INFERNAL1/a [1.1.5 | Sep 2023] NAME SAM_VI ACC RF02885 DESC SAM-VI (S-adenosyl methionine) riboswitch aptamer STATES 204 NODES 49 CLEN 65 W 139 ALPH RNA RF no CONS yes MAP yes DATE Sun Jul 7 12:18:05 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/RF02885/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 7 EFFN 1.835449 CKSUM 2062189920 NULL 0.000 0.000 0.000 0.000 GA 57.50 TC 62.30 NC 57.10 EFP7GF -8.9703 0.71930 ECMLC 0.64348 -5.46963 3.49037 1600000 382952 0.003134 ECMGC 0.44114 -15.05437 -2.30871 1600000 110647 0.003615 ECMLI 0.60861 -4.55233 4.45548 1600000 288459 0.004160 ECMGI 0.49597 -9.40908 1.04089 1600000 71279 0.005612 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 0 1 139 228 -6.828 -8.074 -0.083 -4.527 IL 1 1 2 1 4 1 16 141 229 -2.817 -4.319 -0.613 -2.698 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 17 141 229 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 1 ] - 95 - C - - MR 3 2 3 5 3 1 18 140 228 -8.321 -0.019 -6.639 -1.654 1.600 -2.475 -1.085 D 4 2 3 5 3 0 11 137 226 -6.390 -1.568 -0.620 IR 5 5 3 5 3 1 16 140 228 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 94 - A - - MR 6 5 3 8 5 1 18 139 227 -7.062 -0.040 -6.877 -7.089 -7.981 1.703 -2.299 -1.938 -1.834 D 7 5 3 8 5 0 11 137 225 -5.352 -0.707 -2.978 -4.409 -2.404 IR 8 8 3 8 5 1 15 139 227 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 3 ] 1 93 C G - - MP 9 8 3 13 6 2 19 138 226 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 10 8 3 13 6 1 12 135 224 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 11 8 3 13 6 1 12 135 223 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 12 8 3 13 6 0 8 130 219 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 13 13 5 13 6 1 14 137 225 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 14 14 6 14 5 1 14 137 225 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 4 ] 2 92 G U - - MP 15 14 6 19 6 2 18 136 224 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -3.571 -2.358 -3.735 1.161 -4.414 -5.138 -0.028 -3.764 -3.409 1.418 -3.927 3.035 -0.388 -4.356 -1.970 -2.444 ML 16 14 6 19 6 1 12 133 222 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 17 14 6 19 6 1 12 133 221 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 18 14 6 19 6 0 7 129 217 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 14 135 223 -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 14 135 223 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 3 91 U A - - MP 21 20 6 25 6 2 18 134 222 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.118 -3.941 -3.964 -0.241 -2.922 -4.535 1.405 -3.612 -3.969 0.024 -4.346 -1.842 3.292 -4.272 -0.599 -2.801 ML 22 20 6 25 6 1 12 131 220 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 23 20 6 25 6 1 11 131 219 -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 7 127 215 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 13 133 221 -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 13 133 221 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 6 ] 4 90 A U - - MP 27 26 6 31 6 2 17 132 220 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -3.734 -2.781 -3.757 3.294 -4.067 -5.124 0.229 -3.803 -3.651 1.140 -4.196 -0.266 -0.188 -4.321 -1.712 -2.594 ML 28 26 6 31 6 1 11 130 218 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 29 26 6 31 6 1 11 129 217 -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 7 125 213 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 31 31 5 31 6 1 13 131 219 -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 13 131 219 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 7 ] 5 89 U A - - MP 33 32 6 37 6 2 15 130 218 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.118 -3.941 -3.964 -0.241 -2.922 -4.535 1.405 -3.612 -3.969 0.024 -4.346 -1.842 3.292 -4.272 -0.599 -2.801 ML 34 32 6 37 6 1 11 128 216 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 35 32 6 37 6 1 11 127 216 -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 6 123 212 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 37 37 5 37 6 1 12 129 217 -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 12 129 217 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 8 ] 6 88 C G - - MP 39 38 6 43 6 2 14 128 216 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 40 38 6 43 6 1 10 126 214 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 41 38 6 43 6 1 10 125 214 -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 6 122 210 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 6 1 11 127 215 -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 12 127 215 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 9 ] 7 87 A U - - MP 45 44 6 49 6 2 12 126 214 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -3.734 -2.781 -3.757 3.294 -4.067 -5.124 0.229 -3.803 -3.651 1.140 -4.196 -0.266 -0.188 -4.321 -1.712 -2.594 ML 46 44 6 49 6 1 9 124 212 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 47 44 6 49 6 1 9 124 212 -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 6 121 209 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 49 49 5 49 6 1 10 125 213 -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 10 125 213 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 8 86 U A - - MP 51 50 6 55 6 2 10 124 212 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.118 -3.941 -3.964 -0.241 -2.922 -4.535 1.405 -3.612 -3.969 0.024 -4.346 -1.842 3.292 -4.272 -0.599 -2.801 ML 52 50 6 55 6 1 8 122 211 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 53 50 6 55 6 1 8 122 210 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 54 50 6 55 6 0 6 120 208 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 55 55 5 55 6 1 9 123 211 -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 9 123 211 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 9 85 u g - - MP 57 56 6 61 4 2 8 122 210 -6.909 -7.116 -0.055 -5.530 -4.018 -3.936 -3.737 -0.278 -2.517 -4.174 1.767 -3.284 -3.777 -0.073 -4.077 -1.940 0.929 -4.111 2.958 -2.652 ML 58 56 6 61 4 1 7 121 209 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 59 56 6 61 4 1 6 120 209 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 60 56 6 61 4 0 5 119 208 -4.568 -4.250 -2.265 -0.520 IL 61 61 5 61 4 1 8 122 210 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 62 62 6 62 3 1 7 121 210 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 12 ] 10 - G - - - ML 63 62 6 65 2 1 6 120 208 -8.313 -0.005 -1.503 -2.711 1.705 -2.098 D 64 62 6 65 2 0 5 119 207 -8.445 -0.004 IL 65 65 3 65 2 1 6 120 208 -1.823 -0.479 0.000 0.000 0.000 0.000 [ BIF 13 ] - - - - - - B 66 65 3 67 153 0 5 119 207 [ BEGL 14 ] - - - - - - S 67 66 1 68 4 0 0 103 191 -0.045 -6.814 -6.221 -6.861 [ MATP 15 ] 11 66 u g - - MP 68 67 1 72 6 2 2 103 191 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.018 -3.936 -3.737 -0.278 -2.517 -4.174 1.767 -3.284 -3.777 -0.073 -4.077 -1.940 0.929 -4.111 2.958 -2.652 ML 69 67 1 72 6 1 1 100 189 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 70 67 1 72 6 1 1 100 188 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 71 67 1 72 6 0 0 95 184 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 72 72 5 72 6 1 1 102 190 -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 1 102 190 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 12 65 G C - - MP 74 73 6 78 6 2 2 101 189 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.675 -3.062 -4.768 0.245 -5.138 -4.668 -0.520 -5.006 -4.284 3.622 -4.626 -0.759 -0.907 -4.424 -2.553 -3.646 ML 75 73 6 78 6 1 1 98 187 -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 98 186 -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 93 182 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 78 78 5 78 6 1 1 100 188 -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 1 100 188 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 13 64 C G - - MP 80 79 6 84 6 2 2 99 187 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 81 79 6 84 6 1 1 96 185 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 82 79 6 84 6 1 1 96 184 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 83 79 6 84 6 0 0 92 180 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 84 84 5 84 6 1 1 98 186 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 85 85 6 85 5 1 1 98 186 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 14 63 C G - - MP 86 85 6 90 6 2 2 97 185 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 87 85 6 90 6 1 1 94 183 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 88 85 6 90 6 1 1 94 182 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 89 85 6 90 6 0 0 90 178 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 90 90 5 90 6 1 1 96 184 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 91 91 6 91 5 1 1 96 184 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 19 ] 15 62 u g - - MP 92 91 6 96 6 2 2 95 183 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -3.223 -3.312 -3.176 0.130 0.129 -3.783 1.826 -2.993 -3.221 0.239 -3.640 -1.584 1.151 -3.421 2.464 -2.200 ML 93 91 6 96 6 1 1 93 181 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 94 91 6 96 6 1 1 92 180 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 95 91 6 96 6 0 0 88 176 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 96 96 5 96 6 1 1 94 182 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 97 97 6 97 5 1 1 94 182 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 16 61 C G - - MP 98 97 6 102 6 2 2 93 181 -9.093 -9.032 -0.143 -7.808 -8.088 -3.603 -3.851 -3.774 -3.668 -0.017 -2.523 -4.182 3.105 -3.264 -3.688 0.246 -4.041 -1.744 1.643 -3.959 -0.196 -2.542 ML 99 97 6 102 6 1 1 91 179 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 100 97 6 102 6 1 1 91 179 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 101 97 6 102 6 0 0 86 174 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 102 102 5 102 6 1 1 92 180 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 103 103 6 103 5 1 1 92 180 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 21 ] 17 60 G C - - MP 104 103 6 108 6 2 2 91 179 -8.973 -8.912 -0.023 -7.689 -7.969 -8.364 -3.480 -2.470 -3.527 1.498 -3.770 -4.230 0.630 -3.753 -3.460 3.021 -3.907 -0.130 0.286 -3.602 -1.345 -2.432 ML 105 103 6 108 6 1 1 89 177 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 106 103 6 108 6 1 1 89 177 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 107 103 6 108 6 0 0 84 172 -10.271 -8.969 -4.766 -5.448 -5.466 -0.128 IL 108 108 5 108 6 1 1 90 178 -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 90 178 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 22 ] 18 59 c g - - MP 110 109 6 114 6 2 2 89 177 -8.973 -5.037 -0.065 -7.689 -7.969 -8.364 -3.379 -3.297 -3.266 0.344 -2.274 -3.829 2.798 -2.971 -3.296 0.658 -3.679 -1.336 1.349 -3.517 1.044 -2.191 ML 111 109 6 114 6 1 1 87 175 -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 87 175 -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 84 172 -10.271 -8.969 -4.766 -5.448 -5.466 -0.128 IL 114 114 5 114 6 1 1 88 176 -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 88 177 -1.558 -0.761 -6.468 -4.635 -5.741 0.000 0.000 0.000 0.000 [ MATP 23 ] 19 55 c g - - MP 116 115 6 120 4 2 2 87 175 -1.769 -7.762 -0.625 -4.216 -3.003 -2.779 -3.024 1.286 -2.396 -3.749 2.319 -2.942 -3.049 1.302 -3.514 -0.736 1.682 -3.191 -0.099 -1.966 ML 117 115 6 120 4 1 1 86 174 -2.408 -4.532 -1.293 -1.473 0.368 -0.385 -0.191 0.094 MR 118 115 6 120 4 1 1 86 174 -4.102 -12.528 -0.390 -2.485 0.368 -0.385 -0.191 0.094 D 119 115 6 120 4 0 0 83 171 -15.593 -16.863 -4.891 -0.049 IL 120 120 5 120 4 1 1 86 174 -2.304 -5.357 -0.519 -3.735 0.000 0.000 0.000 0.000 IR 121 121 6 121 3 1 1 86 174 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 24 ] - 54 - g - - MR 122 121 6 124 5 1 1 85 173 -6.792 -0.162 -6.607 -3.605 -7.711 0.207 -1.254 0.838 -0.646 D 123 121 6 124 5 0 0 83 171 -6.228 -0.342 -3.855 -5.286 -3.280 IR 124 124 3 124 5 1 1 85 173 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 22 53 g c - - MP 125 124 3 129 6 2 2 84 172 -9.051 -8.991 -0.072 -7.767 -4.738 -8.442 -3.092 -2.320 -3.111 1.222 -3.320 -3.919 0.949 -3.413 -3.231 2.798 -3.677 -0.062 0.618 -3.196 -0.970 -0.337 ML 126 124 3 129 6 1 1 81 170 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 127 124 3 129 6 1 1 85 173 -7.392 -6.121 -2.030 -6.099 -0.578 -4.313 0.040 -0.846 0.680 -0.297 D 128 124 3 129 6 0 0 78 166 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 129 129 5 129 6 1 1 83 171 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 130 130 6 130 5 1 1 83 171 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 23 52 C G - - MP 131 130 6 135 4 2 2 81 170 -3.425 -6.860 -0.197 -5.274 -4.022 -3.873 -3.796 -0.161 -2.643 -4.275 3.346 -3.398 -3.832 0.174 -4.145 -1.815 0.917 -4.122 -0.342 -2.692 ML 132 130 6 135 4 1 1 79 168 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 133 130 6 135 4 1 1 85 173 -1.950 -4.690 -2.557 -0.909 -0.283 -1.241 1.082 -0.647 D 134 130 6 135 4 0 0 76 164 -4.568 -4.250 -2.265 -0.520 IL 135 135 5 135 4 1 1 91 179 -0.310 -3.025 -3.927 -7.665 0.000 0.000 0.000 0.000 IR 136 136 6 136 3 1 1 78 162 -0.317 -3.084 -3.660 0.000 0.000 0.000 0.000 [ MATL 27 ] 33 - a - - - ML 137 136 6 139 3 1 1 18 36 -7.579 -0.027 -6.233 0.931 -0.869 -0.895 0.011 D 138 136 6 139 3 0 0 16 35 -7.730 -3.243 -0.169 IL 139 139 3 139 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 34 - u - - - ML 140 139 3 142 3 1 1 16 35 -7.579 -0.027 -6.233 0.166 -0.650 -0.930 0.779 D 141 139 3 142 3 0 0 15 33 -7.730 -3.243 -0.169 IL 142 142 3 142 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 35 - u - - - ML 143 142 3 145 3 1 1 15 34 -7.579 -0.027 -6.233 0.205 0.113 -0.878 0.289 D 144 142 3 145 3 0 0 14 32 -7.730 -3.243 -0.169 IL 145 145 3 145 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 30 ] 36 - c - - - ML 146 145 3 148 3 1 1 13 32 -7.579 -0.027 -6.233 0.208 0.485 -0.969 -0.097 D 147 145 3 148 3 0 0 12 31 -7.730 -1.645 -0.566 IL 148 148 3 148 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 37 - c - - - ML 149 148 3 151 2 1 1 1 1 * 0.000 -0.205 0.243 0.075 -0.159 D 150 148 3 151 2 0 0 0 0 * 0.000 IL 151 151 3 151 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 32 ] - - - - - - E 152 151 3 -1 0 0 0 0 0 [ BEGR 33 ] - - - - - - S 153 66 1 154 3 0 0 34 56 -7.928 -0.021 -6.582 IL 154 154 2 154 3 1 1 37 59 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 67 - A - - - ML 155 154 2 157 3 1 1 34 56 -7.928 -0.021 -6.582 1.703 -2.299 -1.938 -1.834 D 156 154 2 157 3 0 0 33 54 -6.174 -1.687 -0.566 IL 157 157 3 157 3 1 1 36 58 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 68 - U - - - ML 158 157 3 160 3 1 1 33 55 -7.928 -0.021 -6.582 -1.419 -1.427 -2.149 1.599 D 159 157 3 160 3 0 0 31 53 -6.174 -1.687 -0.566 IL 160 160 3 160 3 1 1 35 57 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 36 ] 69 - A - - - ML 161 160 3 163 3 1 1 32 54 -7.928 -0.021 -6.582 1.703 -2.299 -1.938 -1.834 D 162 160 3 163 3 0 0 30 52 -6.174 -1.687 -0.566 IL 163 163 3 163 3 1 1 34 56 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 70 - A - - - ML 164 163 3 166 3 1 1 31 53 -7.928 -0.021 -6.582 1.703 -2.299 -1.938 -1.834 D 165 163 3 166 3 0 0 29 51 -6.174 -1.687 -0.566 IL 166 166 3 166 3 1 1 33 55 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 71 - G - - - ML 167 166 3 169 3 1 1 30 52 -7.928 -0.021 -6.582 -1.503 -2.711 1.705 -2.098 D 168 166 3 169 3 0 0 28 50 -6.174 -1.687 -0.566 IL 169 169 3 169 3 1 1 32 54 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 72 - U - - - ML 170 169 3 172 5 1 1 29 51 -7.062 -0.040 -6.877 -7.089 -7.981 -1.419 -1.427 -2.149 1.599 D 171 169 3 172 5 0 0 28 49 -4.959 -0.803 -4.221 -2.596 -2.508 IL 172 172 3 172 5 1 1 29 51 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 40 ] 73 84 C G - - MP 173 172 3 177 6 2 2 28 50 -9.093 -9.032 -0.021 -7.808 -8.088 -8.483 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 174 172 3 177 6 1 1 26 48 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 175 172 3 177 6 1 1 26 48 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 176 172 3 177 6 0 0 24 46 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 177 177 5 177 6 1 1 28 49 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 178 178 6 178 5 1 1 27 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 74 83 C G - - MP 179 178 6 183 4 2 2 26 48 -6.909 -2.190 -0.413 -5.530 -4.480 -4.380 -4.182 -0.618 -2.915 -4.603 3.529 -3.718 -4.229 -0.368 -4.497 -2.326 0.606 -4.554 -0.620 -3.071 ML 180 178 6 183 4 1 1 25 47 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 181 178 6 183 4 1 1 24 46 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 182 178 6 183 4 0 0 23 45 -4.568 -4.250 -2.265 -0.520 IL 183 183 5 183 4 1 1 26 48 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 184 184 6 184 3 1 1 26 48 -1.217 -0.889 -5.060 0.000 0.000 0.000 0.000 [ MATL 42 ] 75 - g - - - ML 185 184 6 187 3 1 1 19 37 -7.928 -0.021 -6.582 -0.379 -1.017 0.601 0.286 D 186 184 6 187 3 0 0 18 37 -6.174 -1.687 -0.566 IL 187 187 3 187 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 43 ] 76 - a - - - ML 188 187 3 190 3 1 1 18 36 -7.928 -0.021 -6.582 0.890 -1.353 0.228 -0.775 D 189 187 3 190 3 0 0 17 36 -6.174 -1.687 -0.566 IL 190 190 3 190 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 77 - A - - - ML 191 190 3 193 3 1 1 16 35 -7.928 -0.021 -6.582 1.703 -2.299 -1.938 -1.834 D 192 190 3 193 3 0 0 16 34 -6.174 -1.687 -0.566 IL 193 193 3 193 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 78 - A - - - ML 194 193 3 196 3 1 1 15 33 -7.928 -0.021 -6.582 1.703 -2.299 -1.938 -1.834 D 195 193 3 196 3 0 0 15 33 -6.174 -1.687 -0.566 IL 196 196 3 196 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 79 - G - - - ML 197 196 3 199 3 1 1 13 32 -7.928 -0.021 -6.582 -1.503 -2.711 1.705 -2.098 D 198 196 3 199 3 0 0 13 32 -6.174 -1.687 -0.566 IL 199 199 3 199 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 80 - A - - - ML 200 199 3 202 2 1 1 1 1 * 0.000 1.703 -2.299 -1.938 -1.834 D 201 199 3 202 2 0 0 0 0 * 0.000 IL 202 202 3 202 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 48 ] - - - - - - E 203 202 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME SAM_VI ACC RF02885 DESC SAM-VI (S-adenosyl methionine) riboswitch aptamer LENG 65 MAXL 217 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sun Jul 7 12:18:05 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/RF02885/CM NSEQ 7 EFFN 2.826660 CKSUM 2062189920 STATS LOCAL MSV -8.2322 0.71930 STATS LOCAL VITERBI -8.9903 0.71930 STATS LOCAL FORWARD -3.4922 0.71930 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.38537 1.49718 1.21000 1.47924 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 0.00000 * 1 3.41438 0.19185 3.22107 2.28511 1 C - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 2 2.02294 3.11978 0.25834 2.97135 2 G - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 3 3.22722 2.09957 3.00578 0.23785 3 U - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 4 0.26144 3.04855 2.03087 2.96789 4 A - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 5 3.22689 2.09954 3.00562 0.23788 5 U - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 6 3.42138 0.19125 3.22463 2.28639 6 C - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 7 0.26159 3.04777 2.03069 2.96681 7 A - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 8 3.22488 2.09938 3.00466 0.23806 8 U - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 9 3.13252 1.68792 2.95251 0.32951 9 U - - ( 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 10 2.92419 3.83077 0.11499 3.40452 10 G - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 11 3.14898 1.68801 2.96070 0.32790 11 U - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 12 2.73269 3.46715 0.13857 3.40687 12 G - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 13 3.42979 0.19052 3.22889 2.28793 13 C - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 14 3.42666 0.19079 3.22731 2.28736 14 C - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 15 2.88083 1.25826 2.73180 0.51976 15 U - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 16 2.80912 0.49317 2.57305 1.37535 16 C - - < 1.38629 1.38629 1.38629 1.38629 0.31484 3.97802 1.38081 1.46634 0.26236 1.09861 0.40547 17 1.58523 2.42857 0.49517 2.32825 17 G - - < 1.38629 1.38629 1.38629 1.38629 0.05003 3.71320 3.71320 1.46634 0.26236 2.73607 0.06702 18 2.46874 0.70108 2.21859 1.16958 18 c - - < 1.38629 1.38629 1.38629 1.38629 0.05003 3.71320 3.71320 1.46634 0.26236 2.73607 0.06702 19 1.69662 1.05125 1.70437 1.25417 19 c - - < 1.38629 1.38629 1.38629 1.38629 0.71747 0.96835 2.02262 0.38480 1.14126 0.13886 2.04292 20 1.81980 2.21737 0.58258 1.76847 22 G - - < 1.38629 1.38629 1.38629 1.38629 0.04168 3.89159 3.89159 1.46634 0.26236 2.00453 0.14471 21 2.97377 0.29603 2.74272 1.96091 23 C - - < 1.38629 1.38629 1.38629 1.38629 0.25959 1.56917 3.89159 1.98148 0.14834 2.00453 0.14471 22 0.67148 2.08403 2.11873 1.40879 33 A - - _ 1.38629 1.38629 1.38629 1.38629 0.25959 3.89159 1.56917 1.46634 0.26236 2.00453 0.14471 23 1.29728 1.92451 2.14505 0.76848 34 u - - _ 1.38629 1.38629 1.38629 1.38629 0.05157 3.68357 3.68357 1.46634 0.26236 2.81078 0.06204 24 1.24937 1.24825 2.08142 1.19880 35 u - - _ 1.38629 1.38629 1.38629 1.38629 0.05157 3.68357 3.68357 1.46634 0.26236 2.81078 0.06204 25 1.26170 0.93486 2.19256 1.54855 36 c - - _ 1.38629 1.38629 1.38629 1.38629 0.05157 3.68357 3.68357 1.46634 0.26236 0.12819 2.11763 26 1.64374 1.13055 1.26169 1.60589 37 c - - _ 1.38629 1.38629 1.38629 1.38629 0.23534 1.65561 3.97802 2.34000 0.10129 1.09861 0.40547 27 2.19862 2.89172 0.26709 2.68882 52 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 28 2.25789 0.72831 1.82974 1.37735 53 c - - > 1.38629 1.38629 1.38629 1.38629 0.31484 3.97802 1.38081 1.46634 0.26236 1.09861 0.40547 29 1.27542 2.43843 0.69077 2.02344 54 G - - - 1.38629 1.38629 1.38629 1.38629 0.05003 3.71320 3.71320 1.46634 0.26236 2.73607 0.06702 30 1.44589 1.86595 0.93198 1.53274 55 g - - > 1.38629 1.38629 1.38629 1.38629 0.16070 2.08706 3.71320 1.15398 0.37889 2.73607 0.06702 31 1.78925 2.38012 0.45634 2.23703 59 G - - > 1.38629 1.38629 1.38629 1.38629 0.05003 3.71320 3.71320 1.46634 0.26236 2.73607 0.06702 32 2.55958 0.56955 2.24636 1.38190 60 C - - > 1.38629 1.38629 1.38629 1.38629 0.05003 3.71320 3.71320 1.46634 0.26236 0.13886 2.04292 33 1.55125 2.73728 0.43615 2.56721 61 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 34 1.57150 2.88764 0.40596 2.65611 62 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 35 2.56500 3.39130 0.16487 3.18411 63 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 36 2.56439 3.39040 0.16502 3.18306 64 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 37 3.57821 0.16700 3.29531 2.42114 65 C - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 38 2.24899 3.12736 0.23100 2.86609 66 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 39 0.12214 3.46051 3.16342 3.18743 67 A - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 40 2.81949 2.74829 3.34449 0.17311 68 U - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 41 0.12214 3.46051 3.16342 3.18743 69 A - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 42 0.12214 3.46051 3.16342 3.18743 70 A - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 43 2.92419 3.83077 0.11499 3.40452 71 G - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 44 2.81949 2.74829 3.34449 0.17311 72 U - - , 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 45 3.43546 0.19004 3.23175 2.28896 73 C - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 46 3.43160 0.19037 3.22980 2.28826 74 C - - < 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 47 1.79516 2.24968 0.86094 1.18515 75 g - - _ 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 48 0.70100 2.54868 1.17024 2.15905 76 a - - _ 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 49 0.12214 3.46051 3.16342 3.18743 77 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 50 0.12214 3.46051 3.16342 3.18743 78 A - - _ 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 51 2.92419 3.83077 0.11499 3.40452 79 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 52 0.12214 3.46051 3.16342 3.18743 80 A - - _ 1.38629 1.38629 1.38629 1.38629 0.31484 1.38081 3.97802 0.74549 0.64341 1.09861 0.40547 53 2.56617 3.39302 0.16460 3.18610 83 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 54 2.56511 3.39146 0.16485 3.18430 84 G - - > 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 55 2.25226 3.13272 0.22985 2.87196 85 G - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 56 0.26992 3.19246 1.93598 2.97188 86 A - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 57 3.18838 2.35047 2.85710 0.21567 87 U - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 58 2.56529 3.39173 0.16481 3.18460 88 G - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 59 0.26963 3.19433 1.93625 2.97403 89 A - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 60 3.19284 2.35112 2.85894 0.21523 90 U - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 61 0.26926 3.19668 1.93658 2.97673 91 A - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 62 3.18489 2.09145 2.91815 0.24708 92 U - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 63 2.57193 3.40148 0.16327 3.19593 93 G - - ) 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 64 0.12214 3.46051 3.16342 3.18743 94 A - - : 1.38629 1.38629 1.38629 1.38629 0.03816 3.97802 3.97802 1.46634 0.26236 1.09861 0.40547 65 3.11406 0.15464 3.68827 2.60587 95 C - - : 1.38629 1.38629 1.38629 1.38629 0.01926 3.95912 * 1.46634 0.26236 0.00000 * //