INFERNAL1/a [1.1.5 | Sep 2023] NAME Tombus_3_III ACC RF00215 DESC Tombus virus defective interfering (DI) RNA region 3 STATES 219 NODES 62 CLEN 70 W 85 ALPH RNA RF no CONS yes MAP yes DATE Mon Jul 8 02:30:16 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/RF00215/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 28 EFFN 3.783691 CKSUM 928879128 NULL 0.000 0.000 0.000 0.000 GA 35.00 TC 35.10 NC 34.40 EFP7GF -10.3426 0.71892 ECMLC 0.59486 -9.77112 0.82938 1600000 657277 0.001826 ECMGC 0.39582 -17.47847 -3.64402 1600000 95554 0.004186 ECMLI 0.56038 -8.93624 1.75596 1600000 480123 0.002499 ECMGI 0.41235 -13.42172 -0.84492 1600000 71504 0.005594 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 0 1 85 105 -7.558 -7.765 -0.035 -6.179 IL 1 1 2 1 4 2 27 89 110 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 2 27 89 109 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - A - - - ML 3 2 3 5 3 3 26 86 105 -8.539 -0.014 -7.193 1.555 -1.830 -1.137 -1.620 D 4 2 3 5 3 0 22 84 104 -6.174 -1.687 -0.566 IL 5 5 3 5 3 2 26 87 108 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - G - - - ML 6 5 3 8 3 2 25 84 104 -8.539 -0.014 -7.193 -1.572 -1.914 1.660 -2.066 D 7 5 3 8 3 0 21 83 103 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 25 86 106 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - C - - - ML 9 8 3 11 3 2 24 83 103 -8.539 -0.014 -7.193 -0.890 1.415 -2.306 -0.758 D 10 8 3 11 3 0 20 82 102 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 24 85 105 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - G - - - ML 12 11 3 14 3 2 23 82 102 -8.539 -0.014 -7.193 -0.893 -1.282 1.267 -0.636 D 13 11 3 14 3 0 20 81 101 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 23 84 104 -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 22 81 101 -8.539 -0.050 -5.009 1.665 -1.649 -2.123 -1.831 D 16 14 3 17 3 0 19 80 100 -6.174 -1.687 -0.566 IL 17 17 3 17 3 1 22 83 103 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - G - - - ML 18 17 3 20 3 2 22 80 100 -8.503 -0.014 -7.157 -1.774 -2.807 1.701 -1.669 D 19 17 3 20 3 0 19 79 99 -6.589 -1.050 -0.981 IL 20 20 3 20 3 1 22 82 102 -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 21 79 99 -8.539 -0.014 -7.193 -1.080 -1.436 -1.468 1.483 D 22 20 3 23 3 0 18 78 98 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 21 81 101 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - A - - - ML 24 23 3 26 3 1 20 78 98 -8.539 -0.014 -7.193 1.880 -3.519 -3.045 -3.178 D 25 23 3 26 3 0 17 77 97 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 20 80 100 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - A - - - ML 27 26 3 29 3 1 19 77 97 -8.539 -0.014 -7.193 1.188 -1.167 -0.360 -1.010 D 28 26 3 29 3 0 17 76 96 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 19 79 99 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 10 ] 10 - G - - - ML 30 29 3 32 3 1 18 76 96 -8.898 -0.013 -7.215 -1.842 -2.884 1.716 -1.730 D 31 29 3 32 3 0 16 75 95 -5.620 -0.734 -1.403 IL 32 32 3 32 3 1 18 77 97 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 72 - A - - MR 33 32 3 35 2 1 17 75 95 -9.023 -0.003 1.605 -2.071 -1.567 -1.387 D 34 32 3 35 2 0 16 74 94 -4.432 -0.068 IR 35 35 3 35 2 1 17 76 96 -1.823 -0.479 0.000 0.000 0.000 0.000 [ BIF 12 ] - - - - - - B 36 35 3 37 111 0 16 74 94 [ BEGL 13 ] - - - - - - S 37 36 1 38 4 0 0 38 56 -0.035 -7.174 -6.581 -7.221 [ MATP 14 ] 11 34 a u - - MP 38 37 1 42 6 2 2 38 56 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -1.194 0.711 -2.181 2.018 -2.207 -2.958 1.103 -1.132 -2.192 1.167 -2.709 -0.287 0.940 -2.299 -0.388 -1.384 ML 39 37 1 42 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 40 37 1 42 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 41 37 1 42 6 0 0 34 53 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 42 42 5 42 6 1 1 37 56 -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 37 56 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 12 33 C G - - MP 44 43 6 48 6 2 2 36 54 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -5.828 -5.868 -5.402 -2.052 -1.717 -5.704 3.805 -4.972 -5.545 -1.912 -5.641 -3.902 -0.616 -5.872 -1.833 -4.374 ML 45 43 6 48 6 1 1 34 53 -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 34 53 -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 32 50 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 48 48 5 48 6 1 1 35 54 -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 35 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 13 32 a u - - MP 50 49 6 54 6 2 2 34 52 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -0.404 -0.260 -0.099 1.851 -1.976 -2.815 1.214 -2.312 -2.031 1.106 -2.597 -0.451 1.090 -2.100 -0.211 -1.212 ML 51 49 6 54 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 52 49 6 54 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 53 49 6 54 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 54 54 5 54 6 1 1 33 52 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 55 55 6 55 5 1 1 33 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 14 31 g u - - MP 56 55 6 60 6 2 2 32 50 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -3.301 -1.539 -4.141 0.661 -4.844 -3.737 -0.305 -3.778 -3.033 1.350 0.614 2.950 -0.853 -3.928 -2.285 -2.563 ML 57 55 6 60 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 58 55 6 60 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 59 55 6 60 6 0 0 28 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 60 60 5 60 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 61 61 6 61 5 1 1 31 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 15 30 A U - - MP 62 61 6 66 6 2 2 30 48 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -2.429 -3.479 -2.211 3.563 -3.939 -4.726 -0.427 -3.900 -3.884 0.174 -4.429 -1.221 -0.608 -3.990 -2.018 -2.877 ML 63 61 6 66 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 64 61 6 66 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 65 61 6 66 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 66 66 5 66 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 67 67 6 67 5 1 1 29 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 19 ] 16 29 C G - - MP 68 67 6 72 6 2 2 28 46 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -4.403 -4.423 -4.173 -0.735 -2.965 -4.634 3.207 1.410 -4.204 -0.614 -4.530 -2.501 0.553 -4.506 -0.666 -3.081 ML 69 67 6 72 6 1 1 26 45 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 70 67 6 72 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 71 67 6 72 6 0 0 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 72 72 5 72 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 73 73 6 73 5 1 1 27 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 17 28 U A - - MP 74 73 6 78 6 2 2 26 44 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -4.485 -4.486 -4.275 -0.727 -3.072 -4.762 1.270 -3.835 -4.294 -0.569 -4.638 -2.506 3.250 -4.588 1.004 -3.132 ML 75 73 6 78 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 76 73 6 78 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 77 73 6 78 6 0 0 24 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 78 78 5 78 6 1 1 26 44 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 79 79 6 79 5 1 1 25 44 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 21 ] 18 27 C G - - MP 80 79 6 84 4 2 2 24 42 -7.558 -7.765 -0.073 -4.672 -4.450 -4.494 -4.238 -0.759 0.624 -4.714 3.352 -3.813 -4.270 -0.631 -4.600 -2.567 0.531 -4.557 -0.157 -3.139 ML 81 79 6 84 4 1 1 25 44 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 82 79 6 84 4 1 1 24 43 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 83 79 6 84 4 0 0 23 42 -4.568 -4.250 -2.265 -0.520 IL 84 84 5 84 4 1 1 26 45 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 85 85 6 85 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 19 - U - - - ML 86 85 6 88 3 1 1 21 39 -8.503 -0.014 -7.157 -2.511 -2.337 -3.280 1.817 D 87 85 6 88 3 0 0 20 39 -6.589 -2.102 -0.402 IL 88 88 3 88 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 20 - U - - - ML 89 88 3 91 3 1 1 20 38 -8.503 -0.014 -7.157 -2.511 -2.337 -3.280 1.817 D 90 88 3 91 3 0 0 19 38 -6.589 -1.050 -0.981 IL 91 91 3 91 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 21 - C - - - ML 92 91 3 94 3 1 1 18 37 -8.539 -0.014 -7.193 -3.114 1.853 -3.911 -2.278 D 93 91 3 94 3 0 0 18 37 -6.174 -1.687 -0.566 IL 94 94 3 94 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 22 - A - - - ML 95 94 3 97 3 1 1 17 36 -8.539 -0.014 -7.193 1.540 -1.897 -1.913 -0.842 D 96 94 3 97 3 0 0 17 35 -6.174 -1.687 -0.566 IL 97 97 3 97 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 23 - G - - - ML 98 97 3 100 3 1 1 16 34 -8.539 -0.014 -7.193 -2.727 -4.090 1.887 -3.458 D 99 97 3 100 3 0 0 16 34 -6.174 -1.687 -0.566 IL 100 100 3 100 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 24 - U - - - ML 101 100 3 103 3 1 1 14 33 -8.539 -0.014 -7.193 -2.028 -1.565 -2.776 1.710 D 102 100 3 103 3 0 0 15 33 -6.174 -1.687 -0.566 IL 103 103 3 103 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 25 - C - - - ML 104 103 3 106 3 1 1 13 31 -8.539 -0.014 -7.193 -3.114 1.853 -3.911 -2.278 D 105 103 3 106 3 0 0 13 32 -6.174 -1.687 -0.566 IL 106 106 3 106 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 26 - U - - - ML 107 106 3 109 2 1 1 1 1 * 0.000 -2.577 -2.393 -3.348 1.825 D 108 106 3 109 2 0 0 0 0 * 0.000 IL 109 109 3 109 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 30 ] - - - - - - E 110 109 3 -1 0 0 0 0 0 [ BEGR 31 ] - - - - - - S 111 36 1 112 3 0 2 50 69 -8.539 -0.014 -7.193 IL 112 112 2 112 3 1 1 53 72 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 35 - G - - - ML 113 112 2 115 3 1 2 50 69 -8.539 -0.014 -7.193 -1.425 -1.989 1.615 -1.682 D 114 112 2 115 3 0 0 48 68 -6.174 -1.687 -0.566 IL 115 115 3 115 3 1 1 52 71 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 36 - G - - - ML 116 115 3 118 3 1 2 48 68 -8.539 -0.014 -7.193 -1.888 -3.535 1.814 -2.960 D 117 115 3 118 3 0 0 47 67 -6.174 -1.687 -0.566 IL 118 118 3 118 3 1 1 51 70 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 37 - A - - - ML 119 118 3 121 3 1 2 47 67 -8.539 -0.014 -7.193 1.880 -3.519 -3.045 -3.178 D 120 118 3 121 3 0 0 46 66 -6.174 -1.687 -0.566 IL 121 121 3 121 3 1 1 50 69 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 38 - a - - - ML 122 121 3 124 3 1 1 46 66 -8.539 -0.014 -7.193 0.869 -1.364 0.071 -0.444 D 123 121 3 124 3 0 0 45 64 -6.174 -1.687 -0.566 IL 124 124 3 124 3 1 1 49 68 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 36 ] 39 - A - - - ML 125 124 3 127 3 1 1 45 64 -8.539 -0.014 -7.193 1.055 -1.982 0.379 -1.442 D 126 124 3 127 3 0 0 44 63 -6.174 -1.687 -0.566 IL 127 127 3 127 3 1 1 48 67 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 40 - c - - - ML 128 127 3 130 3 1 1 44 63 -8.539 -0.014 -7.193 -1.265 0.874 -2.121 0.605 D 129 127 3 130 3 0 0 43 62 -6.174 -1.687 -0.566 IL 130 130 3 130 3 1 1 47 66 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 41 - G - - - ML 131 130 3 133 3 1 1 43 62 -8.539 -0.014 -7.193 0.401 -2.105 1.074 -1.550 D 132 130 3 133 3 0 0 42 61 -6.174 -1.687 -0.566 IL 133 133 3 133 3 1 1 46 65 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 42 - A - - - ML 134 133 3 136 3 1 1 42 61 -8.539 -0.014 -7.193 1.489 -2.199 -0.561 -1.745 D 135 133 3 136 3 0 0 41 60 -6.174 -1.687 -0.566 IL 136 136 3 136 3 1 1 45 64 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 40 ] 43 - G - - - ML 137 136 3 139 3 1 1 41 60 -8.539 -0.014 -7.193 -2.727 -4.090 1.887 -3.458 D 138 136 3 139 3 0 0 40 59 -6.174 -1.687 -0.566 IL 139 139 3 139 3 1 1 44 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 41 ] 44 - U - - - ML 140 139 3 142 3 1 1 40 59 -8.539 -0.014 -7.193 -0.218 -0.806 -1.576 1.159 D 141 139 3 142 3 0 0 39 58 -6.174 -1.687 -0.566 IL 142 142 3 142 3 1 1 42 62 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 42 ] 45 - G - - - ML 143 142 3 145 3 1 1 39 58 -8.539 -0.014 -7.193 -0.282 -2.445 1.447 -1.903 D 144 142 3 145 3 0 0 38 57 -6.174 -1.687 -0.566 IL 145 145 3 145 3 1 1 41 61 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 43 ] 46 - u - - - ML 146 145 3 148 3 1 1 38 57 -8.539 -0.049 -5.013 -0.001 -0.454 -1.000 0.824 D 147 145 3 148 3 0 0 37 56 -6.174 -1.687 -0.566 IL 148 148 3 148 3 1 1 40 60 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 47 - A - - - ML 149 148 3 151 5 1 1 37 56 -4.601 -0.082 -7.389 -7.602 -8.493 1.172 -1.364 -0.790 -0.358 D 150 148 3 151 5 0 0 35 54 -5.207 -0.643 -4.468 -2.843 -2.756 IL 151 151 3 151 5 1 1 37 56 -1.961 -0.593 -4.445 -6.277 -5.551 0.000 0.000 0.000 0.000 [ MATP 45 ] 50 71 a u - - MP 152 151 3 156 6 2 2 36 55 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -2.691 -2.636 -2.811 2.816 -2.722 -3.680 1.197 -1.004 -2.893 0.930 -3.434 -0.865 0.706 -2.982 -0.726 -1.205 ML 153 151 3 156 6 1 1 34 53 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 154 151 3 156 6 1 1 34 53 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 155 151 3 156 6 0 0 32 51 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 156 156 5 156 6 1 1 35 54 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 157 157 6 157 5 1 1 35 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 46 ] 51 70 A U - - MP 158 157 6 162 6 2 2 34 53 -9.372 -9.311 -0.090 -8.087 -4.280 -8.762 -2.013 -3.313 -3.346 3.504 -3.498 -4.354 -0.071 -2.724 -3.551 0.044 -4.105 -1.604 -0.258 -3.638 -1.631 -2.148 ML 159 157 6 162 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 160 157 6 162 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 161 157 6 162 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 162 162 5 162 6 1 1 33 52 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 163 163 6 163 5 1 1 33 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 47 ] 52 69 c g - - MP 164 163 6 168 6 2 2 32 51 -9.300 -9.239 -0.018 -8.016 -8.296 -8.691 -2.299 -2.440 -1.085 0.705 -2.177 -3.259 2.003 -2.633 -2.497 0.714 -1.914 -0.905 1.186 -2.604 1.861 -1.614 ML 165 163 6 168 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 166 163 6 168 6 1 1 30 49 -7.729 -6.458 -0.747 -6.436 -1.570 -4.650 -0.262 -1.214 1.060 -0.622 D 167 163 6 168 6 0 0 28 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 168 168 5 168 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 169 169 6 169 5 1 1 31 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 48 ] 53 68 C G - - MP 170 169 6 174 6 2 2 30 49 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -3.856 -3.873 -3.813 -0.263 -2.905 -4.443 3.280 -3.583 -3.830 -0.126 -1.155 -1.981 0.739 -4.053 0.504 -2.763 ML 171 169 6 174 6 1 1 29 48 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 172 169 6 174 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 173 169 6 174 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 174 174 5 174 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 175 175 6 175 5 1 1 29 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 49 ] 54 67 u a - - MP 176 175 6 180 6 2 2 28 47 -9.372 -9.311 -0.018 -8.087 -8.367 -8.762 -2.853 -2.879 -2.970 0.589 -2.489 -3.788 1.637 -2.998 -1.943 1.015 -3.516 -1.056 2.499 -3.130 0.801 -1.994 ML 177 175 6 180 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 178 175 6 180 6 1 1 27 46 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 179 175 6 180 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 180 180 5 180 6 1 1 28 47 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 181 181 6 181 5 1 1 27 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 50 ] 55 66 G C - - MP 182 181 6 186 4 2 2 26 45 -7.558 -7.765 -0.312 -2.438 -3.684 -1.600 -3.591 1.416 -4.330 -4.221 0.616 -4.144 -3.886 3.063 -4.213 0.145 -0.005 -3.503 -1.691 -2.575 ML 183 181 6 186 4 1 1 27 46 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 184 181 6 186 4 1 1 26 45 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 185 181 6 186 4 0 0 25 44 -4.568 -4.250 -2.265 -0.520 IL 186 186 5 186 4 1 1 28 47 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 187 187 6 187 3 1 1 27 46 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 51 ] 56 - g - - - ML 188 187 6 190 3 1 1 23 42 -8.283 -0.085 -4.204 0.166 -0.667 0.454 -0.187 D 189 187 6 190 3 0 0 22 41 -7.869 -0.816 -1.226 IL 190 190 3 190 3 1 1 26 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 52 ] 57 - c - - - ML 191 190 3 193 3 1 1 22 41 -8.402 -0.015 -7.056 -0.670 0.749 -0.742 0.129 D 192 190 3 193 3 0 0 21 39 -7.338 -2.851 -0.226 IL 193 193 3 193 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 53 ] 58 - A - - - ML 194 193 3 196 3 1 1 21 39 -8.402 -0.015 -7.056 1.312 -1.471 -1.537 -0.302 D 195 193 3 196 3 0 0 20 39 -7.338 -0.531 -1.729 IL 196 196 3 196 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 54 ] 59 - u - - - ML 197 196 3 199 3 1 1 20 38 -8.539 -0.014 -7.193 -0.223 -1.084 -0.352 0.917 D 198 196 3 199 3 0 0 19 38 -6.174 -1.687 -0.566 IL 199 199 3 199 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 55 ] 60 - A - - - ML 200 199 3 202 3 1 1 18 37 -8.539 -0.014 -7.193 1.056 -0.695 -1.008 -0.311 D 201 199 3 202 3 0 0 18 37 -6.174 -1.687 -0.566 IL 202 202 3 202 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 56 ] 61 - G - - - ML 203 202 3 205 3 1 1 17 36 -8.539 -0.014 -7.193 -2.727 -4.090 1.887 -3.458 D 204 202 3 205 3 0 0 17 35 -6.174 -1.687 -0.566 IL 205 205 3 205 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 57 ] 62 - c - - - ML 206 205 3 208 3 1 1 16 34 -8.539 -0.014 -7.193 -0.354 0.979 -1.070 -0.378 D 207 205 3 208 3 0 0 16 34 -6.174 -1.687 -0.566 IL 208 208 3 208 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 58 ] 63 - A - - - ML 209 208 3 211 3 1 1 14 33 -8.539 -0.014 -7.193 1.267 -0.864 -0.893 -0.985 D 210 208 3 211 3 0 0 15 33 -6.174 -1.687 -0.566 IL 211 211 3 211 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 59 ] 64 - U - - - ML 212 211 3 214 3 1 1 13 31 -8.539 -0.014 -7.193 -2.577 -2.393 -3.348 1.825 D 213 211 3 214 3 0 0 13 32 -6.174 -1.687 -0.566 IL 214 214 3 214 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 60 ] 65 - A - - - ML 215 214 3 217 2 1 1 1 1 * 0.000 1.388 -2.106 -0.276 -1.623 D 216 214 3 217 2 0 0 0 0 * 0.000 IL 217 217 3 217 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 61 ] - - - - - - E 218 217 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME Tombus_3_III ACC RF00215 DESC Tombus virus defective interfering (DI) RNA region 3 LENG 70 MAXL 148 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon Jul 8 02:30:16 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/RF00215/CM NSEQ 28 EFFN 5.000488 CKSUM 928879128 STATS LOCAL MSV -7.9297 0.71892 STATS LOCAL VITERBI -8.8625 0.71892 STATS LOCAL FORWARD -3.8325 0.71892 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.28506 1.68263 1.25297 1.37902 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 0.00000 * 1 0.26445 2.78941 2.24184 2.73872 1 A - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 2 2.72180 2.78999 0.18958 3.08979 2 G - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 3 2.11358 0.33976 3.23652 2.05611 3 C - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 4 2.16933 2.36018 0.44001 1.91522 4 G - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 5 0.18963 2.61496 3.09688 2.91193 5 A - - : 1.38629 1.38629 1.38629 1.38629 0.05338 4.33123 3.24858 1.46634 0.26236 1.09861 0.40547 6 2.87185 3.60325 0.16687 2.66130 6 G - - : 1.38629 1.38629 1.38629 1.38629 0.02737 4.30522 4.30522 1.46634 0.26236 0.51724 0.90675 7 2.30559 2.57405 2.50483 0.29789 7 U - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 8 0.05730 4.18389 3.83095 3.97589 8 A - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 9 0.51193 2.27023 1.64267 2.26424 9 A - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 10 2.92086 3.65825 0.15880 2.70050 10 G - - : 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 11 0.74496 1.80322 1.67039 1.75847 11 a - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 12 4.30191 0.07587 4.16878 3.12243 12 C - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 13 0.81022 1.81739 1.66830 1.58854 13 a - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 14 2.23100 3.18591 0.21089 3.18513 14 G - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 15 0.16234 3.35024 2.63302 3.14870 15 A - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 16 3.40581 0.20126 3.24027 2.20760 16 C - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 17 3.34397 1.98848 3.15913 0.24164 17 U - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 18 3.33891 0.24086 3.16419 1.99272 18 C - - < 1.38629 1.38629 1.38629 1.38629 0.05338 4.33123 3.24858 1.46634 0.26236 1.09861 0.40547 19 3.47699 3.30499 4.01748 0.08949 19 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02737 4.30522 4.30522 1.46634 0.26236 1.59990 0.22554 20 3.47699 3.30499 4.01748 0.08949 20 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02737 4.30522 4.30522 1.46634 0.26236 0.51724 0.90675 21 3.94045 0.06982 4.44966 3.31541 21 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 22 0.27033 2.89844 2.93062 2.05261 22 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 23 3.60529 4.58091 0.05517 4.11982 23 G - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 24 3.06032 2.61707 3.57876 0.15993 24 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 25 3.94045 0.06982 4.44966 3.31541 25 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 26 3.52333 3.34510 4.06463 0.08548 26 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 27 1.63640 3.32256 0.32243 3.10388 27 G - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 28 0.42697 3.32141 1.32218 3.10423 28 A - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 29 2.49457 3.40266 0.42573 1.46580 29 G - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 30 3.17412 2.92958 2.95533 0.15936 30 U - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 31 3.34837 1.84218 1.85004 0.43208 31 U - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 32 1.59064 1.57213 1.35132 1.10956 32 u - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 33 3.00598 4.29878 0.08341 4.07744 33 G - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 34 1.86393 1.28597 1.75882 0.92556 34 u - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 35 2.56648 2.85942 0.22352 2.71515 35 G - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 36 2.88350 4.13666 0.10064 3.73694 36 G - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 37 0.05730 4.18389 3.83095 3.97590 37 A - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 38 0.74862 2.45858 1.31264 1.75842 38 a - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 39 0.60941 3.02021 1.08410 2.66885 39 A - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 40 2.47551 0.72033 3.09411 0.95719 40 c - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 41 1.09753 3.08316 0.58958 2.71910 41 G - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 42 0.31049 3.16439 1.77864 2.88595 42 A - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 43 3.60529 4.58091 0.05517 4.11982 43 G - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 44 1.57066 2.02063 2.62133 0.53305 44 U - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 45 1.62378 3.31573 0.33595 2.95878 45 G - - - 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 46 1.39530 1.72419 2.12212 0.78934 46 u - - - 1.38629 1.38629 1.38629 1.38629 0.05329 4.33123 3.25068 1.46634 0.26236 1.09861 0.40547 47 0.52659 2.46064 1.98124 1.68145 47 A - - - 1.38629 1.38629 1.38629 1.38629 0.07152 2.89091 4.30530 0.86582 0.54595 0.51809 0.90550 48 0.67824 1.67919 1.92064 1.83601 50 A - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 49 0.19851 2.93525 2.74677 2.76783 51 A - - < 1.38629 1.38629 1.38629 1.38629 0.13597 4.33123 2.17175 1.46634 0.26236 1.09861 0.40547 50 1.95601 1.25837 1.95654 0.83675 52 u - - < 1.38629 1.38629 1.38629 1.38629 0.02969 4.22495 4.22495 1.46634 0.26236 0.20764 1.67398 51 2.98224 0.41254 2.37374 1.63875 53 C - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 52 2.22973 1.60867 1.78023 0.64686 54 U - - < 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 53 1.61668 2.29926 0.48917 2.43068 55 G - - < 1.38629 1.38629 1.38629 1.38629 0.22143 4.33123 1.68482 1.46634 0.26236 1.09861 0.40547 54 1.28952 1.87329 1.01812 1.56205 56 g - - _ 1.38629 1.38629 1.38629 1.38629 0.08475 4.14210 2.72771 1.46634 0.26236 0.48119 0.96246 55 1.97796 0.79820 1.92398 1.32620 57 c - - _ 1.38629 1.38629 1.38629 1.38629 0.02951 4.23082 4.23082 1.46634 0.26236 2.32871 0.10250 56 0.42212 2.56214 2.62079 1.63753 58 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02951 4.23082 4.23082 1.46634 0.26236 0.21672 1.63556 57 1.58456 2.24759 1.62131 0.70995 59 u - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 58 0.60963 1.89655 2.15700 1.65710 60 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 59 3.60529 4.58091 0.05517 4.11982 61 G - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 60 1.69499 0.63874 2.18611 1.73677 62 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 61 0.45444 2.01731 2.06840 2.24623 63 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 62 3.52333 3.34510 4.06463 0.08548 64 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 63 0.37815 3.10318 1.56444 2.80088 65 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 64 2.67465 0.56962 2.14785 1.39194 66 C - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 65 0.86670 1.98110 1.17645 2.01460 67 a - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 66 2.25444 2.92140 0.25508 2.71279 68 G - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 67 1.83964 2.22985 0.52028 1.97165 69 G - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 68 2.86289 2.93648 2.82436 0.18573 70 U - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 69 2.15695 2.09327 1.70273 0.54671 71 U - - > 1.38629 1.38629 1.38629 1.38629 0.02665 4.33123 4.33123 1.46634 0.26236 1.09861 0.40547 70 0.23187 3.00578 2.59630 2.49008 72 A - - : 1.38629 1.38629 1.38629 1.38629 0.01342 4.31800 * 1.46634 0.26236 0.00000 * //