INFERNAL1/a [1.1.5 | Sep 2023] NAME veev_FSE ACC RF01841 DESC venezuelan equine encephalitis virus ribosomal frameshift element STATES 217 NODES 64 CLEN 71 W 87 ALPH RNA RF no CONS yes MAP yes DATE Fri Jul 12 14:05:34 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/RF01841/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 10 EFFN 1.782227 CKSUM 1064824264 NULL 0.000 0.000 0.000 0.000 GA 55.00 TC 85.40 NC 36.30 EFP7GF -7.3257 0.71892 ECMLC 0.54718 -10.04391 1.20852 1600000 566480 0.002118 ECMGC 0.43110 -17.50988 -4.64627 1600000 102435 0.003905 ECMLI 0.56242 -6.84220 3.02495 1600000 308525 0.003889 ECMGI 0.46040 -12.38270 -1.16606 1600000 69958 0.005718 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 87 106 -6.886 -7.093 -0.056 -5.507 IL 1 1 2 1 4 1 24 91 111 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 24 90 110 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - u - - - ML 3 2 3 5 3 1 24 87 106 -7.907 -0.021 -6.561 -0.659 0.407 -1.430 0.740 D 4 2 3 5 3 0 18 85 105 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 23 89 109 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - U - - - ML 6 5 3 8 3 1 23 86 105 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 7 5 3 8 3 0 18 84 104 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 22 88 108 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - G - - - ML 9 8 3 11 3 1 22 85 104 -7.907 -0.021 -6.561 -1.459 -2.659 1.694 -2.045 D 10 8 3 11 3 0 17 83 103 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 22 87 106 -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 22 83 103 -7.907 -0.021 -6.561 -0.662 0.473 -1.436 0.687 D 13 11 3 14 3 0 16 82 102 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 21 86 105 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - G - - - ML 15 14 3 17 3 1 21 82 102 -7.907 -0.021 -6.561 -0.242 -1.323 1.028 -0.484 D 16 14 3 17 3 0 15 81 101 -6.174 -1.687 -0.566 IL 17 17 3 17 3 1 20 84 104 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - U - - - ML 18 17 3 20 3 1 20 81 101 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 19 17 3 20 3 0 14 80 100 -6.174 -1.687 -0.566 IL 20 20 3 20 3 1 19 83 103 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - a - - - ML 21 20 3 23 3 1 19 80 100 -7.907 -0.021 -6.561 0.276 -0.435 0.091 -0.024 D 22 20 3 23 3 0 14 79 99 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 18 82 102 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - G - - - ML 24 23 3 26 3 1 18 79 99 -7.907 -0.021 -6.561 -0.649 -1.205 1.273 -0.966 D 25 23 3 26 3 0 13 78 98 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 18 81 101 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - U - - - ML 27 26 3 29 3 1 18 78 98 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 28 26 3 29 3 0 12 77 96 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 17 80 100 -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 17 77 97 -7.907 -0.021 -6.561 -0.812 -1.716 1.355 -0.817 D 31 29 3 32 3 0 11 76 95 -6.174 -1.687 -0.566 IL 32 32 3 32 3 1 16 79 99 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 11 ] 11 - C - - - ML 33 32 3 35 3 1 16 76 95 -7.907 -0.021 -6.561 -1.603 1.585 -2.422 -1.045 D 34 32 3 35 3 0 11 75 94 -6.174 -1.687 -0.566 IL 35 35 3 35 3 1 15 78 98 -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 15 75 94 -7.907 -0.021 -6.561 -1.603 1.585 -2.422 -1.045 D 37 35 3 38 3 0 10 74 93 -6.174 -1.687 -0.566 IL 38 38 3 38 3 1 14 77 97 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - U - - - ML 39 38 3 41 3 1 15 74 93 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 40 38 3 41 3 0 9 73 92 -6.174 -1.687 -0.566 IL 41 41 3 41 3 1 14 76 96 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - U - - - ML 42 41 3 44 3 1 14 73 92 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 43 41 3 44 3 0 8 72 91 -6.174 -1.687 -0.566 IL 44 44 3 44 3 1 13 75 95 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 15 - U - - - ML 45 44 3 47 3 1 13 72 91 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 46 44 3 47 3 0 7 70 90 -6.174 -1.687 -0.566 IL 47 47 3 47 3 1 12 74 94 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 16 - U - - - ML 48 47 3 50 3 1 12 71 90 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 49 47 3 50 3 0 7 69 89 -6.174 -1.687 -0.566 IL 50 50 3 50 3 1 11 73 92 -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 11 70 89 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 52 50 3 53 3 0 6 68 88 -6.174 -1.687 -0.566 IL 53 53 3 53 3 1 11 72 91 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 18 - U - - - ML 54 53 3 56 3 1 11 69 88 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 55 53 3 56 3 0 5 67 87 -6.174 -1.687 -0.566 IL 56 56 3 56 3 1 10 71 90 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 19 - A - - - ML 57 56 3 59 3 1 10 67 86 -7.907 -0.021 -6.561 1.693 -2.257 -1.900 -1.788 D 58 56 3 59 3 0 4 66 85 -6.174 -1.687 -0.566 IL 59 59 3 59 3 1 9 70 89 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 20 - G - - - ML 60 59 3 62 3 1 9 66 85 -7.907 -0.021 -6.561 -1.459 -2.659 1.694 -2.045 D 61 59 3 62 3 0 3 65 84 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 8 69 88 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 21 - U - - - ML 63 62 3 65 3 1 8 65 84 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 64 62 3 65 3 0 3 64 83 -6.174 -1.687 -0.566 IL 65 65 3 65 3 1 7 68 87 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 22 - c - - - ML 66 65 3 68 3 1 8 64 83 -7.907 -0.021 -6.561 -0.337 0.421 0.050 -0.262 D 67 65 3 68 3 0 2 63 82 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 7 67 86 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 23 - c - - - ML 69 68 3 71 3 1 7 63 82 -7.907 -0.021 -6.561 -0.103 0.437 -0.260 -0.184 D 70 68 3 71 3 0 1 62 81 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 6 66 85 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 24 - U - - - ML 72 71 3 74 3 1 6 62 81 -7.907 -0.021 -6.561 -1.381 -1.396 -2.109 1.587 D 73 71 3 74 3 0 1 61 80 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 5 64 84 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 25 - g - - - ML 75 74 3 77 3 1 5 61 79 -8.301 -0.019 -6.619 0.535 -1.385 0.669 -0.791 D 76 74 3 77 3 0 0 60 78 -5.620 -0.734 -1.403 IL 77 77 3 77 3 1 4 62 80 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 26 ] - 71 - C - - MR 78 77 3 80 3 1 5 60 78 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 79 77 3 80 3 0 0 58 77 -6.390 -1.568 -0.620 IR 80 80 3 80 3 1 3 61 79 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 27 ] - 70 - G - - MR 81 80 3 83 3 1 4 59 77 -8.301 -0.019 -6.619 -1.459 -2.659 1.694 -2.045 D 82 80 3 83 3 0 0 57 76 -6.390 -1.568 -0.620 IR 83 83 3 83 3 1 2 60 78 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 28 ] - 69 - U - - MR 84 83 3 86 3 1 3 58 76 -8.301 -0.019 -6.619 -1.381 -1.396 -2.109 1.587 D 85 83 3 86 3 0 0 56 75 -6.390 -1.568 -0.620 IR 86 86 3 86 3 1 2 59 77 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 29 ] - 68 - A - - MR 87 86 3 89 3 1 3 57 75 -8.301 -0.019 -6.619 1.693 -2.257 -1.900 -1.788 D 88 86 3 89 3 0 0 55 74 -6.390 -1.568 -0.620 IR 89 89 3 89 3 1 1 58 76 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 30 ] - 67 - G - - MR 90 89 3 92 3 1 3 56 74 -8.301 -0.019 -6.619 -1.459 -2.659 1.694 -2.045 D 91 89 3 92 3 0 0 54 73 -6.390 -1.568 -0.620 IR 92 92 3 92 3 1 1 57 75 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 31 ] - 66 - C - - MR 93 92 3 95 3 1 2 55 73 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 94 92 3 95 3 0 0 53 72 -6.390 -1.568 -0.620 IR 95 95 3 95 3 1 1 56 74 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 32 ] - 65 - A - - MR 96 95 3 98 3 1 2 54 72 -8.301 -0.019 -6.619 1.693 -2.257 -1.900 -1.788 D 97 95 3 98 3 0 0 52 71 -6.390 -1.568 -0.620 IR 98 98 3 98 3 1 1 55 73 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 33 ] - 64 - c - - MR 99 98 3 101 3 1 1 53 71 -8.301 -0.019 -6.619 -0.339 0.895 -1.375 -0.053 D 100 98 3 101 3 0 0 51 70 -6.390 -1.568 -0.620 IR 101 101 3 101 3 1 1 54 72 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 34 ] - 63 - C - - MR 102 101 3 104 3 1 1 52 70 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 103 101 3 104 3 0 0 50 69 -6.390 -1.568 -0.620 IR 104 104 3 104 3 1 1 53 71 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 35 ] - 62 - A - - MR 105 104 3 107 3 1 1 51 69 -8.301 -0.019 -6.619 1.693 -2.257 -1.900 -1.788 D 106 104 3 107 3 0 0 49 68 -6.390 -1.568 -0.620 IR 107 107 3 107 3 1 1 52 70 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 36 ] - 61 - G - - MR 108 107 3 110 3 1 1 50 68 -8.301 -0.019 -6.619 -0.005 -1.638 1.135 -1.040 D 109 107 3 110 3 0 0 48 67 -6.390 -1.568 -0.620 IR 110 110 3 110 3 1 1 51 69 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 37 ] - 60 - C - - MR 111 110 3 113 3 1 1 49 67 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 112 110 3 113 3 0 0 47 66 -6.390 -1.568 -0.620 IR 113 113 3 113 3 1 1 50 68 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 38 ] - 59 - G - - MR 114 113 3 116 3 1 1 48 66 -8.301 -0.019 -6.619 -1.459 -2.659 1.694 -2.045 D 115 113 3 116 3 0 0 46 65 -6.390 -1.568 -0.620 IR 116 116 3 116 3 1 1 49 67 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 39 ] - 58 - C - - MR 117 116 3 119 3 1 1 47 65 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 118 116 3 119 3 0 0 45 64 -6.390 -1.568 -0.620 IR 119 119 3 119 3 1 1 48 66 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 40 ] - 57 - A - - MR 120 119 3 122 3 1 1 46 64 -8.301 -0.019 -6.619 1.693 -2.257 -1.900 -1.788 D 121 119 3 122 3 0 0 44 63 -6.390 -1.568 -0.620 IR 122 122 3 122 3 1 1 47 65 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 41 ] - 56 - C - - MR 123 122 3 125 3 1 1 45 63 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 124 122 3 125 3 0 0 43 62 -6.390 -1.568 -0.620 IR 125 125 3 125 3 1 1 46 64 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 42 ] - 55 - G - - MR 126 125 3 128 3 1 1 44 62 -8.301 -0.019 -6.619 -0.070 -1.677 1.177 -1.080 D 127 125 3 128 3 0 0 42 61 -6.390 -1.568 -0.620 IR 128 128 3 128 3 1 1 45 63 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 43 ] - 54 - A - - MR 129 128 3 131 3 1 1 43 61 -8.301 -0.019 -6.619 1.693 -2.257 -1.900 -1.788 D 130 128 3 131 3 0 0 41 60 -6.390 -1.568 -0.620 IR 131 131 3 131 3 1 1 44 62 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 44 ] - 53 - G - - MR 132 131 3 134 3 1 1 42 60 -8.301 -0.019 -6.619 -1.459 -2.659 1.694 -2.045 D 133 131 3 134 3 0 0 40 59 -6.390 -1.568 -0.620 IR 134 134 3 134 3 1 1 43 61 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 45 ] - 52 - C - - MR 135 134 3 137 3 1 1 41 59 -8.301 -0.019 -6.619 -1.603 1.585 -2.422 -1.045 D 136 134 3 137 3 0 0 39 58 -6.390 -1.568 -0.620 IR 137 137 3 137 3 1 1 41 60 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 46 ] - 51 - A - - MR 138 137 3 140 3 1 1 40 58 -8.301 -0.019 -6.619 1.155 -1.135 -1.158 -0.201 D 139 137 3 140 3 0 0 38 57 -6.390 -1.568 -0.620 IR 140 140 3 140 3 1 1 40 59 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 47 ] - 50 - U - - MR 141 140 3 143 3 1 1 39 57 -8.301 -0.019 -6.619 -1.381 -1.396 -2.109 1.587 D 142 140 3 143 3 0 0 37 56 -6.390 -1.568 -0.620 IR 143 143 3 143 3 1 1 39 58 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 48 ] - 49 - c - - MR 144 143 3 146 3 1 1 38 56 -8.301 -0.084 -4.220 -0.018 0.485 -1.139 0.213 D 145 143 3 146 3 0 0 36 55 -6.390 -1.568 -0.620 IR 146 146 3 146 3 1 1 38 57 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 49 ] - 48 - C - - MR 147 146 3 149 3 1 1 37 55 -8.237 -0.020 -6.555 -1.440 1.532 -2.252 -0.916 D 148 146 3 149 3 0 0 35 54 -6.822 -2.000 -0.432 IR 149 149 3 149 3 1 1 37 56 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 50 ] - 47 - G - - MR 150 149 3 152 5 1 1 36 54 -6.984 -0.042 -6.800 -7.012 -7.903 -1.311 -2.487 1.653 -1.872 D 151 149 3 152 5 0 0 34 53 -5.610 -0.565 -3.236 -4.667 -2.662 IR 152 152 3 152 5 1 1 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 51 ] 26 46 G C - - MP 153 152 3 157 6 2 2 35 53 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -4.634 -3.043 -4.724 0.271 -5.081 -4.651 -0.472 -4.958 -4.256 3.611 -4.601 -0.738 -0.860 -4.397 -2.503 -3.602 ML 154 152 3 157 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 155 152 3 157 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 156 152 3 157 6 0 0 31 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 157 157 5 157 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 158 158 6 158 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 52 ] 27 45 C G - - MP 159 158 6 163 6 2 2 33 51 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -4.437 -4.333 -4.146 -0.575 -2.889 -4.572 3.515 -3.688 -4.191 -0.319 -4.464 -2.279 0.637 -4.514 -0.593 -3.035 ML 160 158 6 163 6 1 1 31 50 -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 31 50 -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 29 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 163 163 5 163 6 1 1 32 51 -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 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 53 ] 28 44 C G - - MP 165 164 6 169 6 2 2 31 49 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -3.176 -3.175 -0.352 0.234 -2.633 -3.931 3.113 -3.210 -3.268 0.474 -3.731 -1.376 0.899 -3.416 -0.480 -2.276 ML 166 164 6 169 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 167 164 6 169 6 1 1 29 48 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 168 164 6 169 6 0 0 27 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 169 169 5 169 6 1 1 30 49 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 170 170 6 170 5 1 1 30 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 54 ] 29 43 G C - - MP 171 170 6 175 6 2 2 29 47 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -4.634 -3.043 -4.724 0.271 -5.081 -4.651 -0.472 -4.958 -4.256 3.611 -4.601 -0.738 -0.860 -4.397 -2.503 -3.602 ML 172 170 6 175 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 173 170 6 175 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 174 170 6 175 6 0 0 25 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 175 175 5 175 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 176 176 6 176 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 55 ] 30 42 G C - - MP 177 176 6 181 6 2 2 27 45 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -3.981 -2.690 -4.019 0.775 -4.603 -4.482 -0.061 -4.359 -3.885 3.326 -4.280 0.631 -0.355 -3.945 -2.045 -2.921 ML 178 176 6 181 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 179 176 6 181 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 180 176 6 181 6 0 0 23 41 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 181 181 5 181 6 1 1 26 45 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 182 182 6 182 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 56 ] 31 41 C G - - MP 183 182 6 187 6 2 2 25 43 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -4.437 -4.333 -4.146 -0.575 -2.889 -4.572 3.515 -3.688 -4.191 -0.319 -4.464 -2.279 0.637 -4.514 -0.593 -3.035 ML 184 182 6 187 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 185 182 6 187 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 186 182 6 187 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 187 187 5 187 6 1 1 24 43 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 188 188 6 188 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 57 ] 32 40 G C - - MP 189 188 6 193 6 2 2 23 41 -9.084 -9.024 -0.021 -7.800 -8.080 -8.475 -4.634 -3.043 -4.724 0.271 -5.081 -4.651 -0.472 -4.958 -4.256 3.611 -4.601 -0.738 -0.860 -4.397 -2.503 -3.602 ML 190 188 6 193 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 191 188 6 193 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 192 188 6 193 6 0 0 19 38 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 193 193 5 193 6 1 1 22 41 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 194 194 6 194 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 58 ] 33 39 C G - - MP 195 194 6 199 6 2 2 21 39 -9.084 -9.024 -0.049 -5.429 -8.080 -8.475 -4.437 -4.333 -4.146 -0.575 -2.889 -4.572 3.515 -3.688 -4.191 -0.319 -4.464 -2.279 0.637 -4.514 -0.593 -3.035 ML 196 194 6 199 6 1 1 20 39 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 197 194 6 199 6 1 1 20 39 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 198 194 6 199 6 0 0 18 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 199 199 5 199 6 1 1 20 39 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 200 200 6 200 5 1 1 20 39 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 59 ] 34 38 C G - - MP 201 200 6 205 4 2 2 19 37 -6.812 -7.019 -0.059 -5.433 -3.530 -3.564 -3.469 0.001 0.117 -4.075 3.143 -3.250 -3.505 0.162 -3.910 -1.716 1.013 -3.718 -0.319 -2.446 ML 202 200 6 205 4 1 1 19 38 -4.000 -4.182 -0.416 -2.912 0.041 0.307 -0.650 0.134 MR 203 200 6 205 4 1 1 19 38 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 204 200 6 205 4 0 0 18 37 -4.568 -4.250 -2.265 -0.520 IL 205 205 5 205 4 1 1 21 40 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 206 206 6 206 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 60 ] 35 - G - - - ML 207 206 6 209 3 1 1 15 33 -7.907 -0.021 -6.561 -1.459 -2.659 1.694 -2.045 D 208 206 6 209 3 0 0 15 33 -6.174 -1.687 -0.566 IL 209 209 3 209 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 61 ] 36 - c - - - ML 210 209 3 212 3 1 1 13 32 -7.907 -0.021 -6.561 -0.754 0.859 -1.550 0.323 D 211 209 3 212 3 0 0 13 32 -6.174 -1.687 -0.566 IL 212 212 3 212 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 62 ] 37 - A - - - ML 213 212 3 215 2 1 1 1 1 * 0.000 1.338 -0.992 -1.279 -0.842 D 214 212 3 215 2 0 0 0 0 * 0.000 IL 215 215 3 215 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 63 ] - - - - - - E 216 215 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME veev_FSE ACC RF01841 DESC venezuelan equine encephalitis virus ribosomal frameshift element LENG 71 MAXL 158 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Fri Jul 12 14:05:34 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/RF01841/CM NSEQ 10 EFFN 2.065430 CKSUM 1064824264 STATS LOCAL MSV -8.4370 0.71892 STATS LOCAL VITERBI -9.1667 0.71892 STATS LOCAL FORWARD -3.4851 0.71892 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.66033 1.26828 1.26118 1.40533 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 0.00000 * 1 1.90335 1.07677 2.44477 0.85922 1 u - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 2 2.48180 2.46780 2.99358 0.24650 2 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 3 2.55717 3.41448 0.17521 2.98978 3 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 4 1.90539 1.02813 2.44968 0.89835 4 u - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 5 1.59142 2.36221 0.63386 1.76252 5 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 6 2.48180 2.46780 2.99358 0.24650 6 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 7 1.19828 1.69008 1.30372 1.41773 7 a - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 8 1.92014 2.27328 0.45494 2.15459 8 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 9 2.48180 2.46780 2.99358 0.24650 9 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 10 2.04102 2.67673 0.40209 2.02198 10 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 11 2.67941 0.23837 3.25281 2.25548 11 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 12 2.67941 0.23837 3.25281 2.25548 12 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 13 2.48180 2.46780 2.99358 0.24650 13 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 14 2.48180 2.46780 2.99358 0.24650 14 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 15 2.48180 2.46780 2.99358 0.24650 15 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 16 2.48180 2.46780 2.99358 0.24650 16 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 17 2.48180 2.46780 2.99358 0.24650 17 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 18 2.48180 2.46780 2.99358 0.24650 18 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 19 0.18006 3.10156 2.83928 2.79144 19 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 20 2.55717 3.41448 0.17521 2.98978 20 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 21 2.48180 2.46780 2.99358 0.24650 21 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 22 1.66691 1.05855 1.32978 1.61105 22 c - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 23 1.48219 1.05115 1.55896 1.54661 23 c - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 24 2.48180 2.46780 2.99358 0.24650 24 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 25 1.00621 2.41374 0.89115 2.00446 25 g - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 26 2.48461 3.08364 0.19597 3.01968 26 G - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 27 3.04438 0.27846 2.80867 2.00145 27 C - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 28 1.97241 0.55593 2.18081 1.74645 28 C - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 29 2.49489 3.09504 0.19337 3.03571 29 G - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 30 2.12155 2.77217 0.29195 2.64754 30 G - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 31 3.05355 0.27728 2.81284 2.00299 31 C - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 32 2.49539 3.09559 0.19324 3.03649 32 G - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 33 3.05325 0.27732 2.81271 2.00294 33 C - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 34 2.54705 0.44097 2.38238 1.68229 34 C - - < 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 35 2.55717 3.41448 0.17521 2.98978 35 G - - _ 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 36 1.98015 0.74895 2.54140 1.17011 36 c - - _ 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 37 0.42521 2.10712 2.34568 2.04794 37 A - - _ 1.38629 1.38629 1.38629 1.38629 0.09804 3.88987 2.61812 1.46634 0.26236 1.09861 0.40547 38 1.57363 2.55256 0.47650 2.36581 38 G - - > 1.38629 1.38629 1.38629 1.38629 0.04412 3.83595 3.83595 1.46634 0.26236 0.44512 1.02372 39 2.27796 2.97962 0.24000 2.81231 39 G - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 40 3.24338 0.22764 2.92803 2.19775 40 C - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 41 2.27835 2.98012 0.23987 2.81293 41 G - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 42 2.87424 0.42059 2.59023 1.55175 42 C - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 43 3.24607 0.22736 2.92918 2.19827 43 C - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 44 1.99223 2.34639 0.41945 2.20289 44 G - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 45 2.27981 2.98201 0.23938 2.81529 45 G - - > 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 46 3.25114 0.22683 2.93133 2.19925 46 C - - > 1.38629 1.38629 1.38629 1.38629 0.09804 3.88987 2.61812 1.46634 0.26236 1.09861 0.40547 47 2.44728 3.28757 0.19968 2.86233 47 G - - : 1.38629 1.38629 1.38629 1.38629 0.04412 3.83595 3.83595 1.46634 0.26236 1.71687 0.19800 48 2.55394 0.27129 3.12369 2.15556 48 C - - : 1.38629 1.38629 1.38629 1.38629 0.04412 3.83595 3.83595 1.46634 0.26236 0.44512 1.02372 49 1.41346 1.01776 2.22185 1.24867 49 c - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 50 2.48180 2.46780 2.99358 0.24650 50 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 51 0.55682 2.22291 2.24508 1.54759 51 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 52 2.67941 0.23837 3.25281 2.25548 52 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 53 2.55717 3.41448 0.17521 2.98978 53 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 54 0.18006 3.10156 2.83928 2.79144 54 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 55 1.46180 2.63652 0.52965 2.22781 55 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 56 2.67941 0.23837 3.25281 2.25548 56 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 57 0.18006 3.10156 2.83928 2.79144 57 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 58 2.67941 0.23837 3.25281 2.25548 58 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 59 2.55717 3.41448 0.17521 2.98978 59 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 60 2.67941 0.23837 3.25281 2.25548 60 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 61 1.41203 2.60642 0.55954 2.19746 61 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 62 0.18006 3.10156 2.83928 2.79144 62 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 63 2.67941 0.23837 3.25281 2.25548 63 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 64 1.66081 0.72176 2.40907 1.45150 64 c - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 65 0.18006 3.10156 2.83928 2.79144 65 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 66 2.67941 0.23837 3.25281 2.25548 66 C - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 67 2.55717 3.41448 0.17521 2.98978 67 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 68 0.18006 3.10156 2.83928 2.79144 68 A - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 69 2.48180 2.46780 2.99358 0.24650 69 U - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 70 2.55717 3.41448 0.17521 2.98978 70 G - - : 1.38629 1.38629 1.38629 1.38629 0.04176 3.88987 3.88987 1.46634 0.26236 1.09861 0.40547 71 2.67941 0.23837 3.25281 2.25548 71 C - - : 1.38629 1.38629 1.38629 1.38629 0.02110 3.86921 * 1.46634 0.26236 0.00000 * //