INFERNAL1/a [1.1.5 | Sep 2023] NAME Corona_pk3 ACC RF00165 DESC Coronavirus 3' UTR pseudoknot STATES 187 NODES 54 CLEN 61 W 80 ALPH RNA RF no CONS yes MAP yes DATE Wed Jul 10 04:26:39 2024 COM [1] /hps/software/users/agb/rfam/bin/cmbuild -F CM SEED COM [2] /hps/software/users/agb/rfam/bin/cmcalibrate --cpu 8 /nfs/production/agb/rfam/15/rescan/families/RF00165/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 31.830322 CKSUM 2063551214 NULL 0.000 0.000 0.000 0.000 GA 35.60 TC 35.70 NC 35.50 EFP7GF -13.3068 0.72289 ECMLC 0.59892 -9.34391 1.26850 1600000 691090 0.001736 ECMGC 0.37215 -18.88529 -3.81533 1600000 109064 0.003668 ECMLI 0.56924 -8.62009 2.15314 1600000 552714 0.002171 ECMGI 0.37093 -16.66810 -2.05955 1600000 90242 0.004433 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 80 101 -10.195 -10.402 -0.006 -8.816 IL 1 1 2 1 4 2 29 83 105 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 28 83 104 -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 80 101 -11.116 -0.002 -9.770 -0.850 1.315 -1.359 -0.818 D 4 2 3 5 3 0 23 78 100 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 27 82 103 -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 79 100 -11.116 -0.002 -9.770 -4.772 0.280 -5.638 1.449 D 7 5 3 8 3 0 22 77 99 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 27 81 102 -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 78 99 -11.116 -0.043 -5.112 1.687 -2.379 -0.888 -4.392 D 10 8 3 11 3 0 22 76 98 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 26 80 101 -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 77 98 -11.075 -0.002 -9.729 -5.377 1.555 -0.002 -4.715 D 13 11 3 14 3 0 21 75 97 -7.888 -3.401 -0.150 IL 14 14 3 14 3 1 26 79 100 -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 76 97 -11.075 -0.002 -9.729 -2.740 -3.880 -2.479 1.849 D 16 14 3 17 3 0 21 75 96 -7.888 -0.340 -2.280 IL 17 17 3 17 3 1 23 78 99 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - C - - - ML 18 17 3 20 3 2 25 75 96 -11.116 -0.002 -9.770 -2.291 1.905 -5.876 -4.895 D 19 17 3 20 3 0 18 73 95 -6.174 -1.687 -0.566 IL 20 20 3 20 3 1 23 77 98 -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 74 95 -11.116 -0.002 -9.770 -2.138 -3.857 -1.520 1.746 D 22 20 3 23 3 0 18 72 94 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 22 76 97 -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 73 94 -11.116 -0.002 -9.770 -2.406 -0.616 -4.694 1.642 D 25 23 3 26 3 0 17 71 93 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 21 75 96 -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 72 93 -11.116 -0.002 -9.770 0.270 -3.744 1.105 -0.815 D 28 26 3 29 3 0 17 70 92 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 20 74 95 -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 71 92 -11.116 -0.002 -9.770 -0.772 0.678 -3.985 0.809 D 31 29 3 32 3 0 16 69 91 -6.174 -1.687 -0.566 IL 32 32 3 32 3 1 20 73 94 -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 70 91 -11.116 -0.002 -9.770 1.419 -1.981 -1.152 -0.685 D 34 32 3 35 3 0 16 68 90 -6.174 -1.687 -0.566 IL 35 35 3 35 3 1 19 72 93 -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 69 90 -11.116 -0.002 -9.770 -5.428 1.878 -1.907 -4.906 D 37 35 3 38 3 0 15 67 89 -6.174 -1.687 -0.566 IL 38 38 3 38 3 1 18 71 92 -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 68 89 -11.116 -0.002 -9.770 1.811 -2.328 -4.479 -2.017 D 40 38 3 41 3 0 14 66 88 -6.174 -1.687 -0.566 IL 41 41 3 41 3 1 18 70 91 -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 67 88 -11.116 -0.002 -9.770 -2.122 -0.506 1.426 -1.400 D 43 41 3 44 3 0 14 65 87 -6.174 -1.687 -0.566 IL 44 44 3 44 3 1 17 69 90 -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 66 87 -11.116 -0.002 -9.770 1.958 -6.010 -5.890 -3.609 D 46 44 3 47 3 0 13 64 86 -6.174 -1.687 -0.566 IL 47 47 3 47 3 1 16 68 89 -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 65 86 -11.116 -0.002 -9.770 1.990 -7.224 -6.545 -6.707 D 49 47 3 50 3 0 12 63 85 -6.174 -1.687 -0.566 IL 50 50 3 50 3 1 15 67 88 -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 64 85 -11.116 -0.116 -3.703 -2.539 -0.934 -2.416 1.640 D 52 50 3 53 3 0 12 62 84 -6.174 -1.687 -0.566 IL 53 53 3 53 3 1 15 66 87 -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 14 63 84 -11.002 -0.097 -3.960 -1.784 -0.337 1.440 -2.294 D 55 53 3 56 3 0 11 61 83 -9.025 -4.538 -0.066 IL 56 56 3 56 3 1 14 65 86 -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 13 62 83 -10.908 -0.003 -9.562 0.437 -5.124 1.368 -4.781 D 58 56 3 59 3 0 11 61 82 -9.759 -0.085 -4.150 IL 59 59 3 59 3 1 13 64 85 -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 12 61 82 -11.116 -0.243 -2.693 0.414 -0.035 -2.273 0.570 D 61 59 3 62 3 0 9 60 81 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 13 63 84 -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 60 82 -10.875 -0.003 -9.529 1.316 -1.371 -3.326 0.035 D 64 62 3 65 3 0 8 59 81 -9.941 -0.075 -4.333 IL 65 65 3 65 3 1 9 62 83 -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 12 59 81 -11.116 -0.002 -9.770 0.771 -1.268 -0.247 0.051 D 67 65 3 68 3 0 3 58 79 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 8 61 82 -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 58 80 -11.116 -0.002 -9.770 -1.794 -0.541 0.362 0.798 D 70 68 3 71 3 0 2 56 78 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 7 60 81 -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 57 79 -1.877 -0.461 -9.770 -5.819 1.921 -6.275 -2.461 D 73 71 3 74 3 0 1 55 76 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 9 57 78 -4.166 -0.096 -6.866 0.000 0.000 0.000 0.000 [ MATL 25 ] 26 - c - - - ML 75 74 3 77 3 1 9 56 77 -11.116 -0.002 -9.770 -0.449 0.777 -3.883 0.572 D 76 74 3 77 3 0 1 54 76 -6.174 -1.687 -0.566 IL 77 77 3 77 3 1 6 57 79 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 27 - g - - - ML 78 77 3 80 3 1 9 55 76 -11.116 -0.002 -9.770 0.143 -0.157 0.231 -0.278 D 79 77 3 80 3 0 0 53 75 -6.174 -1.687 -0.566 IL 80 80 3 80 3 1 5 56 78 -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 8 54 75 -11.420 -0.002 -9.737 -0.722 -1.003 1.049 -0.275 D 82 80 3 83 3 0 0 52 74 -5.620 -0.734 -1.403 IL 83 83 3 83 3 1 3 54 76 -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 53 74 -11.420 -0.002 -9.737 1.262 -1.235 -0.862 -0.673 D 85 83 3 86 3 0 0 51 72 -6.390 -1.568 -0.620 IR 86 86 3 86 3 1 3 53 75 -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 7 52 73 -11.420 -0.002 -9.737 -1.467 0.438 -1.223 0.892 D 88 86 3 89 3 0 0 50 71 -6.390 -1.568 -0.620 IR 89 89 3 89 3 1 2 52 74 -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 51 72 -11.420 -0.002 -9.737 -3.318 0.739 -1.785 0.957 D 91 89 3 92 3 0 0 49 70 -6.390 -1.568 -0.620 IR 92 92 3 92 3 1 1 51 73 -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 50 71 -11.420 -0.002 -9.737 1.162 -0.349 -1.753 -0.555 D 94 92 3 95 3 0 0 48 70 -6.390 -1.568 -0.620 IR 95 95 3 95 3 1 1 50 72 -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 49 70 -10.072 -0.005 -9.887 -10.099 -10.991 -0.349 -1.755 -0.780 1.224 D 97 95 3 98 5 0 0 47 69 -5.352 -0.707 -2.978 -4.409 -2.404 IR 98 98 3 98 5 1 1 49 70 -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 48 69 -11.192 -11.131 -0.093 -6.207 -4.402 -10.582 -7.902 -7.892 -7.310 -4.121 -5.751 -7.545 0.433 -6.617 -7.369 -4.155 -7.538 -0.768 3.784 -7.850 -3.446 -6.186 ML 100 98 3 103 6 1 1 46 68 -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 46 68 -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 44 65 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 1 47 69 -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 47 69 -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 46 67 -1.870 -11.043 -0.783 -6.231 -10.100 -2.936 -5.326 -3.970 -5.155 2.805 -6.275 -5.779 -0.082 -5.819 -5.563 2.626 -5.826 -0.113 -1.620 -5.032 -1.526 -4.110 ML 106 104 6 109 6 1 1 44 65 -7.019 -7.365 -0.622 -1.774 -7.215 -4.745 -0.339 -0.591 -0.976 1.027 MR 107 104 6 109 6 1 1 45 66 -8.699 -0.514 -3.337 -7.406 -2.540 -5.620 -1.406 -1.417 -2.136 1.595 D 108 104 6 109 6 0 0 41 63 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 109 109 5 109 6 1 2 45 66 -6.127 -0.110 -4.308 -8.045 -8.822 -8.482 0.000 0.000 0.000 0.000 IR 110 110 6 110 5 1 2 44 65 -5.523 -0.049 -9.035 -7.202 -8.308 0.000 0.000 0.000 0.000 [ MATP 35 ] 32 64 u a - - MP 111 110 6 115 6 2 2 43 64 -4.801 -10.924 -0.082 -9.700 -9.980 -5.894 -5.279 -5.056 -5.295 1.352 -4.261 -6.120 1.841 -4.899 -5.186 -0.777 -5.698 -1.195 2.625 -5.480 1.240 -3.960 ML 112 110 6 115 6 1 1 42 63 -6.970 -7.317 -0.649 -1.725 -7.166 -4.696 1.151 -1.038 -0.784 -0.493 MR 113 110 6 115 6 1 1 41 63 -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 41 62 -12.339 -11.037 -0.142 -7.516 -7.534 -3.609 IL 115 115 5 115 6 1 1 42 63 -3.765 -4.028 -0.286 -5.683 -6.459 -6.120 0.000 0.000 0.000 0.000 IR 116 116 6 116 5 1 1 42 64 -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 41 62 -11.171 -11.111 -0.005 -9.887 -10.167 -10.562 -6.397 -1.801 -6.310 2.848 -5.241 -7.066 1.333 -5.872 -6.207 -1.967 -6.655 -3.650 2.427 -6.642 -2.809 -5.016 ML 118 116 6 121 6 1 1 39 61 -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 39 61 -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 38 60 -10.048 -8.746 -0.882 -5.226 -5.243 -1.318 IL 121 121 5 121 6 1 1 40 62 -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 40 62 -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 39 60 -11.192 -11.131 -0.005 -9.907 -10.187 -10.582 -4.358 -4.305 -2.238 2.698 -4.037 -5.313 1.314 -1.797 -4.491 1.105 -5.029 -2.398 1.812 -4.619 -1.815 -3.478 ML 124 122 6 127 6 1 1 37 59 -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 37 59 -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 35 56 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 127 127 5 127 6 1 1 38 60 -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 38 60 -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 37 58 -11.192 -11.131 -0.061 -9.907 -10.187 -4.687 -7.146 -7.082 -6.808 1.385 -5.374 -7.220 0.901 -6.189 -6.801 -2.888 -7.098 -4.904 3.230 -7.169 0.894 -5.570 ML 130 128 6 133 6 1 1 35 57 -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 35 57 -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 33 55 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 133 133 5 133 6 1 1 37 58 -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 36 58 -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 35 56 -5.272 -11.075 -0.042 -9.851 -10.131 -10.526 -6.490 -5.221 -6.539 3.313 -7.586 -8.039 -0.946 -6.735 -6.400 0.669 -6.937 1.184 0.614 -7.042 -4.901 -5.276 ML 136 134 6 139 6 1 1 33 55 -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 33 55 -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 33 54 -10.952 -9.651 -0.404 -6.130 -6.147 -2.223 IL 139 139 5 139 6 1 1 34 56 -3.592 -3.855 -0.327 -5.511 -6.287 -5.947 0.000 0.000 0.000 0.000 IR 140 140 6 140 5 1 1 34 56 -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 33 54 -11.192 -11.131 -0.005 -9.907 -10.187 -10.582 -5.479 -4.230 -5.342 2.938 -6.008 -6.015 0.583 -5.828 -5.658 2.158 -5.970 -1.034 0.604 -5.270 -3.241 -4.255 ML 142 140 6 145 6 1 1 32 53 -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 31 53 -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 29 51 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 145 145 5 145 6 1 1 32 54 -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 32 54 -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 31 52 -10.195 -2.803 -0.253 -5.903 -5.167 -5.003 -5.222 0.117 -1.299 -6.066 2.879 -4.920 -5.133 0.646 -5.660 -2.761 1.204 -5.394 1.121 -0.403 ML 148 146 6 151 4 1 1 30 52 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 149 146 6 151 4 1 1 30 51 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 150 146 6 151 4 0 0 29 50 -4.568 -4.250 -2.265 -0.520 IL 151 151 5 151 4 1 1 32 53 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 152 152 6 152 3 1 1 31 52 -1.244 -0.815 -6.761 0.000 0.000 0.000 0.000 [ MATL 42 ] 41 - A - - - ML 153 152 6 155 3 1 1 26 44 -3.430 -0.142 -9.749 1.859 -5.610 -1.601 -5.474 D 154 152 6 155 3 0 0 22 41 -7.299 -0.548 -1.691 IL 155 155 3 155 3 1 1 27 46 -1.430 -0.702 -6.138 0.000 0.000 0.000 0.000 [ MATL 43 ] 44 - G - - - ML 156 155 3 158 3 1 1 21 40 -11.116 -0.002 -9.770 -4.976 -1.872 1.877 -5.571 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 -11.116 -0.002 -9.770 -0.720 -1.110 -2.097 1.431 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 -11.116 -0.002 -9.770 0.821 -3.629 0.646 -0.769 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 -11.116 -0.002 -9.770 -0.786 1.083 -4.159 0.316 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 -11.116 -0.002 -9.770 1.633 -4.591 -0.551 -2.514 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 16 34 -5.840 -0.027 -9.770 1.739 -1.397 -4.397 -2.095 D 172 170 3 173 3 0 0 15 34 -6.174 -1.687 -0.566 IL 173 173 3 173 3 1 1 17 35 -1.876 -0.545 -4.576 0.000 0.000 0.000 0.000 [ MATL 49 ] 51 - G - - - ML 174 173 3 176 3 1 1 14 32 -11.116 -0.002 -9.770 -2.002 -5.019 1.840 -2.848 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 -11.116 -0.002 -9.770 1.064 -1.071 -3.251 0.409 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 -11.116 -0.002 -9.770 1.990 -7.224 -6.545 -6.707 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 0.029 -5.378 1.548 -4.970 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 [3.4 | Aug 2023] NAME Corona_pk3 ACC RF00165 DESC Coronavirus 3' UTR pseudoknot LENG 61 MAXL 118 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Jul 10 04:26:39 2024 COM [1] /hps/software/users/agb/rfam/bin/cmbuild -F CM SEED COM [2] /hps/software/users/agb/rfam/bin/cmcalibrate --cpu 8 /nfs/production/agb/rfam/15/rescan/families/RF00165/CM NSEQ 52 EFFN 45.331787 CKSUM 2063551214 STATS LOCAL MSV -8.1310 0.72289 STATS LOCAL VITERBI -8.7905 0.72289 STATS LOCAL FORWARD -3.3824 0.72289 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.12012 1.63683 1.63508 1.25798 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 0.00000 * 1 2.00403 0.45282 2.33651 2.01959 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 5.18558 1.17997 5.78462 0.37974 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 0.21068 3.06779 2.00050 4.80709 3 A - - : 1.38629 1.38629 1.38629 1.38629 0.03241 6.29527 3.50504 1.46634 0.26236 1.09861 0.40547 4 5.64079 0.31504 1.34327 5.16798 4 C - - : 1.38629 1.38629 1.38629 1.38629 0.00380 6.26666 6.26666 1.46634 0.26236 2.90606 0.05624 5 3.36260 4.37705 3.11269 0.09617 5 U - - : 1.38629 1.38629 1.38629 1.38629 0.00380 6.26666 6.26666 1.46634 0.26236 0.11584 2.21292 6 2.94886 0.06330 5.77846 5.14196 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 2.91023 4.37754 2.42102 0.16943 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 3.11590 1.80297 4.96707 0.24349 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 1.18949 4.36854 0.61112 1.96462 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 1.93950 0.90919 4.54366 0.81477 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 0.38506 2.84843 2.20378 1.88868 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 5.47022 0.08347 2.66038 5.12401 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 0.12324 3.04079 4.81004 2.81332 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 2.99985 1.71230 0.38875 2.38761 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 0.02624 5.96650 5.85909 3.88829 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 0.00486 6.74613 6.25193 6.35152 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 3.24982 2.03257 3.08844 0.24252 17 U - - : 1.38629 1.38629 1.38629 1.38629 0.08391 6.29527 2.54288 1.46634 0.26236 1.09861 0.40547 18 2.71989 1.58682 0.37998 3.08645 18 G - - : 1.38629 1.38629 1.38629 1.38629 0.07051 6.21536 2.71684 1.46634 0.26236 3.79825 0.02266 19 1.08004 5.37367 0.43080 5.15080 19 G - - : 1.38629 1.38629 1.38629 1.38629 0.00428 6.14913 6.14913 1.46634 0.26236 0.02643 3.64662 20 1.09060 1.40476 3.12509 0.98183 20 u - - : 1.38629 1.38629 1.38629 1.38629 0.17390 6.29527 1.84658 1.46634 0.26236 1.09861 0.40547 21 0.45526 2.38710 4.09444 1.35807 21 A - - : 1.38629 1.38629 1.38629 1.38629 0.00438 6.12574 6.12574 1.46634 0.26236 0.02312 3.77866 22 0.83470 2.32254 1.55027 1.36343 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 2.83229 1.76964 1.10993 0.81838 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 5.78316 0.05161 6.07780 3.10269 24 C - - : 1.38629 1.38629 1.38629 1.38629 0.32815 1.28049 6.29527 0.01323 4.33220 1.09861 0.40547 25 1.70490 0.83798 4.47814 0.98277 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 1.29366 1.48474 1.20425 1.61316 27 g - - : 1.38629 1.38629 1.38629 1.38629 0.00370 6.29527 6.29527 1.46634 0.26236 1.09861 0.40547 27 1.93268 2.09640 0.63888 1.58738 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 5.69912 2.52034 3.22041 0.13207 29 U - - < 1.38629 1.38629 1.38629 1.38629 0.06025 6.29527 2.87129 1.46634 0.26236 1.09861 0.40547 29 0.77481 2.82053 0.84212 3.01925 30 a - - < 1.38629 1.38629 1.38629 1.38629 0.64856 1.13123 1.86713 0.01206 4.42418 0.06313 2.79396 30 1.73978 1.52412 2.87600 0.59735 32 U - - < 1.38629 1.38629 1.38629 1.38629 0.06797 3.11503 3.84751 0.09449 2.40617 0.02494 3.70360 31 0.71842 1.89516 4.32209 1.05294 34 a - - < 1.38629 1.38629 1.38629 1.38629 0.00376 6.27872 6.27872 1.46634 0.26236 0.18410 1.78292 32 0.80154 1.77513 1.95382 1.42641 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 1.78983 2.20956 4.99640 0.33338 36 U - - < 1.38629 1.38629 1.38629 1.38629 0.04994 6.29527 3.06038 1.46634 0.26236 1.09861 0.40547 34 0.45034 3.49018 1.45504 2.31564 37 A - - < 1.38629 1.38629 1.38629 1.38629 0.03467 3.43744 6.24920 0.11615 2.21042 0.07578 2.61753 35 0.67828 2.37261 1.21706 2.27131 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 2.70115 0.69219 2.27089 1.11117 40 C - - < 1.38629 1.38629 1.38629 1.38629 0.01845 6.29527 4.10802 1.46634 0.26236 1.09861 0.40547 37 0.09356 5.68176 2.49931 5.58074 41 A - - _ 1.38629 1.38629 1.38629 1.38629 0.10265 2.34673 6.28056 0.48554 0.95547 0.20249 1.69659 38 5.33155 2.64901 0.08199 5.75604 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 1.90700 2.18218 2.91287 0.37927 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 0.80343 4.34915 0.92465 1.94755 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 1.94343 0.62419 4.63778 1.16663 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 0.24862 4.94868 1.76293 3.18233 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 0.17343 2.35641 4.76144 2.88403 49 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02118 3.95723 6.29527 0.18298 1.78849 1.09861 0.40547 44 2.80852 5.22442 0.10389 3.41139 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 0.62946 2.16520 4.03855 1.09432 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 0.00486 6.74613 6.25193 6.35152 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 1.36018 5.57085 0.30852 5.28911 54 G - - _ 1.38629 1.38629 1.38629 1.38629 0.15929 1.92822 6.29527 0.57821 0.82304 1.09861 0.40547 48 1.79148 2.32957 0.48625 2.11178 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 2.32469 1.30334 2.32632 0.62941 59 U - - > 1.38629 1.38629 1.38629 1.38629 0.04994 6.29527 3.06038 1.46634 0.26236 1.09861 0.40547 50 2.32588 2.39955 3.44764 0.24882 60 U - - > 1.38629 1.38629 1.38629 1.38629 0.00387 6.24920 6.24920 1.46634 0.26236 0.07578 2.61753 51 0.51052 5.14017 1.48888 1.78182 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 1.47461 2.00122 1.74603 0.77328 62 u - - > 1.38629 1.38629 1.38629 1.38629 0.02031 6.29527 4.00329 1.46634 0.26236 1.09861 0.40547 53 1.06542 3.55633 1.86704 0.75016 63 u - - > 1.38629 1.38629 1.38629 1.38629 0.17935 6.27872 1.81824 1.46634 0.26236 0.18410 1.78292 54 0.90672 3.46779 0.99214 1.63894 64 a - - > 1.38629 1.38629 1.38629 1.38629 0.59210 0.85062 3.92781 0.01023 4.58793 0.02285 3.79019 55 3.89734 1.00184 2.55762 0.62546 66 U - - > 1.38629 1.38629 1.38629 1.38629 0.00375 6.28042 6.28042 1.46634 0.26236 0.20095 1.70351 56 0.13594 5.78611 2.48293 3.20547 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 1.65264 2.69958 1.93477 0.51623 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 0.56142 1.62287 2.68012 1.80963 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 4.05376 0.86569 2.63273 0.71335 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 2.51162 1.06993 2.25197 0.75367 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 0.49119 2.28016 1.99665 1.89683 72 A - - : 1.38629 1.38629 1.38629 1.38629 0.00185 6.29342 * 1.46634 0.26236 0.00000 * //