INFERNAL1/a [1.1.4 | Dec 2020] NAME HCV_SLVII ACC RF00468 DESC Hepatitis C virus stem-loop VII STATES 199 NODES 50 CLEN 65 W 81 ALPH RNA RF no CONS yes MAP yes DATE Mon Apr 11 11:08:32 2022 COM [1] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmcalibrate --cpu 8 /hps/nobackup/production/xfam/rfam/RELEASES/14.8/HCV/rfam_alignments/RF00468/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 110 EFFN 4.038391 CKSUM 2012041254 NULL 0.000 0.000 0.000 0.000 GA 59.00 TC 59.50 NC 36.00 EFP7GF -12.0561 0.71913 ECMLC 0.67721 -5.25602 2.92920 1600000 306559 0.003914 ECMGC 0.46684 -16.35121 -4.27360 1600000 112396 0.003559 ECMLI 0.64530 -3.95206 3.99515 1600000 202476 0.005927 ECMGI 0.48623 -12.56503 -1.47908 1600000 87706 0.004561 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 81 100 -7.625 -7.832 -0.033 -6.246 IL 1 1 2 1 4 1 20 85 105 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 20 84 104 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - A - - - ML 3 2 3 5 3 1 19 81 100 -8.602 -0.013 -7.256 1.281 -0.342 -1.691 -1.084 D 4 2 3 5 3 0 14 79 99 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 19 83 102 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - a - - - ML 6 5 3 8 3 1 18 80 99 -8.602 -0.013 -7.256 0.565 -0.612 0.273 -0.604 D 7 5 3 8 3 0 13 78 98 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 18 82 101 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - c - - - ML 9 8 3 11 3 1 18 79 98 -8.602 -0.013 -7.256 -0.494 0.577 -0.009 -0.314 D 10 8 3 11 3 0 12 77 97 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 17 81 100 -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 17 78 97 -8.602 -0.013 -7.256 -1.326 0.314 -2.138 1.091 D 13 11 3 14 3 0 11 76 96 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 16 80 99 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - u - - - ML 15 14 3 17 3 1 16 77 96 -8.602 -0.013 -7.256 -0.671 0.449 -1.574 0.741 D 16 14 3 17 3 0 10 75 95 -6.174 -1.687 -0.566 IL 17 17 3 17 3 1 15 79 98 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - A - - - ML 18 17 3 20 3 1 15 75 95 -8.959 -0.012 -7.276 1.254 -1.233 -0.950 -0.575 D 19 17 3 20 3 0 9 74 93 -5.620 -0.734 -1.403 IL 20 20 3 20 3 1 13 76 96 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 66 - g - - MR 21 20 3 23 3 1 14 74 94 -8.959 -0.012 -7.276 0.157 -1.001 0.872 -0.849 D 22 20 3 23 3 0 6 73 92 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 12 75 94 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 65 - a - - MR 24 23 3 26 3 1 13 73 93 -8.959 -0.012 -7.276 0.842 -2.067 0.696 -1.519 D 25 23 3 26 3 0 5 72 91 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 11 74 93 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 64 - A - - MR 27 26 3 29 3 1 13 72 92 -8.959 -0.012 -7.276 1.585 -1.228 -2.012 -1.618 D 28 26 3 29 3 0 4 71 90 -6.390 -1.568 -0.620 IR 29 29 3 29 3 1 10 73 92 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 63 - a - - MR 30 29 3 32 3 1 12 71 91 -8.959 -0.012 -7.276 0.772 -1.884 0.677 -1.241 D 31 29 3 32 3 0 3 70 89 -6.390 -1.568 -0.620 IR 32 32 3 32 3 1 9 72 91 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 62 - U - - MR 33 32 3 35 5 1 12 70 90 -7.664 -0.026 -7.480 -7.692 -8.583 -2.695 -2.493 -3.468 1.839 D 34 32 3 35 5 0 3 69 88 -5.352 -0.707 -2.978 -4.409 -2.404 IR 35 35 3 35 5 1 7 71 90 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 7 61 c g - - MP 36 35 3 40 6 2 12 69 89 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -4.791 -4.857 -4.439 -1.066 -3.062 -4.805 2.718 -3.886 -4.483 -0.932 -4.752 -2.934 0.653 -4.816 2.622 -3.316 ML 37 35 3 40 6 1 4 68 87 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 38 35 3 40 6 1 4 68 87 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 39 35 3 40 6 0 0 65 85 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 40 40 5 40 6 1 6 69 88 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 41 41 6 41 5 1 6 69 88 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 8 60 u a - - MP 42 41 6 46 6 2 11 67 87 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -1.955 -2.127 -2.139 1.048 -1.820 -2.185 1.912 -2.091 -2.190 0.839 -2.758 -0.673 1.936 -2.085 0.489 -1.090 ML 43 41 6 46 6 1 4 66 85 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 44 41 6 46 6 1 4 66 85 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 45 41 6 46 6 0 0 63 83 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 46 46 5 46 6 1 5 67 86 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 47 47 6 47 5 1 6 67 86 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 9 59 G C - - MP 48 47 6 52 6 2 9 65 85 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -4.194 -1.558 -4.140 0.588 -4.924 -4.455 -0.314 -4.714 -4.235 3.438 -4.535 -0.589 -0.579 -0.907 -2.270 -3.139 ML 49 47 6 52 6 1 4 64 83 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 50 47 6 52 6 1 4 64 83 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 51 47 6 52 6 0 0 61 81 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 52 52 5 52 6 1 5 65 84 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 53 53 6 53 5 1 5 65 84 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 10 58 c g - - MP 54 53 6 58 6 2 8 63 83 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -3.871 -3.910 -3.805 -0.301 -2.855 -4.412 2.798 -3.542 -3.824 -0.176 -1.955 -2.038 0.758 -4.055 2.138 -2.753 ML 55 53 6 58 6 1 3 62 81 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 56 53 6 58 6 1 3 62 81 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 57 53 6 58 6 0 0 60 79 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 58 58 5 58 6 1 4 63 82 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 59 59 6 59 5 1 5 63 82 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 11 57 C G - - MP 60 59 6 64 6 2 6 61 81 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -5.124 -5.172 -4.697 -1.310 -3.239 -5.013 3.615 -4.097 -4.751 -1.166 -4.973 -3.196 0.245 -5.112 0.172 -3.558 ML 61 59 6 64 6 1 3 60 79 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 62 59 6 64 6 1 2 60 79 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 63 59 6 64 6 0 0 58 77 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 64 64 5 64 6 1 4 61 80 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 65 65 6 65 5 1 3 61 80 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 12 56 C G - - MP 66 65 6 70 4 2 4 59 79 -1.790 -7.832 -0.590 -4.565 -5.732 -5.729 -5.438 -1.996 -4.227 -5.832 3.820 -5.170 -5.586 -1.834 -2.748 -3.762 -0.802 -5.860 -1.692 -4.456 ML 67 65 6 70 4 1 2 58 78 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 68 65 6 70 4 1 1 58 77 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 69 65 6 70 4 0 0 57 76 -4.568 -4.250 -2.265 -0.520 IL 70 70 5 70 4 1 4 58 78 -3.265 -3.948 -0.287 -6.434 0.000 0.000 0.000 0.000 IR 71 71 6 71 3 1 3 60 79 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 14 - A - - - ML 72 71 6 74 3 1 3 56 75 -8.920 -0.013 -7.237 1.354 -1.642 -0.454 -1.344 D 73 71 6 74 3 0 0 55 74 -5.933 -0.558 -1.716 IL 74 74 3 74 3 1 1 57 76 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 19 ] - 55 - U - - MR 75 74 3 77 3 1 3 55 74 -8.959 -0.012 -7.276 -2.695 -2.493 -3.468 1.839 D 76 74 3 77 3 0 0 53 72 -6.390 -1.568 -0.620 IR 77 77 3 77 3 1 1 56 75 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 20 ] - 54 - C - - MR 78 77 3 80 3 1 3 54 73 -8.959 -0.012 -7.276 -1.669 1.357 -2.567 -0.066 D 79 77 3 80 3 0 0 52 71 -6.390 -1.568 -0.620 IR 80 80 3 80 3 1 1 55 74 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 21 ] - 53 - A - - MR 81 80 3 83 3 1 2 53 72 -8.959 -0.012 -7.276 1.890 -3.639 -3.156 -3.309 D 82 80 3 83 3 0 0 51 70 -6.390 -1.568 -0.620 IR 83 83 3 83 3 1 1 54 73 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 22 ] - 52 - A - - MR 84 83 3 86 3 1 2 52 71 -8.959 -0.012 -7.276 1.890 -3.639 -3.156 -3.309 D 85 83 3 86 3 0 0 51 70 -6.390 -1.568 -0.620 IR 86 86 3 86 3 1 1 53 72 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 23 ] - 51 - C - - MR 87 86 3 89 5 1 1 51 70 -7.664 -0.026 -7.480 -7.692 -8.583 -1.669 1.357 -2.567 -0.067 D 88 86 3 89 5 0 0 50 69 -5.352 -0.707 -2.978 -4.409 -2.404 IR 89 89 3 89 5 1 1 51 70 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 24 ] 15 50 g u - - MP 90 89 3 94 6 2 2 50 69 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -3.436 -2.357 -3.702 2.129 -4.147 -4.412 -0.039 -2.485 -3.415 1.146 -3.793 2.602 -0.330 -3.891 -1.880 -1.248 ML 91 89 3 94 6 1 1 49 68 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 92 89 3 94 6 1 1 48 67 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 93 89 3 94 6 0 0 46 65 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 94 94 5 94 6 1 1 50 69 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 95 95 6 95 5 1 1 49 68 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 16 49 G U - - MP 96 95 6 100 6 2 2 48 67 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -4.396 -3.040 -4.600 0.698 -6.038 -6.856 -1.538 -4.591 -4.149 0.334 -4.739 3.572 -1.770 -5.676 -3.449 -3.206 ML 97 95 6 100 6 1 1 47 66 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 98 95 6 100 6 1 1 47 66 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 99 95 6 100 6 0 0 44 63 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 100 100 5 100 6 1 1 48 67 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 101 101 6 101 5 1 1 47 66 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 17 48 G C - - MP 102 101 6 106 6 2 2 46 65 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -5.160 -3.363 -5.237 -0.108 -6.047 -4.906 -1.222 -5.707 -4.746 3.709 -2.262 -0.869 -1.512 -4.681 -3.267 -4.170 ML 103 101 6 106 6 1 1 45 64 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 104 101 6 106 6 1 1 45 64 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 105 101 6 106 6 0 0 42 61 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 106 106 5 106 6 1 1 46 65 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 107 107 6 107 5 1 1 45 64 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 27 ] 18 47 a u - - MP 108 107 6 112 6 2 2 44 63 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -3.566 -1.780 -3.732 2.451 -4.326 -4.735 -0.265 -3.958 -3.585 1.221 -4.056 2.347 -0.487 -4.014 -2.066 -0.947 ML 109 107 6 112 6 1 1 43 62 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 110 107 6 112 6 1 1 43 62 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 111 107 6 112 6 0 0 41 60 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 112 112 5 112 6 1 1 44 63 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 113 113 6 113 5 1 1 43 62 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 28 ] 19 46 G C - - MP 114 113 6 118 6 2 2 42 61 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -5.958 -3.694 -6.290 -0.668 -6.906 -5.142 -1.971 -6.536 -5.038 3.831 -5.308 -1.464 -2.334 -5.238 -4.094 -5.150 ML 115 113 6 118 6 1 1 42 61 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 116 113 6 118 6 1 1 41 61 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 117 113 6 118 6 0 0 40 59 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 118 118 5 118 6 1 1 42 61 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 119 119 6 119 5 1 1 42 61 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 29 ] 20 45 G C - - MP 120 119 6 124 4 2 2 40 59 -7.625 -7.832 -0.033 -6.246 -4.771 -3.141 -4.742 0.212 -5.591 -3.194 -0.773 -5.323 -4.588 3.567 -4.845 0.303 -1.057 -4.303 -2.796 -3.717 ML 121 119 6 124 4 1 1 41 60 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 122 119 6 124 4 1 1 41 60 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 123 119 6 124 4 0 0 40 59 -4.568 -4.250 -2.265 -0.520 IL 124 124 5 124 4 1 1 42 62 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 125 125 6 125 3 1 1 41 60 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 30 ] 21 - G - - - ML 126 125 6 128 3 1 1 38 56 -8.602 -0.013 -7.256 -0.250 -1.208 1.097 -0.767 D 127 125 6 128 3 0 0 37 56 -6.174 -1.687 -0.566 IL 128 128 3 128 3 1 1 40 59 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 22 - A - - - ML 129 128 3 131 3 1 1 36 55 -8.602 -0.013 -7.256 1.757 -2.815 -1.750 -2.469 D 130 128 3 131 3 0 0 35 54 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 39 58 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 23 - g - - - ML 132 131 3 134 3 1 1 35 54 -8.602 -0.013 -7.256 0.429 -1.814 0.988 -1.372 D 133 131 3 134 3 0 0 34 53 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 38 57 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 24 - g - - - ML 135 134 3 137 3 1 1 34 53 -8.959 -0.012 -7.276 0.346 -1.396 0.919 -1.126 D 136 134 3 137 3 0 0 33 52 -5.620 -0.734 -1.403 IL 137 137 3 137 3 1 1 35 54 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 34 ] - 44 - A - - MR 138 137 3 140 3 1 1 33 52 -8.959 -0.012 -7.276 1.890 -3.639 -3.156 -3.309 D 139 137 3 140 3 0 0 32 50 -6.390 -1.568 -0.620 IR 140 140 3 140 3 1 1 34 53 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 35 ] - 43 - U - - MR 141 140 3 143 3 1 1 32 51 -8.959 -0.012 -7.276 -2.695 -2.493 -3.468 1.839 D 142 140 3 143 3 0 0 31 49 -6.390 -1.568 -0.620 IR 143 143 3 143 3 1 1 33 52 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 36 ] - 42 - g - - MR 144 143 3 146 3 1 1 31 50 -8.959 -0.012 -7.276 0.218 -0.381 0.303 -0.259 D 145 143 3 146 3 0 0 30 48 -6.390 -1.568 -0.620 IR 146 146 3 146 3 1 1 32 51 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 37 ] - 41 - a - - MR 147 146 3 149 3 1 1 30 49 -8.959 -0.012 -7.276 0.541 -1.036 0.145 -0.071 D 148 146 3 149 3 0 0 29 47 -6.390 -1.568 -0.620 IR 149 149 3 149 3 1 1 31 50 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 38 ] - 40 - a - - MR 150 149 3 152 5 1 1 29 48 -7.664 -0.034 -6.510 -7.692 -8.583 0.886 0.121 -1.324 -0.588 D 151 149 3 152 5 0 0 28 47 -5.352 -0.707 -2.978 -4.409 -2.404 IR 152 152 3 152 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 ] 25 39 G C - - MP 153 152 3 157 6 2 2 28 47 -9.400 -9.339 -0.017 -8.116 -8.396 -8.791 -4.030 -2.757 -3.963 0.831 -4.768 -4.446 -0.138 -4.511 -2.766 3.325 -3.373 0.546 -0.404 -3.818 -2.101 -2.937 ML 154 152 3 157 6 1 1 27 45 -6.320 -6.666 -1.381 -0.937 -6.516 -4.046 0.365 -0.530 0.096 -0.074 MR 155 152 3 157 6 1 1 27 45 -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 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 157 157 5 157 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 158 158 6 158 5 1 1 28 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 40 ] 26 38 C G - - MP 159 158 6 163 6 2 2 26 45 -9.400 -9.339 -0.027 -8.116 -6.738 -8.791 -6.672 -6.638 -6.159 -2.864 -4.802 -6.393 3.906 -5.958 -6.455 -2.705 -3.874 -4.619 -1.600 -6.771 -2.859 -5.300 ML 160 158 6 163 6 1 1 25 44 -6.320 -6.666 -1.381 -0.937 -6.516 -4.046 0.275 -0.136 -0.362 0.139 MR 161 158 6 163 6 1 1 25 43 -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 23 41 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 163 163 5 163 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 164 164 6 164 5 1 1 26 44 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 27 37 c g - - MP 165 164 6 169 6 2 2 24 43 -9.391 -9.330 -0.017 -8.107 -8.386 -8.781 -2.232 -2.391 -1.143 0.693 -2.172 -3.211 2.210 -2.611 -2.444 0.650 0.546 -0.909 1.127 -2.545 0.978 -1.581 ML 166 164 6 169 6 1 1 23 42 -6.320 -6.666 -1.212 -1.075 -6.516 -4.046 0.272 -0.366 -0.300 0.268 MR 167 164 6 169 6 1 1 23 42 -7.113 -5.842 -1.395 -5.820 -0.954 -4.033 0.297 -0.589 0.240 -0.111 D 168 164 6 169 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 169 169 5 169 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 170 170 6 170 5 1 1 24 42 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 42 ] 28 36 g c - - MP 171 170 6 175 6 2 2 22 41 -9.404 -9.344 -0.017 -8.120 -8.400 -8.795 -3.514 -1.483 -3.563 1.445 -4.246 -4.210 0.145 -3.975 -3.640 2.550 -3.976 1.943 -0.121 -3.558 -1.752 -1.622 ML 172 170 6 175 6 1 1 22 41 -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 22 41 -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 20 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 175 175 5 175 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 176 176 6 176 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 43 ] 29 35 C G - - MP 177 176 6 181 4 2 2 20 39 -7.625 -7.832 -0.033 -6.246 -4.583 -4.683 -2.083 -1.396 -4.053 -5.278 3.764 -4.765 -4.731 -1.338 -3.041 -3.029 -0.760 -4.867 -2.155 -3.795 ML 178 176 6 181 4 1 1 22 40 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 179 176 6 181 4 1 1 21 40 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 180 176 6 181 4 0 0 20 39 -4.568 -4.250 -2.265 -0.520 IL 181 181 5 181 4 1 1 23 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 182 182 6 182 3 1 1 22 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 30 - c - - - ML 183 182 6 185 3 1 1 17 36 -8.602 -0.013 -7.256 -0.114 0.782 -1.230 -0.105 D 184 182 6 185 3 0 0 17 35 -6.174 -1.687 -0.566 IL 185 185 3 185 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 31 - A - - - ML 186 185 3 188 3 1 1 16 34 -8.602 -0.013 -7.256 1.745 -2.769 -1.664 -2.419 D 187 185 3 188 3 0 0 16 34 -6.174 -1.687 -0.566 IL 188 188 3 188 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 32 - U - - - ML 189 188 3 191 3 1 1 14 33 -8.602 -0.013 -7.256 -1.053 0.110 -1.934 1.123 D 190 188 3 191 3 0 0 15 33 -6.174 -1.687 -0.566 IL 191 191 3 191 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 33 - u - - - ML 192 191 3 194 3 1 1 13 31 -8.602 -0.013 -7.256 0.356 -0.337 -1.027 0.524 D 193 191 3 194 3 0 0 13 32 -6.174 -1.687 -0.566 IL 194 194 3 194 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 34 - U - - - ML 195 194 3 197 2 1 1 1 1 * 0.000 -2.695 -2.493 -3.468 1.839 D 196 194 3 197 2 0 0 0 0 * 0.000 IL 197 197 3 197 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 49 ] - - - - - - E 198 197 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME HCV_SLVII ACC RF00468 DESC Hepatitis C virus stem-loop VII LENG 65 MAXL 142 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon Apr 11 11:08:32 2022 COM [1] /nfs/production/xfam/rfam/rfam_rh74/software/bin/cmbuild -F CM SEED NSEQ 110 EFFN 5.455017 CKSUM 2012041254 STATS LOCAL MSV -8.0464 0.71913 STATS LOCAL VITERBI -8.4199 0.71913 STATS LOCAL FORWARD -3.5938 0.71913 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.45657 1.40986 1.21680 1.48451 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 0.00000 * 1 0.43890 1.60614 2.78626 2.37574 1 A - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 2 0.97770 1.81982 1.15363 1.92223 2 a - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 3 1.83835 0.91978 1.35389 1.69239 3 c - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 4 2.55324 1.13052 3.13227 0.58755 4 U - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 5 1.96196 1.02012 2.62420 0.85246 5 u - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 6 0.46392 2.34147 2.11737 1.86656 6 A - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 7 3.60806 0.84947 3.44315 0.66691 7 U - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 8 1.77055 1.26821 1.80542 0.95706 8 u - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 9 2.26749 3.14585 0.26468 2.45403 9 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 10 3.12552 0.74007 2.68149 0.89027 10 c - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 11 3.70639 0.20930 3.54792 1.99882 11 C - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 12 4.28447 0.08496 3.71301 3.14038 12 C - - < 1.38629 1.38629 1.38629 1.38629 0.41776 1.20532 3.17294 0.08148 2.54788 1.09861 0.40547 13 0.39561 2.67835 1.70973 2.56213 14 A - - - 1.38629 1.38629 1.38629 1.38629 0.02610 4.35189 4.35189 1.46634 0.26236 0.46821 0.98383 14 1.15613 2.93421 0.57913 2.63472 15 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 15 2.34267 3.95806 0.15123 3.68178 16 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 16 2.95420 3.81461 0.10390 3.70852 17 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 17 0.90685 3.27130 0.72721 2.59038 18 g - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 18 3.29571 4.24509 0.06869 4.19908 19 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 19 2.67912 3.27812 0.15406 3.31160 20 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 20 1.62927 2.30721 0.55341 2.04481 21 G - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 21 0.13363 3.62636 2.71547 3.43279 22 A - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 22 1.08227 2.82686 0.64216 2.57936 23 G - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 23 1.15194 2.46310 0.68179 2.37415 24 G - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 24 2.14606 2.90837 0.26778 2.75809 25 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 25 4.83778 0.03849 4.52405 3.96380 26 C - - < 1.38629 1.38629 1.38629 1.38629 0.03873 4.38170 3.66952 1.46634 0.26236 1.09861 0.40547 26 2.02284 1.06341 1.43950 1.25387 27 c - - < 1.38629 1.38629 1.38629 1.38629 0.02566 4.36864 4.36864 1.46634 0.26236 0.68367 0.70271 27 1.60952 2.72337 0.43631 2.43107 28 G - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 28 3.17562 0.13336 3.33677 3.04642 29 C - - < 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 29 1.49935 0.77799 2.32859 1.51429 30 c - - _ 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 30 0.14161 3.59251 2.64512 3.39566 31 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 31 2.29413 1.28469 2.94253 0.56268 32 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 32 1.12461 1.63003 2.15771 1.01141 33 u - - _ 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 33 3.63258 3.44028 4.17572 0.07674 34 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 34 3.25438 3.75798 0.09556 3.53365 35 G - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 35 2.80649 0.92959 2.52528 0.76608 36 u - - > 1.38629 1.38629 1.38629 1.38629 0.03173 4.38170 3.97780 1.46634 0.26236 1.09861 0.40547 36 1.91463 2.30052 0.47493 2.03664 37 G - - > 1.38629 1.38629 1.38629 1.38629 0.02549 4.37546 4.37546 1.46634 0.26236 1.25209 0.33674 37 4.22810 5.05454 0.02921 4.85040 38 G - - > 1.38629 1.38629 1.38629 1.38629 0.02549 4.37546 4.37546 1.46634 0.26236 1.25209 0.33674 38 2.90256 0.39917 2.67611 1.58274 39 C - - > 1.38629 1.38629 1.38629 1.38629 0.02549 4.37546 4.37546 1.46634 0.26236 0.84819 0.55895 39 0.72355 1.26146 2.44411 1.93149 40 a - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 40 0.99507 2.18272 1.25559 1.45817 41 a - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 41 1.24530 1.64209 1.13323 1.62669 42 g - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 42 3.63258 3.44028 4.17572 0.07674 43 U - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 43 0.05111 4.29557 3.93646 4.09353 44 A - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 44 3.53723 0.23791 3.26087 1.93600 45 C - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 45 4.32755 0.08391 4.11415 2.97705 46 C - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 46 3.26249 2.08778 3.06312 0.23445 47 U - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 47 3.90661 0.14573 3.24043 2.57241 48 C - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 48 3.87362 2.69422 3.73481 0.11907 49 U - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 49 3.17270 2.19275 2.91579 0.23277 50 U - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 50 2.81115 0.38640 3.45985 1.47432 51 C - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 51 0.05111 4.29557 3.93646 4.09353 52 A - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 52 0.05111 4.29557 3.93646 4.09353 53 A - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 53 2.81087 0.38659 3.45958 1.47389 54 C - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 54 3.63258 3.44028 4.17572 0.07674 55 U - - - 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 55 3.50758 4.30632 0.06182 4.10471 56 G - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 56 2.67905 3.69999 0.13311 3.46491 57 G - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 57 2.36744 3.10950 0.21503 2.89796 58 G - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 58 3.25563 0.23061 2.96532 2.15547 59 C - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 59 1.21823 1.90861 1.05540 1.57066 60 g - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 60 2.39925 3.60255 0.16539 3.36976 61 G - - > 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 61 3.63258 3.44028 4.17572 0.07674 62 U - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 62 0.81864 2.92855 0.86484 2.47244 63 a - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 63 0.23872 2.28383 3.03229 2.77635 64 A - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 64 0.76304 3.10722 0.85506 2.75241 65 a - - : 1.38629 1.38629 1.38629 1.38629 0.02533 4.38170 4.38170 1.46634 0.26236 1.09861 0.40547 65 1.30367 2.13327 0.71023 2.13296 66 g - - : 1.38629 1.38629 1.38629 1.38629 0.01274 4.36912 * 1.46634 0.26236 0.00000 * //