INFERNAL1/a [1.1.5 | Sep 2023] NAME HIV_FS2 ACC RF01835 DESC ribosomal frameshift site STATES 139 NODES 31 CLEN 45 W 60 ALPH RNA RF no CONS yes MAP yes DATE Sun Jul 7 17:45:48 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/RF01835/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 19 EFFN 3.975342 CKSUM 3009033863 NULL 0.000 0.000 0.000 0.000 GA 44.00 TC 55.60 NC 39.10 EFP7GF -13.9598 0.71968 ECMLC 0.63405 -5.42420 3.80082 1600000 416313 0.002882 ECMGC 0.43575 -17.24500 -2.58880 1600000 237503 0.001684 ECMLI 0.66205 -3.59412 4.74157 1600000 299159 0.004011 ECMGI 0.45934 -13.54303 -0.47573 1600000 161751 0.002473 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 60 79 -7.609 -7.816 -0.033 -6.230 IL 1 1 2 1 4 1 6 64 84 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 5 63 83 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - u - - - ML 3 2 3 5 3 1 6 60 79 -8.944 -0.012 -7.261 0.326 -0.422 -1.288 0.669 D 4 2 3 5 3 0 1 59 78 -5.620 -0.734 -1.403 IL 5 5 3 5 3 1 4 61 80 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 45 - A - - MR 6 5 3 8 5 1 6 59 78 -7.650 -0.026 -7.465 -7.678 -8.569 1.633 -2.462 -1.066 -2.064 D 7 5 3 8 5 0 0 57 77 -5.352 -0.707 -2.978 -4.409 -2.404 IR 8 8 3 8 5 1 2 59 78 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 3 ] 2 44 U A - - MP 9 8 3 13 6 2 6 58 77 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -4.025 -4.073 -4.085 -0.628 -3.463 -4.819 0.656 -4.039 -4.104 -0.491 -4.602 -2.293 3.503 -1.646 -0.702 -2.998 ML 10 8 3 13 6 1 2 56 76 -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 2 56 75 -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 0 54 73 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 13 13 5 13 6 1 2 57 77 -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 2 57 76 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 4 ] 3 43 g c - - MP 15 14 6 19 6 2 5 56 75 -9.396 -9.336 -0.044 -8.112 -5.587 -8.787 -3.385 -0.585 -3.423 0.828 -3.840 -4.061 0.215 -3.877 -3.553 2.917 -3.971 -0.424 -0.019 1.047 -1.578 -2.495 ML 16 14 6 19 6 1 1 54 74 -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 1 54 74 -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 0 52 72 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 2 55 75 -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 2 55 74 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 4 42 G C - - MP 21 20 6 25 6 2 4 54 73 -9.370 -9.310 -0.018 -8.086 -8.366 -8.761 -4.658 -1.253 -4.650 0.648 -5.578 -4.769 -0.780 -5.160 -4.486 3.565 -4.793 -0.763 -1.050 -4.343 -2.795 -3.579 ML 22 20 6 25 6 1 1 53 73 -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 1 53 72 -7.311 -6.040 -1.120 -6.019 -1.152 -4.232 -0.021 -0.416 -0.624 0.693 D 24 20 6 25 6 0 0 51 71 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 2 54 73 -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 2 53 72 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 6 ] 5 41 G C - - MP 27 26 6 31 4 2 2 52 71 -7.609 -7.816 -0.112 -3.948 -5.259 -3.407 -5.375 0.424 -6.267 -5.053 -1.390 -5.757 -4.770 3.706 -5.080 -1.098 -1.687 -4.861 -3.452 -4.246 ML 28 26 6 31 4 1 1 52 72 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 29 26 6 31 4 1 1 52 71 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 30 26 6 31 4 0 0 51 70 -4.568 -4.250 -2.265 -0.520 IL 31 31 5 31 4 1 1 54 73 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 32 32 6 32 3 1 1 53 72 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 6 - C - - - ML 33 32 6 35 3 1 2 49 68 -8.514 -0.014 -7.168 -0.632 1.183 -1.959 -0.275 D 34 32 6 35 3 0 0 48 67 -6.939 -0.751 -1.330 IL 35 35 3 35 3 1 1 52 71 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 7 - C - - - ML 36 35 3 38 3 1 1 48 67 -8.944 -0.012 -7.261 -3.218 1.863 -4.006 -2.367 D 37 35 3 38 3 0 0 47 66 -5.620 -0.734 -1.403 IL 38 38 3 38 3 1 1 49 68 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 40 - G - - MR 39 38 3 41 5 1 1 47 66 -7.650 -0.026 -7.465 -7.678 -8.569 -0.041 -2.364 1.351 -1.823 D 40 38 3 41 5 0 0 46 65 -5.352 -0.707 -2.978 -4.409 -2.404 IR 41 41 3 41 5 1 1 48 67 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 8 39 C G - - MP 42 41 3 46 6 2 2 46 65 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.941 -5.987 -5.489 -2.166 -1.686 -5.773 3.815 -5.055 -5.644 -2.028 -5.718 -4.025 -0.703 -5.977 -1.910 -4.470 ML 43 41 3 46 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 44 41 3 46 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 45 41 3 46 6 0 0 42 61 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 46 46 5 46 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 47 47 6 47 5 1 1 46 65 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 9 38 a u - - MP 48 47 6 52 6 2 2 44 63 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -2.093 -0.921 -2.276 2.030 -2.294 -3.144 1.051 0.845 -2.326 1.085 -2.885 -0.468 0.887 -2.428 -0.463 -0.282 ML 49 47 6 52 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 50 47 6 52 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 51 47 6 52 6 0 0 40 59 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 52 52 5 52 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 53 53 6 53 5 1 1 44 63 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 10 37 c g - - MP 54 53 6 58 6 2 2 42 61 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -4.082 -4.072 -3.971 -0.312 -2.897 -4.555 2.301 -3.613 -3.973 -0.156 -4.373 -2.074 2.227 -4.236 1.889 -2.848 ML 55 53 6 58 6 1 1 41 60 -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 1 41 60 -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 38 57 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 58 58 5 58 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 59 59 6 59 5 1 1 42 61 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 11 36 G C - - MP 60 59 6 64 6 2 2 40 59 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.189 -3.365 -5.289 -0.080 -6.270 -5.029 -1.373 -5.707 -4.742 3.672 -5.053 0.181 -1.647 -4.803 -3.430 -4.168 ML 61 59 6 64 6 1 1 39 58 -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 1 39 58 -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 36 55 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 64 64 5 64 6 1 1 40 59 -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 1 40 59 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 12 35 G C - - MP 66 65 6 70 6 2 2 38 57 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.930 -3.680 -6.253 -0.647 -6.869 -5.132 -1.941 -6.502 -5.023 3.828 -5.294 -1.448 -2.304 -5.221 -4.061 -5.114 ML 67 65 6 70 6 1 1 37 56 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 68 65 6 70 6 1 1 37 56 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 69 65 6 70 6 0 0 34 53 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 70 70 5 70 6 1 1 38 57 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 71 71 6 71 5 1 1 38 57 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 13 34 G C - - MP 72 71 6 76 6 2 2 36 55 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.930 -3.680 -6.253 -0.647 -6.869 -5.132 -1.941 -6.502 -5.023 3.828 -5.294 -1.448 -2.304 -5.221 -4.061 -5.114 ML 73 71 6 76 6 1 1 35 54 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 74 71 6 76 6 1 1 35 54 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 75 71 6 76 6 0 0 32 52 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 76 76 5 76 6 1 1 36 55 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 77 77 6 77 5 1 1 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 14 33 G C - - MP 78 77 6 82 6 2 2 34 53 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.930 -3.680 -6.253 -0.647 -6.869 -5.132 -1.941 -6.502 -5.023 3.828 -5.294 -1.448 -2.304 -5.221 -4.061 -5.114 ML 79 77 6 82 6 1 1 33 52 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 80 77 6 82 6 1 1 33 52 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 81 77 6 82 6 0 0 31 50 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 82 82 5 82 6 1 1 34 53 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 83 83 6 83 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 15 32 A U - - MP 84 83 6 88 6 2 2 32 51 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -4.991 -3.784 -4.838 3.768 -5.891 -7.124 -1.513 -4.799 -4.783 -0.234 -5.384 -1.116 -1.912 -6.049 -3.444 -3.672 ML 85 83 6 88 6 1 1 32 51 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 86 83 6 88 6 1 1 32 51 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 87 83 6 88 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 88 88 5 88 6 1 1 32 51 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 89 89 6 89 5 1 1 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 16 31 A U - - MP 90 89 6 94 4 2 2 30 49 -7.609 -7.816 -0.033 -6.230 -4.991 -3.784 -4.838 3.768 -5.891 -7.124 -1.513 -4.799 -4.783 -0.234 -5.384 -1.116 -1.912 -6.049 -3.444 -3.672 ML 91 89 6 94 4 1 1 31 50 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 92 89 6 94 4 1 1 31 50 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 93 89 6 94 4 0 0 30 49 -4.568 -4.250 -2.265 -0.520 IL 94 94 5 94 4 1 1 32 52 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 95 95 6 95 3 1 1 31 51 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 17 - A - - - ML 96 95 6 98 5 1 1 28 47 -7.650 -0.026 -7.465 -7.678 -8.569 1.888 -3.610 -3.129 -3.278 D 97 95 6 98 5 0 0 27 46 -4.959 -0.803 -4.221 -2.596 -2.508 IL 98 98 3 98 5 1 1 28 47 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 18 30 G C - - MP 99 98 3 103 4 2 2 27 46 -7.609 -7.816 -0.033 -6.230 -4.764 -3.165 -4.798 0.255 -5.827 -5.003 -1.008 -5.220 -4.528 3.477 -4.878 1.123 -1.268 -4.581 -3.028 -3.669 ML 100 98 3 103 4 1 1 28 47 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 101 98 3 103 4 1 1 27 46 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 102 98 3 103 4 0 0 26 45 -4.568 -4.250 -2.265 -0.520 IL 103 103 5 103 4 1 1 29 48 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 104 104 6 104 3 1 1 28 47 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 19 - A - - - ML 105 104 6 107 3 1 1 24 43 -8.587 -0.013 -7.241 1.692 -1.756 -2.218 -1.951 D 106 104 6 107 3 0 0 23 42 -6.174 -1.687 -0.566 IL 107 107 3 107 3 1 1 27 46 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 20 - A - - - ML 108 107 3 110 3 1 1 23 42 -8.944 -0.012 -7.261 1.888 -3.610 -3.129 -3.278 D 109 107 3 110 3 0 0 22 40 -5.620 -0.734 -1.403 IL 110 110 3 110 3 1 1 24 42 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 23 ] - 29 - A - - MR 111 110 3 113 3 1 1 22 41 -8.944 -0.012 -7.261 1.888 -3.610 -3.129 -3.278 D 112 110 3 113 3 0 0 21 39 -6.390 -1.568 -0.620 IR 113 113 3 113 3 1 1 23 41 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 24 ] - 28 - A - - MR 114 113 3 116 5 1 1 21 40 -7.650 -0.026 -7.465 -7.678 -8.569 1.888 -3.610 -3.129 -3.278 D 115 113 3 116 5 0 0 20 39 -5.352 -0.707 -2.978 -4.409 -2.404 IR 116 116 3 116 5 1 1 21 40 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 21 27 G C - - MP 117 116 3 121 6 2 2 20 39 -9.396 -9.336 -0.017 -8.112 -8.392 -8.787 -5.930 -3.680 -6.253 -0.647 -6.869 -5.132 -1.941 -6.502 -5.023 3.828 -5.294 -1.448 -2.304 -5.221 -4.061 -5.114 ML 118 116 3 121 6 1 1 20 39 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 119 116 3 121 6 1 1 20 38 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 120 116 3 121 6 0 0 18 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 121 121 5 121 6 1 1 20 39 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 122 122 6 122 5 1 1 20 38 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 22 26 C G - - MP 123 122 6 127 4 2 2 18 37 -7.609 -7.816 -0.033 -6.230 -5.986 -6.032 -5.525 -2.208 -1.818 -5.802 3.822 -5.092 -5.685 -2.069 -5.748 -4.068 -0.740 -6.019 -1.945 -4.510 ML 124 122 6 127 4 1 1 19 38 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 125 122 6 127 4 1 1 19 38 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 126 122 6 127 4 0 0 18 37 -4.568 -4.250 -2.265 -0.520 IL 127 127 5 127 4 1 1 21 39 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 128 128 6 128 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 27 ] 23 - C - - - ML 129 128 6 131 3 1 1 14 33 -8.587 -0.013 -7.241 -3.218 1.863 -4.006 -2.367 D 130 128 6 131 3 0 0 15 33 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 28 ] 24 - c - - - ML 132 131 3 134 3 1 1 13 31 -8.587 -0.013 -7.241 -1.316 0.892 -2.178 0.605 D 133 131 3 134 3 0 0 13 32 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 25 - C - - - ML 135 134 3 137 2 1 1 1 1 * 0.000 -3.218 1.863 -4.006 -2.367 D 136 134 3 137 2 0 0 0 0 * 0.000 IL 137 137 3 137 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 30 ] - - - - - - E 138 137 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME HIV_FS2 ACC RF01835 DESC ribosomal frameshift site LENG 45 MAXL 115 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sun Jul 7 17:45:48 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/RF01835/CM NSEQ 19 EFFN 5.635986 CKSUM 3009033863 STATS LOCAL MSV -6.7274 0.71968 STATS LOCAL VITERBI -7.6393 0.71968 STATS LOCAL FORWARD -3.8975 0.71968 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.42916 1.10484 1.30510 1.84464 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 0.00000 * 1 1.14286 1.70214 2.39904 0.89650 1 u - - : 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 2 3.40725 2.48212 3.23077 0.16987 2 U - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 3 1.91194 2.86971 0.58000 1.44565 3 G - - < 1.38629 1.38629 1.38629 1.38629 0.06277 4.45827 3.01077 1.46634 0.26236 1.09861 0.40547 4 2.11409 3.45483 0.20897 3.31741 4 G - - < 1.38629 1.38629 1.38629 1.38629 0.02437 4.41987 4.41987 1.46634 0.26236 0.38547 1.13984 5 2.47522 3.90616 0.13559 3.79256 5 G - - < 1.38629 1.38629 1.38629 1.38629 0.08002 4.45827 2.72852 1.46634 0.26236 1.09861 0.40547 6 1.92965 0.48508 3.00156 1.66367 6 C - - - 1.38629 1.38629 1.38629 1.38629 0.02478 4.40304 4.40304 1.46634 0.26236 0.30355 1.34015 7 4.09897 0.05989 4.58495 3.46303 7 C - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 8 4.46399 0.06492 4.34829 3.25929 8 C - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 9 0.97722 1.28115 1.83167 1.68318 9 a - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 10 3.08708 1.15274 2.87697 0.54079 10 U - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 11 2.94875 3.90586 0.10016 3.78194 11 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 12 3.32445 4.28168 0.06642 4.23720 12 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 13 3.32328 4.27978 0.06653 4.23463 13 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 14 3.32230 4.27821 0.06662 4.23249 14 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 15 0.09342 4.16723 2.88809 4.01662 15 A - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 16 0.09348 4.16627 2.88785 4.01546 16 A - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 17 0.04898 4.33735 3.97609 4.13709 17 A - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 18 2.70741 3.66650 0.13012 3.51543 18 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 19 0.16540 2.71228 3.23148 3.06708 19 A - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 20 0.04898 4.33735 3.97609 4.13709 20 A - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 21 3.33555 4.29965 0.06536 4.26169 21 G - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 22 4.50634 0.06192 4.39344 3.30642 22 C - - < 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 23 4.09897 0.05989 4.58495 3.46303 23 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 24 2.57757 0.69629 3.20794 0.95407 24 c - - _ 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 25 4.09897 0.05989 4.58495 3.46303 25 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 26 3.17049 4.55599 0.06785 4.33392 26 G - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 27 4.42546 0.07921 4.18601 3.01645 27 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 28 0.04898 4.33735 3.97609 4.13709 28 A - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 29 0.04898 4.33735 3.97609 4.13709 29 A - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 30 3.70167 0.31199 3.47328 1.54969 30 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 31 4.21452 3.28914 3.97016 0.07358 31 U - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 32 4.21682 3.28959 3.97132 0.07350 32 U - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 33 4.35179 0.08154 4.14729 3.00344 33 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 34 4.35608 0.08140 4.14958 3.00422 34 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 35 4.36172 0.08122 4.15259 3.00524 35 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 36 3.96896 0.17778 3.74536 2.11732 36 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 37 1.13462 3.04658 0.55639 2.85313 37 G - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 38 2.19537 1.83529 1.97521 0.52698 38 U - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 39 3.09993 4.52482 0.07193 4.30364 39 G - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 40 1.43988 3.32313 0.39174 2.97349 40 G - - - 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 41 3.85606 0.16269 3.68305 2.26480 41 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 42 3.42367 0.22608 3.22707 2.03962 42 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 43 2.96355 0.29795 2.67971 1.98456 43 C - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 44 0.23777 2.89365 2.16310 3.18757 44 A - - > 1.38629 1.38629 1.38629 1.38629 0.02344 4.45827 4.45827 1.46634 0.26236 1.09861 0.40547 45 0.20776 3.41774 2.17285 3.19516 45 A - - : 1.38629 1.38629 1.38629 1.38629 0.01179 4.44662 * 1.46634 0.26236 0.00000 * //