INFERNAL1/a [1.1.5 | Sep 2023] NAME Fluoride ACC RF01734 DESC Fluoride riboswitch aptamer (crcB RNA motif) STATES 196 NODES 56 CLEN 64 W 193 ALPH RNA RF no CONS yes MAP yes DATE Tue Jul 9 12:06:36 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/14.9/3Dfams/3Dreview/RF01734/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 289 EFFN 58.390030 CKSUM 3579025286 NULL 0.000 0.000 0.000 0.000 GA 32.00 TC 32.00 NC 31.90 EFP7GF -22.3062 0.72074 ECMLC 0.61194 -6.64292 2.37503 1600000 299083 0.004012 ECMGC 0.37116 -22.38867 -7.69661 1600000 93386 0.004283 ECMLI 0.62355 -4.99843 3.12114 1600000 189666 0.006327 ECMGI 0.39514 -18.33089 -5.18276 1600000 72173 0.005542 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 193 345 -11.038 -11.245 -0.012 -7.052 IL 1 1 2 1 4 1 23 195 347 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 22 194 347 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - a - - - ML 3 2 3 5 3 2 28 193 345 -11.945 -0.001 -10.599 0.583 -0.691 -0.477 0.219 D 4 2 3 5 3 0 16 189 341 -7.116 -2.629 -0.267 IL 5 5 3 5 3 1 21 193 346 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - u - - - ML 6 5 3 8 3 2 27 192 344 -11.945 -0.001 -10.599 0.317 -0.550 -0.447 0.420 D 7 5 3 8 3 0 16 188 340 -7.116 -2.629 -0.267 IL 8 8 3 8 3 1 21 192 345 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - a - - - ML 9 8 3 11 3 2 27 191 343 -11.945 -0.001 -10.599 0.194 -0.455 0.055 0.121 D 10 8 3 11 3 0 15 187 339 -7.116 -2.629 -0.267 IL 11 11 3 11 3 1 21 191 344 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - a - - - ML 12 11 3 14 3 2 26 190 342 -11.945 -0.001 -10.599 0.351 -0.408 0.126 -0.185 D 13 11 3 14 3 0 15 186 338 -7.116 -2.629 -0.267 IL 14 14 3 14 3 1 20 190 343 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - u - - - ML 15 14 3 17 3 2 25 189 341 -11.945 -0.001 -10.599 0.083 -0.177 -0.057 0.131 D 16 14 3 17 3 0 15 185 338 -7.116 -2.629 -0.267 IL 17 17 3 17 3 1 20 189 342 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - a - - - ML 18 17 3 20 3 2 24 188 340 -11.945 -0.001 -10.599 0.487 -0.123 -0.379 -0.135 D 19 17 3 20 3 0 14 185 337 -7.116 -2.629 -0.267 IL 20 20 3 20 3 1 20 188 341 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - a - - - ML 21 20 3 23 3 2 23 187 339 -11.945 -0.001 -10.599 0.811 -0.572 -0.495 -0.212 D 22 20 3 23 3 0 14 184 336 -7.116 -2.629 -0.267 IL 23 23 3 23 3 1 19 188 340 -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 22 186 338 -11.945 -0.001 -10.599 0.548 0.251 -1.002 -0.235 D 25 23 3 26 3 0 14 184 336 -7.116 -1.300 -0.769 IL 26 26 3 26 3 1 18 187 339 -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 21 185 337 -11.950 -0.001 -10.604 0.509 -0.086 -0.695 0.024 D 28 26 3 29 3 0 13 183 335 -6.712 -0.929 -1.103 IL 29 29 3 29 3 1 17 185 338 -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 20 184 336 -11.954 -0.001 -10.608 -3.568 -3.903 1.921 -3.999 D 31 29 3 32 3 0 12 181 334 -6.174 -1.687 -0.566 IL 32 32 3 32 3 1 16 184 337 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 11 ] 11 - G - - - ML 33 32 3 35 3 1 19 183 335 -11.954 -0.001 -10.608 -6.494 -8.167 1.972 -3.994 D 34 32 3 35 3 0 12 180 333 -6.174 -1.687 -0.566 IL 35 35 3 35 3 1 16 183 336 -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 19 182 334 -11.954 -0.001 -10.608 -0.071 0.333 -0.245 -0.082 D 37 35 3 38 3 0 11 179 332 -6.174 -1.687 -0.566 IL 38 38 3 38 3 1 15 182 335 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - G - - - ML 39 38 3 41 3 1 18 181 333 -11.954 -0.001 -10.608 -0.653 -5.038 1.642 -2.227 D 40 38 3 41 3 0 11 179 331 -6.174 -1.687 -0.566 IL 41 41 3 41 3 1 15 182 334 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - A - - - ML 42 41 3 44 3 1 17 180 332 -11.954 -0.001 -10.608 1.966 -7.385 -3.643 -7.027 D 43 41 3 44 3 0 10 178 330 -6.174 -1.687 -0.566 IL 44 44 3 44 3 1 14 181 333 -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 16 179 331 -12.253 -0.010 -7.179 -5.389 -5.202 -4.222 1.962 D 46 44 3 47 3 0 9 177 329 -5.620 -0.734 -1.403 IL 47 47 3 47 3 1 13 179 331 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 16 ] - 169 - c - - MR 48 47 3 50 3 1 18 178 330 -12.244 -0.001 -10.562 -0.041 0.256 -0.470 0.153 D 49 47 3 50 3 0 8 175 327 -7.218 -2.396 -0.316 IR 50 50 3 50 3 1 13 178 330 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 17 ] - 168 - a - - MR 51 50 3 53 3 1 17 177 329 -12.244 -0.001 -10.562 0.527 -0.396 -0.731 0.259 D 52 50 3 53 3 0 8 174 326 -7.218 -2.396 -0.316 IR 53 53 3 53 3 1 12 177 329 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 18 ] - 167 - a - - MR 54 53 3 56 3 1 16 176 328 -12.244 -0.001 -10.562 0.412 -0.539 -0.393 0.287 D 55 53 3 56 3 0 8 173 325 -7.218 -2.396 -0.316 IR 56 56 3 56 3 1 12 176 328 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 19 ] - 166 - a - - MR 57 56 3 59 3 1 16 175 327 -12.244 -0.001 -10.562 0.411 -1.032 0.213 0.032 D 58 56 3 59 3 0 7 173 325 -7.218 -1.277 -0.784 IR 59 59 3 59 3 1 11 175 327 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 20 ] - 165 - a - - MR 60 59 3 62 3 1 15 174 326 -12.249 -0.001 -10.567 0.321 -0.191 -0.364 0.135 D 61 59 3 62 3 0 7 172 324 -6.855 -2.033 -0.421 IR 62 62 3 62 3 1 11 174 326 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 21 ] - 164 - u - - MR 63 62 3 65 3 1 15 173 325 -12.249 -0.001 -10.567 -0.221 -0.068 -0.026 0.271 D 64 62 3 65 3 0 6 171 323 -6.855 -0.944 -1.085 IR 65 65 3 65 3 1 10 173 325 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 22 ] - 163 - C - - MR 66 65 3 68 3 1 14 172 324 -12.253 -0.001 -10.571 -2.623 1.667 -4.404 -0.702 D 67 65 3 68 3 0 5 170 322 -6.390 -1.568 -0.620 IR 68 68 3 68 3 1 9 172 324 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 23 ] - 162 - A - - MR 69 68 3 71 3 1 14 171 323 -12.253 -0.001 -10.571 1.492 -4.060 0.033 -3.264 D 70 68 3 71 3 0 5 169 321 -6.390 -1.568 -0.620 IR 71 71 3 71 3 1 9 171 323 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 24 ] - 161 - U - - MR 72 71 3 74 5 1 13 170 322 -10.900 -0.003 -10.715 -10.928 -11.819 -8.173 -7.325 -9.221 1.996 D 73 71 3 74 5 0 4 168 320 -5.352 -0.707 -2.978 -4.409 -2.404 IR 74 74 3 74 5 1 7 170 322 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 16 160 G C - - MP 75 74 3 79 6 2 14 169 321 -11.939 -11.878 -0.003 -10.655 -10.935 -11.330 -9.923 -2.895 -12.465 -3.997 -11.526 -3.106 -5.804 -11.824 -7.875 3.963 -8.062 -4.444 -6.175 -8.124 -8.262 -11.692 ML 76 74 3 79 6 1 6 167 319 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 77 74 3 79 6 1 6 166 318 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 78 74 3 79 6 0 3 161 313 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 79 79 5 79 6 1 7 168 320 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 80 80 6 80 5 1 7 168 320 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 17 159 G C - - MP 81 80 6 85 6 2 13 167 319 -11.939 -11.878 -0.003 -10.655 -10.935 -11.330 -7.332 -5.898 -3.336 1.704 -8.789 -8.300 -3.932 -7.718 -7.241 3.617 -3.666 -3.386 -4.126 -7.539 -5.913 -6.144 ML 82 80 6 85 6 1 6 165 317 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 83 80 6 85 6 1 6 164 316 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 84 80 6 85 6 0 2 159 312 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 85 85 5 85 6 1 7 166 318 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 86 86 6 86 5 1 7 166 318 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 27 ] 18 158 a u - - MP 87 86 6 91 6 2 12 165 317 -7.571 -11.878 -0.010 -10.655 -10.935 -11.330 -4.729 -4.793 -3.713 2.394 -4.482 -5.724 2.168 -4.960 -3.099 -0.226 -5.441 1.214 -0.226 -5.026 0.679 -2.285 ML 88 86 6 91 6 1 5 163 315 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 89 86 6 91 6 1 5 162 314 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 90 86 6 91 6 0 2 158 310 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 91 91 5 91 6 1 7 164 316 -3.012 -3.275 -0.522 -4.930 -5.706 -5.367 0.000 0.000 0.000 0.000 IR 92 92 6 92 5 1 7 164 316 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 28 ] 20 157 G C - - MP 93 92 6 97 6 2 11 163 315 -11.939 -11.878 -0.007 -10.655 -8.393 -11.330 -7.348 -3.375 -7.373 1.957 -8.908 -8.643 -4.084 -7.704 -7.276 3.492 -7.772 -3.413 -4.252 -7.731 -6.046 -0.953 ML 94 92 6 97 6 1 5 161 313 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 95 92 6 97 6 1 5 160 313 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 96 92 6 97 6 0 2 156 309 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 97 97 5 97 6 1 6 162 314 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 98 98 6 98 5 1 6 162 314 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 29 ] 21 156 U A - - MP 99 98 6 103 6 2 10 161 313 -11.935 -11.875 -0.003 -10.651 -10.931 -11.326 -3.099 -8.570 -7.958 -4.642 -2.146 -8.217 1.509 -7.271 -3.054 -4.519 -8.210 -6.606 3.617 -8.403 -1.773 -6.793 ML 100 98 6 103 6 1 5 159 311 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 101 98 6 103 6 1 4 159 311 -7.254 -5.983 -1.191 -5.961 -1.095 -4.175 0.161 -0.714 0.484 -0.195 D 102 98 6 103 6 0 2 155 307 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 6 160 312 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 104 104 6 104 5 1 6 160 312 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 30 ] 22 155 U G - - MP 105 104 6 109 4 2 8 159 311 -1.613 -11.245 -0.575 -9.660 -8.494 -8.601 -0.783 -4.694 -1.469 -8.223 1.661 -7.286 -8.027 -4.578 0.426 -2.936 0.326 -8.417 3.179 -6.814 ML 106 104 6 109 4 1 4 157 310 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 107 104 6 109 4 1 3 156 308 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 108 104 6 109 4 0 2 154 307 -4.568 -4.250 -2.265 -0.520 IL 109 109 5 109 4 1 7 158 310 -6.349 -7.032 -0.031 -9.518 0.000 0.000 0.000 0.000 IR 110 110 6 110 3 1 5 158 310 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 24 - C - - - ML 111 110 6 113 3 1 6 157 309 -11.954 -0.001 -10.608 -2.606 1.691 -3.645 -0.925 D 112 110 6 113 3 0 1 153 305 -6.174 -1.687 -0.566 IL 113 113 3 113 3 1 5 157 309 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 25 - g - - - ML 114 113 3 116 3 1 5 156 308 -11.954 -0.001 -10.608 -0.251 -0.376 0.441 0.045 D 115 113 3 116 3 0 1 151 303 -6.174 -1.687 -0.566 IL 116 116 3 116 3 1 4 156 308 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 26 - C - - - ML 117 116 3 119 3 1 4 155 307 -11.954 -0.001 -10.608 -6.816 1.968 -7.190 -3.794 D 118 116 3 119 3 0 0 148 301 -6.174 -1.687 -0.566 IL 119 119 3 119 3 1 3 155 307 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 27 - C - - - ML 120 119 3 122 3 1 3 154 306 -11.954 -0.016 -6.576 -4.177 1.906 -4.548 -2.706 D 121 119 3 122 3 0 0 144 296 -6.174 -1.687 -0.566 IL 122 122 3 122 3 1 3 154 306 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 28 - u - - - ML 123 122 3 125 3 1 2 153 305 -1.159 -1.725 -2.002 0.027 -0.534 -0.223 0.520 D 124 122 3 125 3 0 0 116 268 -7.465 -2.978 -0.205 IL 125 125 3 125 3 1 5 158 311 -0.175 -3.137 -11.361 0.000 0.000 0.000 0.000 [ MATL 36 ] 75 - u - - - ML 126 125 3 128 3 1 3 67 116 -11.527 -0.002 -10.181 0.100 0.016 -1.290 0.593 D 127 125 3 128 3 0 0 66 115 -11.447 -0.099 -3.918 IL 128 128 3 128 3 1 1 68 117 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 76 - u - - - ML 129 128 3 131 3 1 2 66 115 -11.936 -0.001 -10.590 0.069 -0.615 -0.364 0.605 D 130 128 3 131 3 0 0 65 114 -7.701 -0.395 -2.092 IL 131 131 3 131 3 1 1 67 116 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 77 - A - - - ML 132 131 3 134 3 1 1 65 114 -11.954 -0.020 -6.178 1.980 -4.700 -6.905 -6.874 D 133 131 3 134 3 0 0 63 113 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 66 115 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 78 - A - - - ML 135 134 3 137 3 1 1 64 113 -5.876 -0.042 -6.405 1.962 -4.422 -6.215 -4.549 D 136 134 3 137 3 0 0 63 112 -7.728 -0.386 -2.119 IL 137 137 3 137 3 1 1 65 114 -1.836 -0.541 -4.929 0.000 0.000 0.000 0.000 [ MATL 40 ] 81 - C - - - ML 138 137 3 140 3 1 1 63 112 -11.938 -0.001 -10.592 -1.211 1.707 -2.975 -2.497 D 139 137 3 140 3 0 0 61 111 -7.562 -1.897 -0.462 IL 140 140 3 140 3 1 1 64 113 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 41 ] 82 - C - - - ML 141 140 3 143 3 1 1 62 111 -12.241 -0.001 -10.559 -4.799 1.678 -3.603 -0.552 D 142 140 3 143 3 0 0 61 110 -6.423 -0.374 -2.206 IL 143 143 3 143 3 1 1 63 112 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 42 ] - 154 - U - - MR 144 143 3 146 3 1 1 61 110 -12.253 -0.001 -10.571 -6.319 -3.805 -7.089 1.967 D 145 143 3 146 3 0 0 59 108 -6.390 -1.568 -0.620 IR 146 146 3 146 3 1 1 62 111 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 43 ] - 153 - A - - MR 147 146 3 149 3 1 1 60 109 -12.253 -0.001 -10.571 1.994 -8.079 -7.348 -7.482 D 148 146 3 149 3 0 0 58 107 -6.390 -1.568 -0.620 IR 149 149 3 149 3 1 1 61 110 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 44 ] - 152 - G - - MR 150 149 3 152 3 1 1 59 108 -12.253 -0.001 -10.571 -0.270 -5.494 1.623 -3.879 D 151 149 3 152 3 0 0 57 106 -6.390 -1.568 -0.620 IR 152 152 3 152 3 1 1 60 109 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 45 ] - 151 - U - - MR 153 152 3 155 5 1 1 58 107 -10.900 -0.027 -10.715 -10.928 -5.867 -6.062 -3.076 -6.816 1.948 D 154 152 3 155 5 0 0 57 106 -5.352 -0.707 -2.978 -4.409 -2.404 IR 155 155 3 155 5 1 1 58 108 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 46 ] 83 150 G C - - MP 156 155 3 160 6 2 2 57 106 -11.916 -11.856 -0.010 -10.632 -10.912 -7.583 -7.711 -3.068 -7.750 -1.083 -8.774 -7.248 -1.561 -8.360 -0.766 3.814 -7.482 -2.693 -4.014 -2.804 -5.809 -6.711 ML 157 155 3 160 6 1 1 56 105 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 158 155 3 160 6 1 1 55 105 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 159 155 3 160 6 0 0 49 98 -10.576 -9.274 -5.071 -5.753 -5.771 -0.103 IL 160 160 5 160 6 1 1 57 106 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 161 161 6 161 5 1 1 56 106 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 47 ] 84 149 C G - - MP 162 161 6 166 6 2 2 55 104 -11.909 -11.849 -0.143 -10.625 -6.924 -3.555 -7.822 -7.725 -7.515 -0.379 -2.224 -7.960 3.757 -6.900 -7.493 -3.478 -2.586 -5.499 -0.597 -7.858 -1.518 -2.540 ML 163 161 6 166 6 1 1 54 103 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 164 161 6 166 6 1 1 54 103 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 165 161 6 166 6 0 0 47 96 -10.837 -9.535 -5.332 -6.014 -6.032 -0.085 IL 166 166 5 166 6 1 1 55 104 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 167 167 6 167 5 1 1 55 104 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 48 ] 85 148 C G - - MP 168 167 6 172 6 2 2 54 103 -11.769 -11.709 -0.628 -6.328 -10.765 -1.559 -6.095 -3.044 -6.100 -0.140 -2.049 -6.942 3.157 -3.820 -5.963 -0.428 -6.478 -3.394 2.121 -6.282 -1.211 -4.693 ML 169 167 6 172 6 1 1 53 102 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 170 167 6 172 6 1 1 53 102 -7.685 -6.414 -0.778 -6.392 -1.526 -4.606 -0.347 -0.595 -0.985 1.033 D 171 167 6 172 6 0 0 45 94 -12.799 -11.497 -7.294 -7.976 -4.495 -0.082 IL 172 172 5 172 6 1 1 54 103 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 173 173 6 173 5 1 1 54 103 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 49 ] 86 147 c g - - MP 174 173 6 178 4 2 2 53 102 -0.818 -3.514 -1.544 -8.785 -3.587 -3.695 -3.754 1.103 -3.534 -3.400 2.209 -3.959 -3.795 1.651 -4.355 -0.801 1.948 -2.602 -0.508 -2.417 ML 175 173 6 178 4 1 1 51 100 -1.099 -4.737 -1.303 -3.466 0.432 -0.230 -0.292 -0.026 MR 176 173 6 178 4 1 1 50 99 -1.624 -4.352 -2.219 -1.280 -0.139 -0.471 -0.754 0.830 D 177 173 6 178 4 0 0 43 92 -10.094 -2.634 -0.297 -5.396 IL 178 178 5 178 4 1 1 52 101 -0.731 -1.372 -6.574 -10.826 0.000 0.000 0.000 0.000 IR 179 179 6 179 3 1 1 48 97 -0.541 -1.709 -7.191 0.000 0.000 0.000 0.000 [ MATL 50 ] 104 - a - - - ML 180 179 6 182 3 1 1 14 33 -11.936 -0.012 -6.901 0.130 -0.293 0.119 0.006 D 181 179 6 182 3 0 0 15 34 -7.664 -3.177 -0.177 IL 182 182 3 182 3 1 1 20 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 51 ] 105 - u - - - ML 183 182 3 185 3 1 1 13 32 -11.925 -0.028 -5.717 0.050 -0.032 -0.741 0.473 D 184 182 3 185 3 0 0 14 32 -8.148 -3.661 -0.124 IL 185 185 3 185 3 1 1 19 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 52 ] 106 - a - - - ML 186 185 3 188 3 1 1 12 30 -11.898 -0.062 -4.579 0.522 -0.719 -0.882 0.500 D 187 185 3 188 3 0 0 12 31 -8.890 -4.403 -0.073 IL 188 188 3 188 3 1 1 18 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 53 ] 107 - a - - - ML 189 188 3 191 3 1 1 10 29 -11.838 -0.727 -1.338 0.525 -0.336 -0.584 0.140 D 190 188 3 191 3 0 0 11 29 -9.805 -5.318 -0.038 IL 191 191 3 191 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 54 ] 108 - u - - - ML 192 191 3 194 2 1 1 1 1 * 0.000 0.351 -0.549 -0.447 0.387 D 193 191 3 194 2 0 0 0 0 * 0.000 IL 194 194 3 194 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 55 ] - - - - - - E 195 194 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME Fluoride ACC RF01734 DESC Fluoride riboswitch aptamer (crcB RNA motif) LENG 64 MAXL 198 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Tue Jul 9 12:06:36 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/14.9/3Dfams/3Dreview/RF01734/CM NSEQ 289 EFFN 222.522415 CKSUM 3579025286 STATS LOCAL MSV -8.1279 0.72074 STATS LOCAL VITERBI -8.9556 0.72074 STATS LOCAL FORWARD -4.1293 0.72074 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.40581 1.34748 1.36770 1.42610 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 0.00000 * 1 0.96268 1.89170 1.72145 1.24303 1 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 2 1.16499 1.78183 1.69855 1.08828 2 u - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 3 1.25995 1.70646 1.31835 1.31957 3 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 4 1.13846 1.66988 1.26664 1.56235 4 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 5 1.34631 1.49447 1.40192 1.31189 5 u - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 6 1.03516 1.45341 1.64505 1.52300 6 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 7 0.79333 1.79643 1.73458 1.58328 7 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 8 0.98881 1.17768 2.13159 1.60275 8 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 9 1.01811 1.42650 1.89034 1.39613 9 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97344 7.97344 1.46634 0.26236 1.09861 0.40547 10 4.15648 4.21551 0.04349 4.41176 10 G - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 11 7.20397 8.41256 0.01691 4.14769 11 G - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 12 1.46493 1.11711 1.54117 1.48038 12 c - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 13 1.83754 6.30006 0.23652 3.00415 13 G - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 14 0.02187 8.00165 3.87180 7.65288 14 A - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 15 6.97330 6.77463 4.51001 0.01316 15 U - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 16 4.61920 4.81956 0.01855 7.72149 16 G - - < 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 17 1.55833 7.58985 0.23788 7.24787 17 G - - < 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 18 1.01611 1.25090 1.57916 1.92687 18 a - - < 1.38629 1.38629 1.38629 1.38629 0.00629 5.12745 7.97660 0.11202 2.24459 1.09861 0.40547 19 1.38990 7.52333 0.33312 3.39105 20 G - - < 1.38629 1.38629 1.38629 1.38629 0.00344 7.97660 5.77808 1.46634 0.26236 1.09861 0.40547 20 4.82717 1.68736 4.80232 0.22468 21 U - - < 1.38629 1.38629 1.38629 1.38629 0.00069 7.97384 7.97384 1.46634 0.26236 0.20044 1.70581 21 3.27590 1.54072 2.35805 0.42559 22 U - - < 1.38629 1.38629 1.38629 1.38629 0.40576 1.09905 7.97660 0.00206 6.18605 1.09861 0.40547 22 3.34806 0.19479 4.07100 2.08119 24 C - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 23 1.60932 1.64467 1.03772 1.37579 25 g - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 24 7.53671 0.01744 7.80707 4.11335 26 C - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 25 4.46282 0.05916 4.69014 3.30425 27 C - - - 1.38629 1.38629 1.38629 1.38629 0.01083 7.97660 4.56366 1.46634 0.26236 1.09861 0.40547 26 1.39118 1.76907 1.52695 1.01190 28 u - - - 1.38629 1.38629 1.38629 1.38629 1.25284 0.77878 1.36516 2.20234 0.11715 3.47675 0.03140 27 1.33292 1.34922 2.39794 0.95205 75 u - - - 1.38629 1.38629 1.38629 1.38629 0.00093 7.67210 7.67210 1.46634 0.26236 0.05378 2.94955 28 1.35810 1.83257 1.63381 0.94762 76 u - - - 1.38629 1.38629 1.38629 1.38629 0.00070 7.96340 7.96340 1.46634 0.26236 0.04978 3.02490 29 0.01109 4.60379 7.58687 7.58866 77 A - - - 1.38629 1.38629 1.38629 1.38629 0.01428 7.97660 4.28048 1.46634 0.26236 1.09861 0.40547 30 0.02013 4.57378 7.05117 4.73959 78 A - - - 1.38629 1.38629 1.38629 1.38629 0.02973 4.04403 4.44235 0.20396 1.69009 0.04845 3.05141 31 2.20348 0.19142 3.48642 3.40559 81 C - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.96527 7.96527 1.46634 0.26236 1.38549 0.28795 32 6.25754 0.21313 3.99187 1.76279 82 C - - - 1.38629 1.38629 1.38629 1.38629 0.01844 7.96803 4.02162 1.46634 0.26236 0.07453 2.63361 33 3.52130 3.96755 0.06033 4.59860 83 G - - < 1.38629 1.38629 1.38629 1.38629 0.00611 7.95901 5.16022 1.46634 0.26236 3.98433 0.01878 34 3.07976 0.12690 4.46884 2.78463 84 C - - < 1.38629 1.38629 1.38629 1.38629 0.10998 7.95361 2.26531 1.46634 0.26236 4.23662 0.01456 35 2.88051 0.49567 3.33698 1.20668 85 C - - < 1.38629 1.38629 1.38629 1.38629 0.48574 7.84441 0.95616 1.46634 0.26236 2.20097 0.11732 36 1.98334 1.15898 1.41474 1.18549 86 c - - < 1.38629 1.38629 1.38629 1.38629 0.87947 0.53721 7.38461 0.94529 0.49195 0.01037 4.57357 37 1.30958 1.58232 1.27113 1.41037 104 g - - _ 1.38629 1.38629 1.38629 1.38629 0.01738 7.97265 4.08139 1.46634 0.26236 2.67130 0.07167 38 1.37069 1.38782 1.92635 1.04763 105 u - - _ 1.38629 1.38629 1.38629 1.38629 0.01971 7.95598 3.95462 1.46634 0.26236 4.13407 0.01615 39 1.00860 1.91568 2.04210 1.02646 106 a - - _ 1.38629 1.38629 1.38629 1.38629 0.04387 7.93698 3.15667 1.46634 0.26236 4.75448 0.00865 40 1.00558 1.61582 1.80512 1.30568 107 a - - _ 1.38629 1.38629 1.38629 1.38629 0.34783 7.89385 1.22618 1.46634 0.26236 0.61334 0.77988 41 1.13609 1.79189 1.70010 1.10983 108 u - - _ 1.38629 1.38629 1.38629 1.38629 1.29815 0.78888 1.29970 1.36803 0.29385 0.92721 0.50361 42 1.35079 1.49614 1.07145 1.74605 147 g - - > 1.38629 1.38629 1.38629 1.38629 0.06282 7.50867 2.80770 1.46634 0.26236 0.23547 1.56160 43 1.23365 3.17677 0.50104 2.79442 148 G - - > 1.38629 1.38629 1.38629 1.38629 0.00078 7.85400 7.85400 1.46634 0.26236 0.22453 1.60391 44 3.08430 7.21600 0.10875 2.87261 149 G - - > 1.38629 1.38629 1.38629 1.38629 0.00070 7.95361 7.95361 1.46634 0.26236 1.43783 0.27108 45 3.19762 0.09190 3.96406 3.57708 150 C - - > 1.38629 1.38629 1.38629 1.38629 0.00070 7.95901 7.95901 1.46634 0.26236 0.03792 3.29118 46 7.51363 3.61524 8.08350 0.02816 151 U - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 47 1.55931 6.71203 0.25295 4.42314 152 G - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 48 0.00115 8.22183 7.69175 7.76642 153 A - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 49 7.70374 4.19163 8.29580 0.01595 154 U - - - 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 50 2.33181 7.17216 0.11281 4.73370 155 G - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 51 0.21079 7.06789 1.67124 6.73190 156 A - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 52 7.28747 0.32731 7.30592 1.28091 157 C - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 53 3.29484 3.22500 0.93297 0.63528 158 U - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 54 7.40958 0.24541 4.45397 1.58291 159 C - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 55 7.80447 0.00291 7.62279 6.21202 160 C - - > 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 56 8.94781 8.07969 9.92622 0.00049 161 U - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 57 0.34759 4.52315 1.34426 3.81546 162 A - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97660 7.97660 1.46634 0.26236 1.09861 0.40547 58 3.36764 0.21176 4.81681 1.90866 163 C - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97344 7.97344 1.46634 0.26236 1.09861 0.40547 59 1.58734 1.41400 1.37824 1.20284 164 u - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97344 7.97344 1.46634 0.26236 1.09861 0.40547 60 1.16178 1.50524 1.63438 1.30921 165 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 61 1.09277 2.16383 1.20291 1.38825 166 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 62 1.09251 1.77260 1.65684 1.19074 167 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 63 1.00471 1.66215 1.91983 1.21239 168 a - - : 1.38629 1.38629 1.38629 1.38629 0.00069 7.97015 7.97015 1.46634 0.26236 1.09861 0.40547 64 1.44106 1.17418 1.71301 1.29489 169 c - - : 1.38629 1.38629 1.38629 1.38629 0.00035 7.96981 * 1.46634 0.26236 0.00000 * //