INFERNAL1/a [1.1.4 | Dec 2020] NAME Glutamine-II ACC RF01704 DESC Glutamine-II riboswitch (downstream peptide RNA) STATES 189 NODES 53 CLEN 60 W 101 ALPH RNA RF no CONS yes MAP yes DATE Mon Oct 24 08:59:02 2022 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/RF01704/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 628 EFFN 13.334076 CKSUM 3438379141 NULL 0.000 0.000 0.000 0.000 GA 33.00 TC 33.10 NC 32.40 EFP7GF -27.6123 0.71903 ECMLC 0.66011 -9.49465 0.11977 1600000 684630 0.001753 ECMGC 0.38029 -21.41146 -7.18169 1600000 89585 0.004465 ECMLI 0.65944 -8.21676 1.01764 1600000 529470 0.002266 ECMGI 0.37772 -18.24261 -4.57359 1600000 69878 0.005724 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 101 150 -9.032 -9.239 -0.029 -5.910 IL 1 1 2 1 4 4 24 103 153 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 4 24 103 152 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - a - - - ML 3 2 3 5 3 5 24 101 150 -9.950 -0.005 -8.604 0.521 -0.810 -0.112 0.096 D 4 2 3 5 3 1 19 99 148 -6.684 -2.197 -0.373 IL 5 5 3 5 3 4 23 102 151 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - a - - - ML 6 5 3 8 3 5 23 100 149 -9.950 -0.005 -8.604 0.624 -0.752 -1.441 0.582 D 7 5 3 8 3 1 19 98 148 -6.684 -1.050 -0.979 IL 8 8 3 8 3 3 22 101 150 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - a - - - ML 9 8 3 11 3 5 22 99 148 -9.965 -0.005 -8.619 0.892 -0.369 -1.377 -0.022 D 10 8 3 11 3 0 18 97 146 -6.241 -1.550 -0.632 IL 11 11 3 11 3 3 22 100 149 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - C - - - ML 12 11 3 14 3 5 21 98 147 -9.967 -0.005 -8.621 -4.981 1.950 -5.467 -3.587 D 13 11 3 14 3 0 17 96 145 -6.174 -1.687 -0.566 IL 14 14 3 14 3 2 21 99 148 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - G - - - ML 15 14 3 17 3 4 20 97 146 -9.967 -0.005 -8.621 -4.679 -6.280 1.973 -5.415 D 16 14 3 17 3 0 17 95 144 -6.174 -1.687 -0.566 IL 17 17 3 17 3 2 20 98 147 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - U - - - ML 18 17 3 20 3 4 19 96 145 -9.967 -0.005 -8.621 -4.872 -4.443 -5.692 1.964 D 19 17 3 20 3 0 16 94 143 -6.174 -1.687 -0.566 IL 20 20 3 20 3 2 19 97 146 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - U - - - ML 21 20 3 23 3 3 18 95 144 -9.967 -0.005 -8.621 -3.471 -1.277 -4.212 1.784 D 22 20 3 23 3 0 16 93 142 -6.174 -1.687 -0.566 IL 23 23 3 23 3 2 18 96 145 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - C - - - ML 24 23 3 26 3 2 17 94 143 -9.967 -0.005 -8.621 -3.832 1.794 -1.639 -2.834 D 25 23 3 26 3 0 16 93 142 -6.174 -1.687 -0.566 IL 26 26 3 26 3 2 18 95 144 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - A - - - ML 27 26 3 29 2 1 16 93 142 -10.562 -0.001 1.725 -4.138 -0.804 -3.976 D 28 26 3 29 2 0 15 92 141 -8.445 -0.004 IL 29 29 3 29 2 1 17 94 143 -1.823 -0.479 0.000 0.000 0.000 0.000 [ BIF 10 ] - - - - - - B 30 29 3 31 78 0 15 92 141 [ BEGL 11 ] - - - - - - S 31 30 1 32 4 0 0 57 106 -0.017 -8.232 -7.639 -8.279 [ MATP 12 ] 10 63 c g - - MP 32 31 1 36 6 2 2 57 106 -10.268 -10.208 -0.009 -8.984 -9.264 -9.659 -3.356 0.703 -3.497 0.205 -2.485 -4.346 2.289 -3.552 -3.501 0.771 -4.054 -1.474 2.228 -2.671 -0.730 -2.528 ML 33 31 1 36 6 1 1 55 104 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 34 31 1 36 6 1 1 55 104 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 35 31 1 36 6 0 0 51 100 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 36 36 5 36 6 1 1 56 105 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 37 37 6 37 5 1 1 56 105 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 11 62 C G - - MP 38 37 6 42 6 2 2 55 104 -10.268 -10.208 -0.010 -8.984 -8.763 -9.659 -6.663 -6.824 -6.080 -2.955 -4.484 -6.291 3.620 -5.375 -6.153 -2.865 -6.321 -4.978 1.563 -6.554 -1.895 -4.945 ML 39 37 6 42 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 40 37 6 42 6 1 1 53 102 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 41 37 6 42 6 0 0 49 98 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 42 42 5 42 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 43 43 6 43 5 1 1 54 103 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 12 61 C G - - MP 44 43 6 48 6 2 2 53 102 -10.267 -10.207 -0.085 -7.981 -6.999 -4.508 -4.885 -4.647 -3.573 -0.374 -3.726 -5.626 3.162 -4.396 -4.746 0.195 -5.231 -2.287 1.926 -5.059 -0.638 -3.497 ML 45 43 6 48 6 1 1 51 100 -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 51 100 -7.013 -5.742 -1.575 -5.720 -0.854 -3.933 0.397 -0.481 -0.018 -0.030 D 47 43 6 48 6 0 0 47 97 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 48 48 5 48 6 1 1 52 101 -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 52 101 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 13 60 c g - - MP 50 49 6 54 6 2 2 51 100 -10.193 -10.132 -0.298 -8.909 -4.792 -2.769 -4.268 -4.103 -4.322 1.079 -3.209 -5.165 2.610 -4.022 -4.235 0.344 -4.761 -1.742 2.275 -4.494 -0.531 -2.397 ML 51 49 6 54 6 1 1 49 98 -6.333 -6.679 -1.196 -1.087 -6.528 -4.058 0.567 -0.522 -0.226 -0.049 MR 52 49 6 54 6 1 1 50 99 -7.201 -5.930 -1.353 -5.909 -0.968 -4.122 0.415 -0.256 -0.455 0.138 D 53 49 6 54 6 0 0 46 95 -10.436 -9.135 -4.932 -5.614 -5.631 -0.114 IL 54 54 5 54 6 1 1 51 100 -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 50 100 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 14 59 g c - - MP 56 55 6 60 4 2 2 49 99 -1.290 -8.731 -0.791 -6.542 -1.981 -2.125 -2.914 1.889 -2.939 -3.716 1.614 -3.248 -3.027 2.077 -3.544 -0.188 0.999 -3.002 -0.637 -2.072 ML 57 55 6 60 4 1 1 47 96 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 58 55 6 60 4 1 1 48 98 -1.053 -4.843 -2.396 -1.771 -0.524 1.015 -1.270 -0.203 D 59 55 6 60 4 0 0 45 94 -6.164 -7.136 -0.177 -3.407 IL 60 60 5 60 4 1 1 49 98 -0.950 -1.166 -4.860 -8.680 0.000 0.000 0.000 0.000 IR 61 61 6 61 3 1 1 46 95 -3.447 -0.161 -6.147 0.000 0.000 0.000 0.000 [ MATL 17 ] 31 - u - - - ML 62 61 6 64 3 1 1 45 94 -9.963 -0.005 -8.617 0.120 -0.278 -0.736 0.574 D 63 61 6 64 3 0 0 43 92 -6.304 -1.606 -0.602 IL 64 64 3 64 3 1 1 46 95 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 32 - U - - - ML 65 64 3 67 3 1 1 44 93 -9.965 -0.005 -8.619 -0.500 -0.114 -1.678 1.040 D 66 64 3 67 3 0 0 42 91 -6.238 -1.555 -0.629 IL 67 67 3 67 3 1 1 45 94 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 33 - u - - - ML 68 67 3 70 3 1 1 43 92 -9.967 -0.078 -4.269 0.284 -0.414 -1.838 0.809 D 69 67 3 70 3 0 0 40 89 -6.174 -1.687 -0.566 IL 70 70 3 70 3 1 1 44 93 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 34 - u - - - ML 71 70 3 73 3 1 1 42 91 -1.787 -1.482 -1.505 0.281 -0.615 -0.681 0.593 D 72 70 3 73 3 0 0 36 85 -4.668 -1.405 -0.778 IL 73 73 3 73 3 1 1 45 94 -0.540 -1.705 -7.504 0.000 0.000 0.000 0.000 [ MATL 21 ] 57 - a - - - ML 74 73 3 76 2 1 1 1 1 * 0.000 0.567 -0.146 -0.792 0.053 D 75 73 3 76 2 0 0 0 0 * 0.000 IL 76 76 3 76 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 22 ] - - - - - - E 77 76 3 -1 0 0 0 0 0 [ BEGR 23 ] - - - - - - S 78 30 1 79 3 0 4 49 67 -9.967 -0.005 -8.621 IL 79 79 2 79 3 1 4 53 72 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 64 - C - - - ML 80 79 2 82 3 1 4 49 67 -9.967 -0.005 -8.621 -3.254 1.781 -4.360 -1.288 D 81 79 2 82 3 0 0 48 67 -6.174 -1.687 -0.566 IL 82 82 3 82 3 1 3 52 71 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 65 - G - - - ML 83 82 3 85 3 1 3 48 66 -9.967 -0.005 -8.621 -4.679 -6.280 1.973 -5.415 D 84 82 3 85 3 0 0 47 66 -6.174 -1.687 -0.566 IL 85 85 3 85 3 1 3 51 70 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 66 - C - - - ML 86 85 3 88 3 1 2 47 65 -9.967 -0.005 -8.621 -5.269 1.966 -5.764 -4.368 D 87 85 3 88 3 0 0 46 65 -6.174 -1.687 -0.566 IL 88 88 3 88 3 1 2 50 69 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 67 - A - - - ML 89 88 3 91 3 1 1 46 64 -9.967 -0.380 -2.117 1.975 -5.806 -5.221 -5.458 D 90 88 3 91 3 0 0 45 64 -6.174 -1.687 -0.566 IL 91 91 3 91 3 1 2 49 68 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 68 - G - - - ML 92 91 3 94 3 1 1 45 63 -8.571 -0.152 -3.359 -0.787 -2.228 1.340 -0.567 D 93 91 3 94 3 0 0 43 62 -9.414 -2.176 -0.363 IL 94 94 3 94 3 1 2 48 67 -1.456 -0.788 -4.156 0.000 0.000 0.000 0.000 [ MATL 29 ] 70 - U - - - ML 95 94 3 97 3 1 2 44 62 -9.547 -0.007 -8.201 -0.509 -1.275 -0.886 1.228 D 96 94 3 97 3 0 0 43 61 -9.547 -0.186 -3.065 IL 97 97 3 97 3 1 1 47 66 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 30 ] 71 - U - - - ML 98 97 3 100 3 1 2 42 61 -9.945 -0.005 -8.599 0.063 -1.161 -1.251 1.062 D 99 97 3 100 3 0 0 42 61 -6.818 -0.840 -1.210 IL 100 100 3 100 3 1 1 46 65 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 72 - c - - - ML 101 100 3 103 3 1 1 41 60 -9.967 -0.070 -4.435 -0.300 0.840 -0.454 -0.583 D 102 100 3 103 3 0 0 41 60 -6.174 -1.687 -0.566 IL 103 103 3 103 3 1 1 45 64 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 73 - G - - - ML 104 103 3 106 3 1 1 40 59 -9.902 -0.005 -8.557 0.082 -1.184 1.087 -1.406 D 105 103 3 106 3 0 0 39 58 -7.563 -3.076 -0.191 IL 106 106 3 106 3 1 1 44 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 74 - A - - - ML 107 106 3 109 5 1 1 39 58 -8.889 -0.041 -6.068 -6.643 -9.808 1.598 -1.231 -2.581 -1.398 D 108 106 3 109 5 0 0 38 57 -5.894 -0.365 -5.155 -3.530 -3.442 IL 109 109 3 109 5 1 1 40 58 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 34 ] 75 102 c g - - MP 110 109 3 114 6 2 2 38 57 -10.247 -10.186 -0.010 -8.962 -9.242 -9.637 -1.745 -2.190 -2.048 1.521 -1.477 -3.007 2.010 -1.602 -1.802 1.092 -2.646 -0.474 1.317 -2.411 0.127 -1.124 ML 111 109 3 114 6 1 1 37 55 -6.597 -6.943 -0.914 -1.352 -6.793 -4.323 0.771 -0.591 -0.485 -0.128 MR 112 109 3 114 6 1 1 37 55 -7.189 -5.918 -1.279 -5.896 -1.030 -4.110 0.586 -0.400 -0.413 -0.014 D 113 109 3 114 6 0 0 34 53 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 114 114 5 114 6 1 1 38 56 -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 38 56 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 35 ] 76 101 c g - - MP 116 115 6 120 6 2 2 36 55 -10.268 -10.208 -0.009 -8.984 -9.264 -9.659 -3.909 -3.854 -3.585 0.392 -3.314 -4.855 2.454 -3.872 -3.964 0.187 -3.258 -1.600 2.365 -4.170 0.793 -2.244 ML 117 115 6 120 6 1 1 35 53 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 118 115 6 120 6 1 1 35 53 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 119 115 6 120 6 0 0 32 51 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 120 120 5 120 6 1 1 36 54 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 121 121 6 121 5 1 1 36 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 77 100 C G - - MP 122 121 6 126 6 2 2 34 53 -10.268 -10.208 -0.009 -8.984 -9.264 -9.659 -4.716 -4.463 -4.715 0.103 -3.464 -5.529 3.028 -4.284 -4.600 1.208 -5.104 -2.097 1.634 -4.902 -0.656 -3.353 ML 123 121 6 126 6 1 1 33 51 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 124 121 6 126 6 1 1 33 51 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 125 121 6 126 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 126 126 5 126 6 1 1 34 52 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 127 127 6 127 5 1 1 34 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 37 ] 78 99 A U - - MP 128 127 6 132 6 2 2 32 51 -10.268 -10.208 -0.013 -7.893 -9.264 -9.659 -4.142 -3.496 -4.167 3.020 -4.141 -4.965 0.864 -4.385 -3.642 1.333 -4.741 0.148 0.578 -4.239 -1.626 -3.127 ML 129 127 6 132 6 1 1 31 49 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 130 127 6 132 6 1 1 31 49 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 131 127 6 132 6 0 0 28 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 132 132 5 132 6 1 1 32 50 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 133 133 6 133 5 1 1 32 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 38 ] 79 98 g c - - MP 134 133 6 138 6 2 2 30 49 -6.310 -10.204 -0.239 -4.040 -9.261 -3.708 -3.303 -2.545 -3.621 2.393 -3.072 -4.364 0.719 -4.027 -3.812 2.394 -3.938 -0.765 0.951 -3.476 -1.510 -2.592 ML 135 133 6 138 6 1 1 29 47 -6.343 -6.689 -1.183 -1.098 -6.539 -4.068 0.583 -0.533 -0.235 -0.057 MR 136 133 6 138 6 1 1 29 47 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 137 133 6 138 6 0 0 27 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 138 138 5 138 6 1 1 30 48 -2.911 -3.174 -0.568 -4.829 -5.605 -5.265 0.000 0.000 0.000 0.000 IR 139 139 6 139 5 1 1 30 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 39 ] 81 97 G C - - MP 140 139 6 144 4 2 2 28 47 -8.567 -9.812 -0.377 -2.146 -4.318 -2.994 -4.149 1.855 -5.190 -4.754 -0.131 -4.811 -4.568 3.145 -4.214 -0.442 -0.067 -4.014 -2.019 -2.353 ML 141 139 6 144 4 1 1 28 46 -4.641 -6.765 -0.211 -3.523 1.430 -1.506 -1.207 -0.944 MR 142 139 6 144 4 1 1 27 46 -4.102 -12.528 -0.390 -2.485 0.368 -0.385 -0.191 0.094 D 143 139 6 144 4 0 0 25 44 -16.577 -17.847 -5.875 -0.025 IL 144 144 5 144 4 1 1 28 46 -2.817 -4.319 -0.613 -2.698 0.000 0.000 0.000 0.000 IR 145 145 6 145 3 1 1 28 47 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 40 ] - 96 - A - - MR 146 145 6 148 5 1 1 26 45 -8.501 -0.022 -6.908 -8.528 -9.420 1.088 -2.689 0.510 -1.764 D 147 145 6 148 5 0 0 25 44 -7.903 -0.251 -5.529 -6.960 -2.992 IR 148 148 3 148 5 1 1 27 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 82 95 c g - - MP 149 148 3 153 6 2 2 25 44 -10.230 -10.170 -0.011 -8.946 -9.226 -8.802 -4.141 -3.975 -4.209 0.698 -3.422 -5.047 2.926 -3.997 -4.152 1.072 -4.076 0.051 0.734 -4.367 0.410 -3.006 ML 150 148 3 153 6 1 1 24 43 -6.369 -6.715 -1.150 -1.124 -6.565 -4.095 0.319 -0.570 0.197 -0.100 MR 151 148 3 153 6 1 1 24 43 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 152 148 3 153 6 0 0 23 41 -9.954 -8.652 -2.118 -5.132 -5.149 -0.495 IL 153 153 5 153 6 1 1 25 44 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 154 154 6 154 5 1 1 25 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 42 ] 83 94 C G - - MP 155 154 6 159 4 2 2 23 42 -9.002 -1.871 -0.475 -7.623 -6.093 -6.052 -5.729 -2.041 -4.277 -6.117 3.631 -2.738 -5.732 -1.220 -6.014 -3.901 1.132 -6.102 -1.615 -4.503 ML 156 154 6 159 4 1 1 23 41 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 157 154 6 159 4 1 1 23 41 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 158 154 6 159 4 0 0 22 40 -5.178 -1.485 -2.660 -1.130 IL 159 159 5 159 4 1 1 24 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 160 160 6 160 3 1 1 22 41 -3.293 -0.181 -5.993 0.000 0.000 0.000 0.000 [ MATL 43 ] 84 - A - - - ML 161 160 6 163 3 1 1 21 39 -9.967 -0.005 -8.621 1.957 -5.124 -4.826 -4.191 D 162 160 6 163 3 0 0 21 39 -6.174 -1.687 -0.566 IL 163 163 3 163 3 1 1 25 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 85 - U - - - ML 164 163 3 166 3 1 1 20 38 -9.967 -0.005 -8.621 -0.539 -1.488 -0.230 1.072 D 165 163 3 166 3 0 0 20 38 -6.174 -1.687 -0.566 IL 166 166 3 166 3 1 1 24 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 86 - G - - - ML 167 166 3 169 3 1 1 18 37 -9.967 -0.005 -8.621 -1.420 -4.652 1.819 -4.121 D 168 166 3 169 3 0 0 19 37 -6.174 -1.687 -0.566 IL 169 169 3 169 3 1 1 23 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 87 - G - - - ML 170 169 3 172 3 1 1 17 36 -9.967 -0.005 -8.621 -2.315 -1.427 1.729 -3.165 D 171 169 3 172 3 0 0 18 36 -6.174 -1.687 -0.566 IL 172 172 3 172 3 1 1 22 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 88 - A - - - ML 173 172 3 175 3 1 1 16 35 -9.967 -0.005 -8.621 1.794 -4.208 -1.255 -4.054 D 174 172 3 175 3 0 0 17 35 -6.174 -1.687 -0.566 IL 175 175 3 175 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 89 - A - - - ML 176 175 3 178 3 1 1 15 33 -9.967 -0.005 -8.621 1.975 -5.806 -5.221 -5.458 D 177 175 3 178 3 0 0 16 34 -6.174 -1.687 -0.566 IL 178 178 3 178 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 49 ] 90 - C - - - ML 179 178 3 181 3 1 1 13 32 -9.967 -0.005 -8.621 -3.990 1.930 -4.956 -3.392 D 180 178 3 181 3 0 0 15 33 -6.174 -1.687 -0.566 IL 181 181 3 181 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 50 ] 91 - G - - - ML 182 181 3 184 3 1 1 12 30 -9.967 -0.005 -8.621 -4.679 -6.280 1.973 -5.415 D 183 181 3 184 3 0 0 13 32 -6.174 -1.687 -0.566 IL 184 184 3 184 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 51 ] 92 - G - - - ML 185 184 3 187 2 1 1 1 1 * 0.000 -4.679 -6.280 1.973 -5.415 D 186 184 3 187 2 0 0 0 0 * 0.000 IL 187 187 3 187 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 52 ] - - - - - - E 188 187 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME Glutamine-II ACC RF01704 DESC Glutamine-II riboswitch (downstream peptide RNA) LENG 60 MAXL 111 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon Oct 24 08:59:02 2022 COM [1] /hps/software/users/agb/rfam/bin/cmbuild -F CM SEED NSEQ 628 EFFN 523.382812 CKSUM 3438379141 STATS LOCAL MSV -8.0024 0.71903 STATS LOCAL VITERBI -8.4926 0.71903 STATS LOCAL FORWARD -4.0693 0.71903 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.37988 1.38134 1.25642 1.54891 1.38629 1.38629 1.38629 1.38629 0.01197 8.74718 4.44505 1.46634 0.26236 0.00000 * 1 0.94373 2.17744 1.36562 1.41769 1 a - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.73553 8.73553 1.46634 0.26236 4.32885 0.01327 2 0.84468 2.11887 3.22366 0.89080 2 a - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.73553 8.73553 1.46634 0.26236 0.02672 3.63570 3 0.62466 1.63600 2.98000 1.51865 3 A - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74718 8.74718 1.46634 0.26236 1.09861 0.40547 4 8.56114 0.01007 8.85904 4.63666 4 C - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 5 8.04416 9.26767 0.00061 8.56649 5 G - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 6 9.92016 8.98370 10.98492 0.00019 6 U - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 7 8.62254 2.27871 9.22424 0.10836 7 U - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 8 7.73781 0.13304 2.17960 4.50567 8 C - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 9 0.15279 8.32615 1.95770 8.24885 9 A - - : 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 10 1.63060 1.07040 2.53282 0.96265 10 u - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 11 8.21570 0.20219 8.15250 1.70097 11 C - - < 1.38629 1.38629 1.38629 1.38629 0.00136 8.74862 6.72549 1.46634 0.26236 1.09861 0.40547 12 4.27061 0.37315 3.36398 1.33610 12 C - - < 1.38629 1.38629 1.38629 1.38629 0.07879 8.74758 2.58222 1.46634 0.26236 0.23466 1.56464 13 1.96603 0.82563 3.43876 0.94180 13 c - - < 1.38629 1.38629 1.38629 1.38629 0.26748 8.67026 1.45019 1.46634 0.26236 1.81463 0.17781 14 1.01616 1.53926 1.15576 2.21953 14 a - - < 1.38629 1.38629 1.38629 1.38629 0.72178 0.67354 5.46890 0.70318 0.68321 0.00113 6.78372 15 1.36989 1.56379 2.03822 0.90075 31 u - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74574 8.74574 1.46634 0.26236 0.70737 0.67912 16 1.96422 1.44304 3.19994 0.53998 32 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74724 8.74724 1.46634 0.26236 0.18719 1.76778 17 1.14127 1.74295 4.21033 0.71184 33 u - - _ 1.38629 1.38629 1.38629 1.38629 0.05485 8.74862 2.93345 1.46634 0.26236 1.09861 0.40547 18 1.19079 1.95238 1.98702 0.87471 34 u - - _ 1.38629 1.38629 1.38629 1.38629 0.97370 1.11059 1.22775 1.28774 0.32282 0.82860 0.57387 19 0.85571 1.37814 2.21192 1.54422 57 a - - _ 1.38629 1.38629 1.38629 1.38629 0.77841 0.94990 1.87026 0.00118 6.73967 0.82195 0.57906 20 2.31643 1.11308 1.52843 1.03295 59 u - - > 1.38629 1.38629 1.38629 1.38629 0.00468 8.42198 5.41410 1.46634 0.26236 0.27046 1.43981 21 1.01232 3.46083 0.78722 1.89635 60 g - - > 1.38629 1.38629 1.38629 1.38629 0.00034 8.67725 8.67725 1.46634 0.26236 0.00459 5.38702 22 1.42268 3.36775 0.33561 4.64982 61 G - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 23 1.72097 8.25824 0.19784 7.96319 62 G - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 24 0.99105 1.33473 1.06604 3.85311 63 a - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 25 4.87289 0.11070 7.88906 2.33545 64 C - - - 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 26 8.04416 9.26767 0.00061 8.56649 65 G - - - 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 27 9.29970 0.00040 9.81526 8.29427 66 C - - - 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 28 0.00051 9.03776 8.51013 8.57705 67 A - - - 1.38629 1.38629 1.38629 1.38629 0.29999 8.74862 1.35088 1.46634 0.26236 1.09861 0.40547 29 2.27163 4.41276 0.34441 1.73672 68 G - - - 1.38629 1.38629 1.38629 1.38629 0.12043 6.32373 2.19224 0.22375 1.60701 1.55643 0.23685 30 2.05483 2.98022 2.05347 0.36699 70 U - - - 1.38629 1.38629 1.38629 1.38629 0.00045 8.41045 8.41045 1.46634 0.26236 0.06306 2.79508 31 1.36547 2.68040 2.66968 0.49934 71 U - - - 1.38629 1.38629 1.38629 1.38629 0.00032 8.73123 8.73123 1.46634 0.26236 0.01807 4.02251 32 1.78044 0.59863 1.63891 2.43405 72 C - - - 1.38629 1.38629 1.38629 1.38629 0.05121 8.74862 3.00045 1.46634 0.26236 1.09861 0.40547 33 1.28183 2.28341 0.54334 3.22565 73 G - - - 1.38629 1.38629 1.38629 1.38629 0.00033 8.69774 8.69774 1.46634 0.26236 5.75453 0.00317 34 0.20238 2.29606 4.30675 2.67242 74 A - - - 1.38629 1.38629 1.38629 1.38629 0.00980 8.69774 4.64804 1.46634 0.26236 0.00636 5.06139 35 1.44073 0.96343 1.73591 1.58267 75 c - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.73964 8.73964 1.46634 0.26236 0.03426 3.39082 36 3.03721 0.97152 3.59030 0.60526 76 U - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 37 3.42801 0.45877 1.92587 1.66210 77 C - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 38 0.31178 2.65798 2.02165 2.72831 78 A - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 39 0.72833 2.64417 1.14515 2.05535 79 a - - < 1.38629 1.38629 1.38629 1.38629 0.14421 4.00052 2.15428 0.01725 4.06873 1.09861 0.40547 40 1.07426 4.15158 0.52835 2.93498 81 G - - < 1.38629 1.38629 1.38629 1.38629 0.02495 8.62552 3.71057 1.46634 0.26236 0.13219 2.08887 41 2.52439 0.49343 1.59435 2.24126 82 C - - < 1.38629 1.38629 1.38629 1.38629 0.00184 8.71242 6.39174 1.46634 0.26236 0.92814 0.50301 42 7.70069 0.14535 4.40299 2.09891 83 C - - < 1.38629 1.38629 1.38629 1.38629 0.00032 8.72543 8.72543 1.46634 0.26236 0.01365 4.30065 43 0.01111 8.94457 8.50249 4.53614 84 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 44 2.14004 3.27515 1.43134 0.50162 85 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 45 2.28996 9.19019 0.10711 8.52711 86 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 46 4.20843 2.17805 0.13750 7.99862 87 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 47 0.10861 8.39853 2.27845 8.28194 88 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 48 0.00051 9.03776 8.51013 8.57705 89 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 49 4.88929 0.01818 7.98128 4.59076 90 C - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 50 8.04416 9.26767 0.00061 8.56649 91 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 51 8.04416 9.26767 0.00061 8.56649 92 G - - _ 1.38629 1.38629 1.38629 1.38629 0.35460 1.21426 6.42794 0.00107 6.84207 1.09861 0.40547 52 2.13940 4.41404 0.15007 4.65419 94 G - - > 1.38629 1.38629 1.38629 1.38629 0.04124 8.74717 3.21286 1.46634 0.26236 0.17933 1.80686 53 4.35537 2.17550 0.34350 1.80590 95 G - - > 1.38629 1.38629 1.38629 1.38629 0.34538 8.70778 1.23139 1.46634 0.26236 2.16935 0.12132 54 0.55685 7.55906 0.92731 3.47855 96 A - - - 1.38629 1.38629 1.38629 1.38629 0.14030 8.36941 2.03508 1.46634 0.26236 0.46398 0.99096 55 3.22954 0.44861 3.64998 1.21767 97 C - - > 1.38629 1.38629 1.38629 1.38629 0.00475 8.51759 5.39509 1.46634 0.26236 0.00154 6.47930 56 2.04566 1.15528 2.64599 0.72402 98 u - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74517 8.74517 1.46634 0.26236 0.08443 2.51378 57 2.73560 2.86493 2.60950 0.21743 99 U - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 58 1.76284 1.92897 0.43060 3.41046 100 G - - > 1.38629 1.38629 1.38629 1.38629 0.00032 8.74862 8.74862 1.46634 0.26236 1.09861 0.40547 59 0.91558 4.17315 0.64495 2.81970 101 G - - > 1.38629 1.38629 1.38629 1.38629 0.01453 8.74862 4.24988 1.46634 0.26236 1.09861 0.40547 60 1.72468 2.02291 0.90488 1.25558 102 g - - > 1.38629 1.38629 1.38629 1.38629 0.00016 8.73425 * 1.46634 0.26236 0.00000 * //