648 2.54364 0.09080 5.72463 44 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 39 2.02762 2.19345 3.05439 0.34296 45 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 40 0.75507 4.43952 0.94022 2.05822 46 a - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 41 2.04568 0.57471 4.67577 1.20891 47 C - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 42 0.22289 4.95071 1.86181 3.28797 48 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 43 0.22406 1.95770 4.74587 2.97870 49 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03244 3.50421 6.29527 0.11849 2.19155 1.09861 0.40547 44 2.34223 4.96890 0.14724 3.38597 51 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 45 0.67982 2.13346 3.99616 1.03148 52 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 46 0.00485 6.74681 6.25256 6.35214 53 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 47 1.18080 5.55320 0.37957 5.31171 54 G - - _ 1.38629 1.38629 1.38629 1.38629 0.20702 1.68660 6.29527 0.69621 0.69010 1.09861 0.40547 48 1.85674 2.20094 0.53705 1.90617 58 G - - > 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 49 2.30280 1.20601 2.39993 0.67352 59 U - - > 1.38629 1.38629 1.38629 1.38629 0.04414 6.29527 3.18608 1.46634 0.26236 1.09861 0.40547 50 2.38788 2.33840 3.56830 0.24400 60 U - - > 1.38629 1.38629 1.38629 1.38629 0.00385 6.25498 6.25498 1.46634 0.26236 0.08551 2.50155 51 0.45092 5.22972 1.58503 1.87951 61 A - - > 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 52 1.56419 2.08051 1.71798 0.72062 62 u - - > 1.38629 1.38629 1.38629 1.38629 0.01817 6.29527 4.12514 1.46634 0.26236 1.09861 0.40547 53 1.00375 3.61841 1.88104 0.78913 63 u - - > 1.38629 1.38629 1.38629 1.38629 0.15747 6.28085 1.93915 1.46634 0.26236 0.20565 1.68263 54 0.92385 3.47390 0.92172 1.74765 64 g - - > 1.38629 1.38629 1.38629 1.38629 0.68805 0.73605 3.99335 0.00893 4.72248 0.02570 3.67425 55 3.90755 0.98309 2.64408 0.62608 66 U - - > 1.38629 1.38629 1.38629 1.38629 0.00375 6.28115 6.28115 1.46634 0.26236 0.20920 1.66724 56 0.14293 5.76804 2.58269 2.90969 67 A - - > 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 57 1.75490 2.81373 2.04945 0.44896 68 U - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 58 0.54220 1.63275 2.58976 1.90984 69 A - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 59 4.02172 0.97379 2.26398 0.69217 70 U - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 60 2.11629 1.18703 2.16215 0.77801 71 u - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 61 0.44644 2.39134 1.99384 2.02179 72 A - - : 1.38629 1.38629 1.38629 1.38629 0.00185 6.29342 * 1.46634 0.26236 0.00000 * //