INFERNAL1/a [1.1.4 | Dec 2020] NAME Pestivirus-3UTR-SLI ACC RF04322 DESC Pestivirus 3' UTR SLI STATES 184 NODES 42 CLEN 60 W 109 ALPH RNA RF no CONS yes MAP yes DATE Mon May 12 14:45:31 2025 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/15.1_nancy/Pestivirus/Pestivirus-3UTR-SLI/RF04322/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 36 EFFN 21.036621 CKSUM 1765768556 NULL 0.000 0.000 0.000 0.000 GA 37.00 TC 42.50 NC 36.80 EFP7GF -10.7591 0.72482 ECMLC 0.62254 -6.31739 3.59286 1600000 573557 0.002092 ECMGC 0.39813 -18.93341 -4.46033 1600000 127207 0.003144 ECMLI 0.57698 -5.48305 4.73279 1600000 435583 0.002755 ECMGI 0.43313 -14.40936 -1.77700 1600000 95117 0.004205 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 109 168 -9.632 -9.839 -0.169 -3.208 IL 1 1 2 1 4 1 15 111 171 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 15 111 170 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - A - - - ML 3 2 3 5 3 1 13 109 168 -10.712 -0.661 -1.446 1.820 -4.019 -4.218 -1.502 D 4 2 3 5 3 0 12 108 167 -7.798 -0.915 -1.104 IL 5 5 3 5 3 1 17 110 169 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 71 - C - - MR 6 5 3 8 3 1 18 109 168 -10.183 -0.005 -8.501 -5.154 1.963 -5.662 -4.249 D 7 5 3 8 3 0 10 107 167 -10.636 -0.522 -1.723 IR 8 8 3 8 3 1 15 109 168 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 70 - C - - MR 9 8 3 11 3 1 17 108 167 -10.704 -0.004 -9.022 -1.571 1.833 -5.108 -3.791 D 10 8 3 11 3 0 8 106 165 -8.998 -0.657 -1.458 IR 11 11 3 11 3 1 12 108 167 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 69 - C - - MR 12 11 3 14 5 1 16 107 166 -9.478 -0.007 -9.293 -9.505 -10.397 -5.849 1.977 -6.308 -4.957 D 13 11 3 14 5 0 7 104 164 -6.262 -1.617 -0.902 -5.319 -3.314 IR 14 14 3 14 5 1 10 107 166 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 2 68 G C - - MP 15 14 3 19 6 2 16 106 165 -10.687 -10.626 -0.007 -9.402 -9.682 -10.077 -8.106 -0.506 -9.149 -2.471 -9.709 -6.477 -4.277 -9.196 -6.552 3.855 -6.781 -1.027 -4.591 -6.837 -6.591 -7.999 ML 16 14 3 19 6 1 9 104 163 -7.321 -7.667 -1.128 -1.013 -7.517 -5.046 -0.495 -1.504 1.264 -0.898 MR 17 14 3 19 6 1 8 103 163 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 18 14 3 19 6 0 5 99 159 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 9 105 164 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 20 20 6 20 5 1 9 105 164 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 6 ] 3 67 C G - - MP 21 20 6 25 6 2 16 104 163 -10.707 -10.646 -0.007 -9.422 -9.702 -10.097 -7.384 -7.622 -6.732 -3.825 -5.098 -6.896 3.712 -6.006 -6.826 -3.778 -6.960 -5.931 1.306 -7.237 -2.795 -5.625 ML 22 20 6 25 6 1 8 101 160 -6.876 -7.222 -1.936 -0.567 -7.072 -4.601 -0.198 0.662 -0.913 0.022 MR 23 20 6 25 6 1 8 101 161 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 24 20 6 25 6 0 5 97 157 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 9 103 162 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 26 26 6 26 5 1 9 103 162 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 7 ] 4 66 u g - - MP 27 26 6 31 6 2 15 102 161 -10.707 -10.646 -0.007 -9.422 -9.702 -10.097 -6.164 -6.023 -5.951 -1.967 -4.630 -6.488 1.553 -5.395 -5.907 1.196 -6.275 -3.762 1.981 -6.250 2.654 -4.670 ML 28 26 6 31 6 1 8 99 158 -6.876 -7.222 -1.936 -0.567 -7.072 -4.601 -0.227 -0.520 -0.852 0.922 MR 29 26 6 31 6 1 8 99 159 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 30 26 6 31 6 0 5 96 155 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 31 31 5 31 6 1 9 101 160 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 32 32 6 32 5 1 9 101 160 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 8 ] 5 65 g c - - MP 33 32 6 37 6 2 14 100 159 -10.707 -10.646 -0.007 -9.422 -9.702 -10.097 -0.326 -3.448 -3.966 -0.027 -4.068 -4.731 1.421 -4.313 1.022 2.641 -4.593 -0.385 -0.353 -4.014 0.263 -3.057 ML 34 32 6 37 6 1 8 98 157 -6.876 -7.222 -1.936 -0.567 -7.072 -4.601 -0.093 -1.004 0.866 -0.432 MR 35 32 6 37 6 1 8 98 157 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 36 32 6 37 6 0 5 94 153 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 37 37 5 37 6 1 8 99 158 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 38 38 6 38 5 1 8 99 158 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 9 ] 6 64 u a - - MP 39 38 6 43 6 2 13 98 157 -10.707 -10.646 -0.131 -3.583 -9.702 -10.097 0.597 -2.924 -0.348 0.448 -2.830 -3.778 1.340 -3.219 1.157 0.403 -3.552 -1.511 2.175 -3.071 -0.986 -2.152 ML 40 38 6 43 6 1 8 96 155 -6.876 -7.222 -1.936 -0.567 -7.072 -4.601 -0.227 -0.520 -0.852 0.922 MR 41 38 6 43 6 1 7 96 155 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 42 38 6 43 6 0 5 92 151 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 6 1 8 97 156 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 44 44 6 44 5 1 8 97 156 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 7 63 u a - - MP 45 44 6 49 6 2 12 96 155 -10.583 -10.522 -0.174 -3.951 -4.423 -9.974 1.571 -1.063 -1.144 0.834 -2.496 -3.353 0.623 -2.854 -1.265 1.045 -3.143 -0.666 1.714 -2.642 -0.764 0.150 ML 46 44 6 49 6 1 9 95 154 -8.527 -8.873 -0.387 -2.219 -8.723 -6.252 0.807 -1.077 -0.217 -0.127 MR 47 44 6 49 6 1 7 94 153 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 48 44 6 49 6 0 4 90 149 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 49 49 5 49 6 1 8 95 154 -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 8 95 154 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 8 62 u a - - MP 51 50 6 55 6 2 12 94 153 -10.556 -10.495 -0.054 -9.271 -4.918 -9.946 -2.806 -2.972 -2.987 1.580 -2.833 -3.838 1.434 -1.788 -3.034 0.037 -3.601 -0.013 2.197 -3.132 0.159 0.458 ML 52 50 6 55 6 1 8 93 152 -8.204 -8.550 -0.241 -2.959 -8.400 -5.930 -0.403 -1.029 0.573 0.341 MR 53 50 6 55 6 1 8 93 152 -8.284 -7.013 -0.464 -6.991 -2.125 -5.205 1.534 -1.731 -1.427 -1.217 D 54 50 6 55 6 0 4 88 147 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 55 55 5 55 6 1 8 93 152 -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 8 93 152 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 9 61 G C - - MP 57 56 6 61 6 2 12 92 151 -2.656 -10.624 -0.276 -6.285 -9.680 -10.075 -5.044 -3.686 -4.887 1.445 -6.003 -5.522 -1.092 -5.527 -5.252 3.082 -5.531 0.244 1.425 -4.779 -3.100 -3.833 ML 58 56 6 61 6 1 7 90 149 -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 7 90 149 -7.988 -6.717 -0.595 -6.695 -1.829 -4.909 1.381 -1.391 -1.117 -0.855 D 60 56 6 61 6 0 4 85 145 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 61 61 5 61 6 1 9 91 150 -5.072 -5.335 -0.109 -6.991 -7.767 -7.427 0.000 0.000 0.000 0.000 IR 62 62 6 62 5 1 8 91 150 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 11 60 G C - - MP 63 62 6 67 6 2 11 90 149 -10.710 -10.649 -0.007 -9.426 -9.706 -10.101 -4.965 -3.597 -4.791 0.497 -5.897 -5.376 0.131 -5.464 -5.198 3.360 -5.451 0.759 0.045 -4.646 -2.981 -3.751 ML 64 62 6 67 6 1 7 88 147 -6.786 -7.132 -0.765 -1.541 -6.982 -4.512 -0.022 -0.919 0.770 -0.358 MR 65 62 6 67 6 1 6 87 146 -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 4 83 142 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 67 67 5 67 6 1 7 89 148 -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 7 89 148 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 12 59 G C - - MP 69 68 6 73 6 2 10 88 147 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -6.020 -4.508 -6.013 1.648 -7.355 -6.617 -2.452 -6.456 -5.906 3.343 -6.295 1.107 -2.671 -6.004 -4.454 -4.855 ML 70 68 6 73 6 1 6 85 145 -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 6 85 144 -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 4 81 140 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 73 73 5 73 6 1 7 87 146 -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 7 87 146 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 13 58 g u - - MP 75 74 6 79 6 2 8 86 145 -10.726 -10.665 -0.053 -5.837 -5.944 -10.117 -0.871 -0.380 -3.083 1.787 -3.090 -2.633 0.880 -2.918 -1.203 0.725 -2.286 1.975 0.052 -0.559 -0.606 -1.885 ML 76 74 6 79 6 1 6 83 142 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 77 74 6 79 6 1 6 82 141 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 78 74 6 79 6 0 3 78 137 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 79 79 5 79 6 1 6 85 144 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 80 80 6 80 5 1 6 85 144 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 14 57 u a - - MP 81 80 6 85 4 2 6 84 143 -1.056 -9.782 -1.403 -2.839 -0.286 -2.616 -1.649 1.258 -2.582 -3.454 1.344 -2.945 -1.744 0.440 -3.241 -1.298 2.471 -1.586 0.085 -1.867 ML 82 80 6 85 4 1 4 76 135 -4.332 -4.514 -1.081 -1.205 -0.307 -0.569 -0.940 0.997 MR 83 80 6 85 4 1 4 73 132 -5.501 -4.530 -0.809 -1.458 1.132 -1.014 -0.760 -0.469 D 84 80 6 85 4 0 3 74 133 -4.568 -4.250 -2.265 -0.520 IL 85 85 5 85 4 1 6 84 144 -0.449 -8.043 -1.927 -10.528 0.000 0.000 0.000 0.000 IR 86 86 6 86 3 1 5 57 87 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 20 - A - - - ML 87 86 6 89 3 1 4 55 85 -10.325 -0.183 -3.079 1.599 -1.714 -1.299 -1.942 D 88 86 6 89 3 0 3 54 84 -9.398 -0.111 -3.789 IL 89 89 3 89 3 1 4 56 86 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 21 - a - - - ML 90 89 3 92 3 1 4 54 84 -10.408 -0.144 -3.408 0.575 -0.344 -0.101 -0.340 D 91 89 3 92 3 0 2 52 82 -8.881 -4.394 -0.074 IL 92 92 3 92 3 1 4 56 85 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 22 - u - - - ML 93 92 3 95 3 1 4 54 83 -4.548 -0.066 -8.899 0.572 -1.461 -1.371 0.818 D 94 92 3 95 3 0 2 52 82 -8.466 -0.082 -4.249 IL 95 95 3 95 3 1 3 54 83 -2.642 -0.311 -4.880 0.000 0.000 0.000 0.000 [ MATR 20 ] - 56 - A - - MR 96 95 3 98 3 1 3 52 82 -10.868 -0.003 -9.186 1.250 -3.495 0.218 -1.436 D 97 95 3 98 3 0 0 51 80 -6.390 -1.568 -0.620 IR 98 98 3 98 3 1 2 53 83 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 21 ] - 55 - A - - MR 99 98 3 101 3 1 2 51 81 -10.868 -0.003 -9.186 1.007 -0.643 -1.457 -0.020 D 100 98 3 101 3 0 0 50 79 -6.390 -1.568 -0.620 IR 101 101 3 101 3 1 2 52 82 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 22 ] - 54 - a - - MR 102 101 3 104 3 1 1 50 80 -10.868 -0.867 -1.148 0.984 -1.726 -1.946 0.546 D 103 101 3 104 3 0 0 49 78 -6.390 -1.568 -0.620 IR 104 104 3 104 3 1 1 52 82 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 23 ] - 53 - A - - MR 105 104 3 107 5 1 1 50 80 -2.066 -0.727 -3.964 -3.449 -9.598 1.245 -0.637 -0.522 -1.781 D 106 104 3 107 5 0 0 42 71 -9.051 -0.044 -6.677 -8.108 -6.103 IR 107 107 3 107 5 1 1 52 81 -0.896 -1.166 -8.518 -6.685 -7.791 0.000 0.000 0.000 0.000 [ MATP 24 ] 24 49 c g - - MP 108 107 3 112 6 2 2 38 57 -10.622 -10.562 -0.007 -9.338 -9.618 -10.013 -3.912 -3.918 -4.035 0.659 -1.114 -4.880 2.714 -4.014 -4.023 1.546 0.065 -2.012 0.696 -4.191 0.049 -3.004 ML 109 107 3 112 6 1 1 37 56 -7.355 -7.702 -0.469 -2.110 -7.551 -5.081 -0.626 1.101 -1.382 -0.280 MR 110 107 3 112 6 1 1 37 56 -8.284 -7.013 -0.464 -6.991 -2.125 -5.205 -0.993 1.339 -1.778 -0.564 D 111 107 3 112 6 0 0 35 54 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 112 112 5 112 6 1 1 38 57 -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 38 56 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 25 48 c g - - MP 114 113 6 118 6 2 2 36 55 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -3.124 -3.268 -3.297 0.386 -0.629 -4.148 2.549 -0.069 -0.673 1.127 -3.901 -0.227 1.259 -3.443 -1.110 -2.458 ML 115 113 6 118 6 1 1 36 55 -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 36 55 -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 35 54 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 118 118 5 118 6 1 1 36 55 -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 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 26 47 u a - - MP 120 119 6 124 4 2 2 34 53 -9.632 -9.839 -0.008 -8.253 -5.003 -4.794 -5.026 0.314 -4.022 -5.849 2.242 -4.653 0.227 0.164 -5.436 -2.487 2.781 -5.211 -1.548 -3.712 ML 121 119 6 124 4 1 1 36 55 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 122 119 6 124 4 1 1 36 54 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 123 119 6 124 4 0 0 35 53 -4.568 -4.250 -2.265 -0.520 IL 124 124 5 124 4 1 1 37 56 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 125 125 6 125 3 1 1 36 55 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 27 - G - - - ML 126 125 6 128 3 1 1 32 50 -10.558 -0.003 -9.212 -4.228 -5.386 1.843 -1.574 D 127 125 6 128 3 0 0 31 50 -6.174 -1.687 -0.566 IL 128 128 3 128 3 1 1 35 54 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 28 - A - - - ML 129 128 3 131 3 1 1 31 49 -10.558 -0.003 -9.212 1.985 -6.578 -5.946 -6.140 D 130 128 3 131 3 0 0 30 49 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 34 53 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 29 - C - - - ML 132 131 3 134 3 1 1 30 48 -10.868 -0.003 -9.186 -3.186 1.934 -5.419 -4.423 D 133 131 3 134 3 0 0 29 47 -5.620 -0.734 -1.403 IL 134 134 3 134 3 1 1 31 49 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 30 ] - 46 - A - - MR 135 134 3 137 3 1 1 29 47 -10.868 -0.003 -9.186 1.350 -5.039 0.472 -4.874 D 136 134 3 137 3 0 0 27 46 -6.390 -1.568 -0.620 IR 137 137 3 137 3 1 1 30 48 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 31 ] - 45 - U - - MR 138 137 3 140 5 1 1 28 46 -9.526 -0.007 -9.341 -9.553 -10.445 -4.080 -0.844 -4.829 1.744 D 139 137 3 140 5 0 0 26 45 -5.352 -0.707 -2.978 -4.409 -2.404 IR 140 140 3 140 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 32 ] 30 44 G C - - MP 141 140 3 145 6 2 2 27 45 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -5.243 -3.836 -5.097 1.371 -6.245 -5.654 -1.316 -5.739 -5.402 3.404 -5.677 -0.583 0.425 -4.956 -3.326 -4.041 ML 142 140 3 145 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 143 140 3 145 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 144 140 3 145 6 0 0 23 41 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 145 145 5 145 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 146 146 6 146 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 33 ] 31 43 U A - - MP 147 146 6 151 6 2 2 25 43 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -5.339 -5.178 -5.309 0.863 -4.243 -6.044 1.316 -4.912 -5.233 -0.982 -5.706 -2.923 3.167 -5.523 0.477 -1.203 ML 148 146 6 151 6 1 1 23 42 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 149 146 6 151 6 1 1 23 42 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 150 146 6 151 6 0 0 21 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 151 151 5 151 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 152 152 6 152 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 34 ] 32 42 C G - - MP 153 152 6 157 6 2 2 23 41 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -6.304 -6.167 -6.058 0.552 -4.694 -6.568 3.475 -5.473 -6.017 -1.893 -6.369 -3.898 0.951 -6.372 -0.061 -4.771 ML 154 152 6 157 6 1 1 21 40 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 155 152 6 157 6 1 1 21 40 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 156 152 6 157 6 0 0 19 38 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 157 157 5 157 6 1 1 23 41 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 158 158 6 158 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 35 ] 33 41 C G - - MP 159 158 6 163 6 2 2 21 39 -10.726 -10.665 -0.007 -9.442 -9.722 -10.117 -7.456 -7.725 -6.781 -3.954 -5.136 -6.930 3.782 -6.049 -6.882 -3.923 -7.005 -6.101 -1.861 -7.296 0.776 -5.684 ML 160 158 6 163 6 1 1 20 38 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 161 158 6 163 6 1 1 20 38 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 162 158 6 163 6 0 0 18 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 163 163 5 163 6 1 1 21 39 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 164 164 6 164 5 1 1 20 39 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 34 40 a u - - MP 165 164 6 169 4 2 2 19 37 -2.146 -9.839 -0.378 -8.253 -6.487 -6.331 -6.205 2.915 -4.858 -6.686 2.075 -5.633 -6.180 -2.214 -6.507 -4.095 1.856 -6.571 -2.474 -4.967 ML 166 164 6 169 4 1 1 19 37 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 167 164 6 169 4 1 1 19 38 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 168 164 6 169 4 0 0 18 36 -4.568 -4.250 -2.265 -0.520 IL 169 169 5 169 4 1 1 18 37 -4.558 -5.241 -0.110 -7.726 0.000 0.000 0.000 0.000 IR 170 170 6 170 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 36 - u - - - ML 171 170 6 173 3 1 1 14 33 -10.558 -0.104 -3.866 -1.572 0.118 -0.063 0.697 D 172 170 6 173 3 0 0 15 34 -6.174 -1.687 -0.566 IL 173 173 3 173 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 37 - A - - - ML 174 173 3 176 3 1 1 13 31 -10.459 -0.004 -9.113 1.141 -2.506 -1.004 0.163 D 175 173 3 176 3 0 0 13 32 -8.418 -0.227 -2.809 IL 176 176 3 176 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 38 - G - - - ML 177 176 3 179 3 1 1 11 30 -10.558 -0.003 -9.212 -0.338 -3.643 1.514 -1.875 D 178 176 3 179 3 0 0 13 32 -6.174 -1.687 -0.566 IL 179 179 3 179 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 40 ] 39 - U - - - ML 180 179 3 182 2 1 1 1 1 * 0.000 -3.658 -3.582 -0.576 1.663 D 181 179 3 182 2 0 0 0 0 * 0.000 IL 182 182 3 182 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 41 ] - - - - - - E 183 182 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME Pestivirus-3UTR-SLI ACC RF04322 DESC Pestivirus 3' UTR SLI LENG 60 MAXL 124 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon May 12 14:45:31 2025 COM [1] /hps/software/users/agb/rfam/bin/cmbuild -F CM SEED NSEQ 36 EFFN 36.000000 CKSUM 1765768556 STATS LOCAL MSV -8.1095 0.72482 STATS LOCAL VITERBI -8.8044 0.72482 STATS LOCAL FORWARD -3.3189 0.72482 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.37734 1.36954 1.29004 1.52204 1.38629 1.38629 1.38629 1.38629 0.11703 5.94542 2.22728 1.46634 0.26236 0.00000 * 1 0.11329 4.70558 4.87708 2.40306 1 A - - : 1.38629 1.38629 1.38629 1.38629 0.00587 5.83426 5.83426 1.46634 0.26236 0.04742 3.07241 2 2.86074 5.55365 0.06793 5.38736 2 G - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 3 5.13343 0.18699 5.24227 1.83655 3 C - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 4 4.60231 1.77306 1.91780 0.39567 4 U - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 5 2.28972 1.78321 0.47692 2.20804 5 G - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 6 1.43266 1.83181 1.36892 1.05894 6 u - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 7 0.92022 2.40864 1.62474 1.15624 7 a - - < 1.38629 1.38629 1.38629 1.38629 0.05843 5.94542 2.91618 1.46634 0.26236 1.09861 0.40547 8 1.58213 1.72827 1.94553 0.74663 8 u - - < 1.38629 1.38629 1.38629 1.38629 0.04519 5.89252 3.18396 1.46634 0.26236 0.09231 2.42840 9 1.74455 3.83256 0.49314 1.64551 9 G - - < 1.38629 1.38629 1.38629 1.38629 0.23502 1.57637 5.90806 0.02609 3.65936 0.12510 2.14052 10 2.51080 2.69200 0.25264 2.59963 11 G - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 11 1.59998 4.99787 0.24486 4.76344 12 G - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 12 1.07872 2.17797 0.92979 1.88347 13 g - - < 1.38629 1.38629 1.38629 1.38629 0.02450 5.94542 3.83582 1.46634 0.26236 1.09861 0.40547 13 1.46645 1.78820 2.18712 0.71385 14 u - - < 1.38629 1.38629 1.38629 1.38629 1.02202 0.73529 1.82779 1.35151 0.29955 0.21718 1.63364 14 0.25087 2.65341 2.31393 2.94509 20 A - - - 1.38629 1.38629 1.38629 1.38629 0.13369 5.77688 2.10344 1.46634 0.26236 0.03266 3.43799 15 0.96409 1.61798 1.43177 1.70658 21 a - - - 1.38629 1.38629 1.38629 1.38629 0.10984 5.83951 2.29151 1.46634 0.26236 3.72298 0.02446 16 0.96251 2.58024 2.46974 0.78153 22 u - - - 1.38629 1.38629 1.38629 1.38629 0.05304 3.02759 5.73615 0.12832 2.11672 0.34049 1.24278 17 2.34203 0.72233 1.31026 1.90717 24 c - - < 1.38629 1.38629 1.38629 1.38629 0.00554 5.89252 5.89252 1.46634 0.26236 0.09231 2.42840 18 2.58667 0.65294 1.44445 1.78175 25 C - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 19 2.58866 1.21334 1.89598 0.73918 26 u - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 20 5.02621 5.90598 0.10284 2.42545 27 G - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 21 0.00602 6.51915 6.03951 6.14704 28 A - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 22 3.60975 0.03857 5.58041 4.96142 29 C - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 23 1.80951 4.08310 0.31958 2.37564 30 G - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 24 2.16618 2.00995 3.92571 0.31244 31 U - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 25 2.38814 0.31781 4.61167 1.76890 32 C - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 26 5.57449 0.13494 5.51276 2.13366 33 C - - < 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 27 0.69273 1.35238 4.87840 1.45433 34 A - - < 1.38629 1.38629 1.38629 1.38629 0.26283 1.47616 5.94542 0.02276 3.79427 1.09861 0.40547 28 2.82802 1.27965 1.39281 0.88102 36 u - - _ 1.38629 1.38629 1.38629 1.38629 0.07637 5.94542 2.64633 1.46634 0.26236 1.09861 0.40547 29 0.55251 3.65373 2.13880 1.27010 37 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00564 5.87468 5.87468 1.46634 0.26236 0.07123 2.67718 30 1.61455 4.37206 0.32093 2.76584 38 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 31 4.52265 4.42270 1.71630 0.22639 39 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 32 1.47638 5.06022 1.33502 0.68907 40 U - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 33 4.37944 5.64675 0.02102 5.35211 41 G - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 34 2.17794 4.78035 0.24290 2.36460 42 G - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 35 0.48381 4.10600 1.50826 1.92553 43 A - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 36 2.42769 0.36596 3.89424 1.62015 44 C - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 37 4.80477 1.95440 5.32269 0.16809 45 U - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 38 0.44737 5.50842 1.04340 5.42906 46 A - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 39 0.60402 2.77434 1.17702 2.49124 47 A - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 40 1.44874 1.93954 0.85194 1.63589 48 g - - > 1.38629 1.38629 1.38629 1.38629 0.04281 5.94542 3.23686 1.46634 0.26236 1.09861 0.40547 41 2.18830 1.47576 0.59103 2.24874 49 G - - > 1.38629 1.38629 1.38629 1.38629 0.98896 1.93248 0.72723 0.93913 0.49589 0.12510 2.14052 42 0.46793 1.81897 1.75274 3.26470 53 A - - - 1.38629 1.38629 1.38629 1.38629 0.00980 5.32383 5.32383 1.46634 0.26236 0.01118 4.49887 43 0.66912 2.77792 2.96224 0.98358 54 A - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 44 0.64965 1.85386 2.52274 1.42337 55 A - - - 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 45 0.49746 4.49399 1.21184 2.48773 56 A - - - 1.38629 1.38629 1.38629 1.38629 0.02724 5.94542 3.71918 1.46634 0.26236 1.09861 0.40547 46 0.74097 2.26705 1.44161 1.69727 57 a - - > 1.38629 1.38629 1.38629 1.38629 0.00537 5.92355 5.92355 1.46634 0.26236 0.19546 1.72855 47 2.10809 1.60255 1.91438 0.63542 58 U - - > 1.38629 1.38629 1.38629 1.38629 0.00525 5.94542 5.94542 1.46634 0.26236 1.09861 0.40547 48 4.87690 0.44090 4.80136 1.07675 59 C - - > 1.38629 1.38629 1.38629 1.38629 0.01931 5.94542 4.10408 1.46634 0.26236 1.09861 0.40547 49 2.68324 0.40066 2.60812 1.67075 60 C - - > 1.38629 1.38629 1.38629 1.38629 0.00532 5.93144 5.93144 1.46634 0.26236 0.27552 1.42371 50 1.56165 0.64493 3.61801 1.43265 61 C - - > 1.38629 1.38629 1.38629 1.38629 0.10001 5.94542 2.37997 1.46634 0.26236 1.09861 0.40547 51 1.03005 2.91676 1.48789 1.01321 62 u - - > 1.38629 1.38629 1.38629 1.38629 0.12706 5.85118 2.15032 1.46634 0.26236 0.25459 1.49271 52 0.73848 1.76828 2.02221 1.51790 63 a - - > 1.38629 1.38629 1.38629 1.38629 0.00597 5.81747 5.81747 1.46634 0.26236 0.18847 1.76156 53 0.49047 2.59597 1.47522 2.47267 64 A - - > 1.38629 1.38629 1.38629 1.38629 0.00534 5.92853 5.92853 1.46634 0.26236 2.24029 0.11253 54 1.43255 0.85385 1.39533 2.43297 65 c - - > 1.38629 1.38629 1.38629 1.38629 0.00534 5.92853 5.92853 1.46634 0.26236 2.24029 0.11253 55 1.38274 1.92495 0.52386 4.51028 66 G - - > 1.38629 1.38629 1.38629 1.38629 0.00534 5.92853 5.92853 1.46634 0.26236 2.24029 0.11253 56 1.87067 5.60632 0.17748 5.31370 67 G - - > 1.38629 1.38629 1.38629 1.38629 0.02308 5.92853 3.90438 1.46634 0.26236 2.24029 0.11253 57 5.95737 0.04436 5.82510 3.27401 68 C - - > 1.38629 1.38629 1.38629 1.38629 0.00543 5.91089 5.91089 1.46634 0.26236 2.77045 0.06468 58 5.98279 0.00917 6.29623 5.34718 69 C - - : 1.38629 1.38629 1.38629 1.38629 0.08807 5.91089 2.50601 1.46634 0.26236 2.77045 0.06468 59 2.42181 0.10789 5.45615 4.68343 70 C - - : 1.38629 1.38629 1.38629 1.38629 0.38579 5.82872 1.14839 1.46634 0.26236 3.80836 0.02243 60 5.47607 0.01512 5.79259 4.85741 71 C - - : 1.38629 1.38629 1.38629 1.38629 0.43241 1.04680 * 0.02437 3.72674 0.00000 * //