INFERNAL1/a [1.1.5 | Sep 2023] NAME PVX_3 ACC RF00184 DESC Potato virus X cis-acting regulatory element STATES 171 NODES 52 CLEN 54 W 70 ALPH RNA RF no CONS yes MAP yes DATE Sat Jul 6 23:40:35 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/RF00184/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 4 EFFN 2.152344 CKSUM 1400145327 NULL 0.000 0.000 0.000 0.000 GA 42.00 TC 86.50 NC 34.50 EFP7GF -10.4073 0.71920 ECMLC 0.79050 -6.49346 1.77543 1600000 827906 0.001449 ECMGC 0.41814 -16.92833 -2.98878 1600000 135968 0.002942 ECMLI 0.60707 -8.10606 2.06159 1600000 575263 0.002086 ECMGI 0.43057 -13.33096 -0.46340 1600000 101905 0.003925 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 0 1 70 90 -7.036 -7.243 -0.050 -5.658 IL 1 1 2 1 4 1 18 74 94 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 18 73 93 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - C - - - ML 3 2 3 5 3 1 18 70 90 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 4 2 3 5 3 0 13 69 89 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 17 72 92 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - C - - - ML 6 5 3 8 3 1 17 69 89 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 7 5 3 8 3 0 13 68 88 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 16 71 91 -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 16 68 88 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 10 8 3 11 3 0 12 67 87 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 16 70 90 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - U - - - ML 12 11 3 14 3 1 15 67 87 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 13 11 3 14 3 0 11 66 86 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 15 69 89 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - A - - - ML 15 14 3 17 3 1 14 66 86 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 16 14 3 17 3 0 11 64 84 -6.174 -1.687 -0.566 IL 17 17 3 17 3 1 14 68 88 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - A - - - ML 18 17 3 20 3 1 13 65 85 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 19 17 3 20 3 0 10 63 83 -6.174 -1.687 -0.566 IL 20 20 3 20 3 1 13 67 87 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - C - - - ML 21 20 3 23 3 1 12 64 84 -8.047 -0.019 -6.701 -0.947 1.037 -1.767 0.183 D 22 20 3 23 3 0 10 62 82 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 12 66 86 -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 11 63 83 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 25 23 3 26 3 0 9 61 81 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 11 65 85 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - A - - - ML 27 26 3 29 2 1 10 62 82 -8.455 -0.004 1.753 -2.539 -2.154 -2.098 D 28 26 3 29 2 0 9 61 81 -8.445 -0.004 IL 29 29 3 29 2 1 10 63 83 -1.823 -0.479 0.000 0.000 0.000 0.000 [ BIF 10 ] - - - - - - B 30 29 3 31 84 0 9 61 81 [ BEGL 11 ] - - - - - - S 31 30 1 32 4 0 0 31 50 -0.043 -6.879 -6.286 -6.926 [ MATP 12 ] 10 26 C G - - MP 32 31 1 36 6 2 2 31 50 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -4.732 -4.654 -4.391 -0.870 -3.070 -4.779 3.604 -3.898 -4.447 -0.655 -4.688 -2.604 0.425 -4.789 -0.781 -3.281 ML 33 31 1 36 6 1 1 30 49 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 34 31 1 36 6 1 1 30 49 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 35 31 1 36 6 0 0 27 46 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 36 36 5 36 6 1 1 31 50 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 37 37 6 37 5 1 1 30 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 11 25 G C - - MP 38 37 6 42 6 2 2 29 48 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -4.907 -3.173 -5.023 0.089 -5.465 -4.758 -0.788 -5.276 -4.434 3.675 -4.759 -0.879 -1.169 -4.576 -2.835 -3.897 ML 39 37 6 42 6 1 1 28 47 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 40 37 6 42 6 1 1 28 47 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 41 37 6 42 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 42 42 5 42 6 1 1 29 48 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 43 43 6 43 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 12 24 U A - - MP 44 43 6 48 6 2 2 27 46 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -4.387 -4.216 -4.203 -0.497 -3.104 -4.749 1.228 -3.813 -4.206 -0.271 -4.569 -2.109 3.414 -4.530 -0.775 -3.010 ML 45 43 6 48 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 46 43 6 48 6 1 1 26 45 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 47 43 6 48 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 48 48 5 48 6 1 1 27 46 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 49 49 6 49 5 1 1 27 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 13 23 C G - - MP 50 49 6 54 4 2 2 25 44 -7.036 -7.243 -0.050 -5.658 -4.732 -4.654 -4.391 -0.870 -3.070 -4.779 3.604 -3.898 -4.447 -0.655 -4.688 -2.604 0.425 -4.789 -0.781 -3.281 ML 51 49 6 54 4 1 1 26 45 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 52 49 6 54 4 1 1 25 44 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 53 49 6 54 4 0 0 24 43 -4.568 -4.250 -2.265 -0.520 IL 54 54 5 54 4 1 1 27 46 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 55 55 6 55 3 1 1 26 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 14 - u - - - ML 56 55 6 58 3 1 1 22 41 -8.047 -0.019 -6.701 -0.773 0.501 -1.560 0.732 D 57 55 6 58 3 0 0 21 40 -6.174 -1.687 -0.566 IL 58 58 3 58 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 15 - A - - - ML 59 58 3 61 3 1 1 21 40 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 60 58 3 61 3 0 0 20 39 -6.174 -1.687 -0.566 IL 61 61 3 61 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 16 - C - - - ML 62 61 3 64 3 1 1 20 39 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 63 61 3 64 3 0 0 19 38 -6.174 -1.687 -0.566 IL 64 64 3 64 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 17 - A - - - ML 65 64 3 67 3 1 1 19 37 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 66 64 3 67 3 0 0 18 37 -6.174 -1.687 -0.566 IL 67 67 3 67 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 18 - U - - - ML 68 67 3 70 3 1 1 17 36 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 69 67 3 70 3 0 0 17 36 -6.174 -1.687 -0.566 IL 70 70 3 70 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 19 - A - - - ML 71 70 3 73 3 1 1 16 35 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 72 70 3 73 3 0 0 16 34 -6.174 -1.687 -0.566 IL 73 73 3 73 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 20 - A - - - ML 74 73 3 76 3 1 1 15 33 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 75 73 3 76 3 0 0 15 33 -6.174 -1.687 -0.566 IL 76 76 3 76 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 21 - C - - - ML 77 76 3 79 3 1 1 13 31 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 78 76 3 79 3 0 0 13 32 -6.174 -1.687 -0.566 IL 79 79 3 79 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 22 - C - - - ML 80 79 3 82 2 1 1 1 1 * 0.000 -1.943 1.674 -2.772 -1.316 D 81 79 3 82 2 0 0 0 0 * 0.000 IL 82 82 3 82 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 25 ] - - - - - - E 83 82 3 -1 0 0 0 0 0 [ BEGR 26 ] - - - - - - S 84 30 1 85 3 0 0 43 62 -8.047 -0.019 -6.701 IL 85 85 2 85 3 1 1 46 66 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 27 - C - - - ML 86 85 2 88 3 1 1 43 62 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 87 85 2 88 3 0 0 42 61 -6.174 -1.687 -0.566 IL 88 88 3 88 3 1 1 45 65 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 28 - c - - - ML 89 88 3 91 3 1 1 42 61 -8.047 -0.019 -6.701 -0.589 0.876 -0.441 -0.390 D 90 88 3 91 3 0 0 40 60 -6.174 -1.687 -0.566 IL 91 91 3 91 3 1 1 44 64 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 29 - U - - - ML 92 91 3 94 3 1 1 41 60 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 93 91 3 94 3 0 0 39 59 -6.174 -1.687 -0.566 IL 94 94 3 94 3 1 1 43 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 30 ] 30 - A - - - ML 95 94 3 97 3 1 1 40 59 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 96 94 3 97 3 0 0 38 58 -6.174 -1.687 -0.566 IL 97 97 3 97 3 1 1 42 61 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 31 - C - - - ML 98 97 3 100 3 1 1 39 58 -8.047 -0.019 -6.701 -0.938 1.023 -1.757 0.201 D 99 97 3 100 3 0 0 37 57 -6.174 -1.687 -0.566 IL 100 100 3 100 3 1 1 41 60 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 32 - C - - - ML 101 100 3 103 5 1 1 38 57 -7.166 -0.037 -6.981 -7.193 -8.085 -1.943 1.674 -2.772 -1.316 D 102 100 3 103 5 0 0 36 55 -4.959 -0.803 -4.221 -2.596 -2.508 IL 103 103 3 103 5 1 1 38 57 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 33 ] 33 54 C G - - MP 104 103 3 108 6 2 2 37 56 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -4.732 -4.654 -4.391 -0.870 -3.070 -4.779 3.604 -3.898 -4.447 -0.655 -4.688 -2.604 0.425 -4.789 -0.781 -3.281 ML 105 103 3 108 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 106 103 3 108 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 107 103 3 108 6 0 0 33 52 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 108 108 5 108 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 109 109 6 109 5 1 1 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 34 ] 34 53 C G - - MP 110 109 6 114 6 2 2 35 54 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -4.732 -4.654 -4.391 -0.870 -3.070 -4.779 3.604 -3.898 -4.447 -0.655 -4.688 -2.604 0.425 -4.789 -0.781 -3.281 ML 111 109 6 114 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 112 109 6 114 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 113 109 6 114 6 0 0 31 50 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 114 114 5 114 6 1 1 34 53 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 115 115 6 115 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 35 ] 35 52 A U - - MP 116 115 6 120 6 2 2 33 52 -9.142 -9.081 -0.021 -7.858 -8.137 -8.533 -3.943 -2.936 -3.950 3.422 -4.364 -5.442 -0.054 -3.982 -3.836 0.915 -4.391 -0.388 -0.471 -4.604 -1.994 -2.775 ML 117 115 6 120 6 1 1 32 51 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 118 115 6 120 6 1 1 32 51 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 119 115 6 120 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 120 120 5 120 6 1 1 32 52 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 121 121 6 121 5 1 1 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 36 51 G C - - MP 122 121 6 126 4 2 2 30 50 -7.036 -7.243 -0.050 -5.658 -4.907 -3.173 -5.023 0.089 -5.465 -4.758 -0.788 -5.276 -4.434 3.675 -4.759 -0.879 -1.169 -4.576 -2.835 -3.897 ML 123 121 6 126 4 1 1 31 50 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 124 121 6 126 4 1 1 31 50 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 125 121 6 126 4 0 0 30 49 -4.568 -4.250 -2.265 -0.520 IL 126 126 5 126 4 1 1 33 52 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 127 127 6 127 3 1 1 31 51 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 37 - U - - - ML 128 127 6 130 3 1 1 28 47 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 129 127 6 130 3 0 0 27 46 -6.174 -1.687 -0.566 IL 130 130 3 130 3 1 1 30 50 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 38 - U - - - ML 131 130 3 133 3 1 1 27 46 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 132 130 3 133 3 0 0 26 45 -6.174 -1.687 -0.566 IL 133 133 3 133 3 1 1 29 49 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 39 - U - - - ML 134 133 3 136 3 1 1 26 45 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 135 133 3 136 3 0 0 25 44 -6.174 -1.687 -0.566 IL 136 136 3 136 3 1 1 28 47 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 40 ] 40 - C - - - ML 137 136 3 139 3 1 1 25 43 -8.047 -0.019 -6.701 -1.943 1.674 -2.772 -1.316 D 138 136 3 139 3 0 0 24 43 -6.174 -1.687 -0.566 IL 139 139 3 139 3 1 1 27 46 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 41 ] 41 - A - - - ML 140 139 3 142 3 1 1 23 42 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 141 139 3 142 3 0 0 22 41 -6.174 -1.687 -0.566 IL 142 142 3 142 3 1 1 26 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 42 ] 42 - U - - - ML 143 142 3 145 3 1 1 22 41 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 144 142 3 145 3 0 0 21 40 -6.174 -1.687 -0.566 IL 145 145 3 145 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 43 ] 43 - A - - - ML 146 145 3 148 3 1 1 21 40 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 147 145 3 148 3 0 0 20 39 -6.174 -1.687 -0.566 IL 148 148 3 148 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 44 - G - - - ML 149 148 3 151 3 1 1 20 39 -8.047 -0.019 -6.701 -1.756 -3.003 1.761 -2.390 D 150 148 3 151 3 0 0 19 38 -6.174 -1.687 -0.566 IL 151 151 3 151 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 45 - U - - - ML 152 151 3 154 3 1 1 19 37 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 153 151 3 154 3 0 0 18 37 -6.174 -1.687 -0.566 IL 154 154 3 154 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 46 - A - - - ML 155 154 3 157 3 1 1 17 36 -8.047 -0.019 -6.701 1.753 -2.539 -2.154 -2.098 D 156 154 3 157 3 0 0 17 36 -6.174 -1.687 -0.566 IL 157 157 3 157 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 47 - U - - - ML 158 157 3 160 3 1 1 16 35 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 159 157 3 160 3 0 0 16 34 -6.174 -1.687 -0.566 IL 160 160 3 160 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 48 - U - - - ML 161 160 3 163 3 1 1 15 33 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 162 160 3 163 3 0 0 15 33 -6.174 -1.687 -0.566 IL 163 163 3 163 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 49 ] 49 - U - - - ML 164 163 3 166 3 1 1 13 31 -8.047 -0.019 -6.701 -1.640 -1.609 -2.381 1.660 D 165 163 3 166 3 0 0 13 32 -6.174 -1.687 -0.566 IL 166 166 3 166 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 50 ] 50 - U - - - ML 167 166 3 169 2 1 1 1 1 * 0.000 -1.640 -1.609 -2.381 1.660 D 168 166 3 169 2 0 0 0 0 * 0.000 IL 169 169 3 169 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 51 ] - - - - - - E 170 169 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME PVX_3 ACC RF00184 DESC Potato virus X cis-acting regulatory element LENG 54 MAXL 134 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sat Jul 6 23:40:35 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/RF00184/CM NSEQ 4 EFFN 2.480469 CKSUM 1400145327 STATS LOCAL MSV -8.1315 0.71920 STATS LOCAL VITERBI -8.2990 0.71920 STATS LOCAL FORWARD -3.8797 0.71920 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.31584 1.26220 1.82188 1.24828 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 0.00000 * 1 2.92672 0.18590 3.50303 2.45383 1 C - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 2 2.92672 0.18590 3.50303 2.45383 2 C - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 3 0.14423 3.30556 3.02317 3.01628 3 A - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 4 2.67225 2.62566 3.19211 0.20159 4 U - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 5 0.14423 3.30556 3.02317 3.01628 5 A - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 6 0.14423 3.30556 3.02317 3.01628 6 A - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 7 2.12723 0.62630 2.70586 1.27492 7 C - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 8 2.67225 2.62566 3.19211 0.20159 8 U - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 9 0.14423 3.30556 3.02317 3.01628 9 A - - : 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 10 3.27783 0.22302 3.05341 2.16289 10 C - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 11 2.63158 3.31173 0.15912 3.25219 11 G - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 12 3.04790 1.95917 2.80451 0.28631 12 U - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 13 3.26525 0.22429 3.04732 2.16068 13 C - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 14 1.98925 1.01008 2.54253 0.86668 14 u - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 15 0.14423 3.30556 3.02317 3.01628 15 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 16 2.92672 0.18590 3.50303 2.45383 16 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 17 0.14423 3.30556 3.02317 3.01628 17 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 18 2.67225 2.62566 3.19211 0.20159 18 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 19 0.14423 3.30556 3.02317 3.01628 19 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 20 0.14423 3.30556 3.02317 3.01628 20 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 21 2.92672 0.18590 3.50303 2.45383 21 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 22 2.92672 0.18590 3.50303 2.45383 22 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 23 2.43726 3.21224 0.19409 3.02105 23 G - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 24 0.32558 2.98653 1.79561 2.79029 24 A - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 25 3.43425 0.19063 3.13807 2.32337 25 C - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 26 2.43170 3.20449 0.19561 3.01182 26 G - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 27 2.92672 0.18590 3.50303 2.45383 27 C - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 28 1.86649 0.72845 1.69921 1.71563 28 c - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 29 2.67225 2.62566 3.19211 0.20159 29 U - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 30 0.14423 3.30556 3.02317 3.01628 30 A - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 31 2.12005 0.63602 2.69814 1.26144 31 C - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 32 2.92672 0.18590 3.50303 2.45383 32 C - - - 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 33 3.27063 0.22375 3.04993 2.16162 33 C - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 34 3.26833 0.22398 3.04881 2.16122 34 C - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 35 0.31542 2.85418 1.89013 2.78284 35 A - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 36 2.62823 3.30765 0.15984 3.24653 36 G - - < 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 37 2.67225 2.62566 3.19211 0.20159 37 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 38 2.67225 2.62566 3.19211 0.20159 38 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 39 2.67225 2.62566 3.19211 0.20159 39 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 40 2.92672 0.18590 3.50303 2.45383 40 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 41 0.14423 3.30556 3.02317 3.01628 41 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 42 2.67225 2.62566 3.19211 0.20159 42 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 43 0.14423 3.30556 3.02317 3.01628 43 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 44 2.76819 3.65521 0.13716 3.23050 44 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 45 2.67225 2.62566 3.19211 0.20159 45 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 46 0.14423 3.30556 3.02317 3.01628 46 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 47 2.67225 2.62566 3.19211 0.20159 47 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 48 2.67225 2.62566 3.19211 0.20159 48 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 49 2.67225 2.62566 3.19211 0.20159 49 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 50 2.67225 2.62566 3.19211 0.20159 50 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 51 3.44418 0.18978 3.14253 2.32526 51 C - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 52 3.00679 2.19165 2.66412 0.26246 52 U - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 53 2.43773 3.21289 0.19396 3.02183 53 G - - > 1.38629 1.38629 1.38629 1.38629 0.03843 3.97132 3.97132 1.46634 0.26236 1.09861 0.40547 54 2.43641 3.21104 0.19432 3.01963 54 G - - > 1.38629 1.38629 1.38629 1.38629 0.01940 3.95229 * 1.46634 0.26236 0.00000 * //