INFERNAL1/a [1.1.5 | Sep 2023] NAME PK-HAV ACC RF01096 DESC HepA virus 3'-terminal pseudoknot STATES 172 NODES 48 CLEN 56 W 71 ALPH RNA RF no CONS yes MAP yes DATE Thu Jul 4 16:23:48 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/RF01096/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 2 EFFN 2.000000 CKSUM 2446867074 NULL 0.000 0.000 0.000 0.000 GA 50.00 TC 78.40 NC 46.00 EFP7GF -4.0755 0.73329 ECMLC 0.46472 -8.16556 5.05835 1600000 559913 0.002143 ECMGC 0.41730 -10.60074 4.42976 1600000 211851 0.001888 ECMLI 0.45480 -6.06464 6.67610 1600000 394182 0.003044 ECMGI 0.43416 -6.95577 6.72481 1600000 151906 0.002633 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 71 90 -6.977 -7.184 -0.052 -5.598 IL 1 1 2 1 4 1 11 75 95 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 10 74 94 -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 10 71 90 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 4 2 3 5 3 0 6 69 89 -5.620 -0.734 -1.403 IL 5 5 3 5 3 1 9 71 91 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 56 - U - - MR 6 5 3 8 3 1 9 70 89 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 7 5 3 8 3 0 4 68 87 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 8 70 90 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 55 - A - - MR 9 8 3 11 3 1 8 69 88 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 10 8 3 11 3 0 4 67 86 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 7 69 89 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 54 - A - - MR 12 11 3 14 3 1 7 68 87 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 13 11 3 14 3 0 3 66 85 -6.390 -1.568 -0.620 IR 14 14 3 14 3 1 7 68 88 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 5 ] - 53 - A - - MR 15 14 3 17 3 1 6 67 86 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 16 14 3 17 3 0 2 65 84 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 6 67 87 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 52 - U - - MR 18 17 3 20 3 1 5 66 85 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 19 17 3 20 3 0 2 64 83 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 5 66 86 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 51 - G - - MR 21 20 3 23 3 1 4 65 84 -8.380 -0.018 -6.697 -1.638 -2.867 1.736 -2.254 D 22 20 3 23 3 0 1 63 82 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 4 65 85 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 50 - A - - MR 24 23 3 26 3 1 3 64 83 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 25 23 3 26 3 0 1 62 81 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 3 64 84 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 49 - C - - MR 27 26 3 29 3 1 2 63 82 -8.380 -0.424 -1.989 -1.806 1.641 -2.632 -1.207 D 28 26 3 29 3 0 0 61 81 -6.390 -1.568 -0.620 IR 29 29 3 29 3 1 4 64 83 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 48 - U - - MR 30 29 3 32 3 1 4 62 81 -7.979 -0.024 -6.297 -0.783 -0.914 -1.467 1.337 D 31 29 3 32 3 0 0 61 80 -8.000 -0.353 -2.230 IR 32 32 3 32 3 1 2 63 82 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 47 - U - - MR 33 32 3 35 3 1 3 61 80 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 34 32 3 35 3 0 0 59 78 -6.390 -1.568 -0.620 IR 35 35 3 35 3 1 2 62 81 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 46 - A - - MR 36 35 3 38 3 1 3 60 79 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 37 35 3 38 3 0 0 58 77 -6.390 -1.568 -0.620 IR 38 38 3 38 3 1 1 61 80 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 13 ] - 45 - U - - MR 39 38 3 41 3 1 2 59 78 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 40 38 3 41 3 0 0 57 76 -6.390 -1.568 -0.620 IR 41 41 3 41 3 1 1 60 79 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 14 ] - 44 - u - - MR 42 41 3 44 3 1 2 58 77 -8.380 -0.018 -6.697 0.557 -0.859 -1.066 0.585 D 43 41 3 44 3 0 0 56 75 -6.390 -1.568 -0.620 IR 44 44 3 44 3 1 1 59 78 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 15 ] - 43 - u - - MR 45 44 3 47 3 1 2 57 76 -8.380 -0.018 -6.697 -0.727 0.473 -1.508 0.728 D 46 44 3 47 3 0 0 55 74 -6.390 -1.568 -0.620 IR 47 47 3 47 3 1 1 58 77 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 16 ] - 42 - u - - MR 48 47 3 50 3 1 1 56 75 -8.380 -0.018 -6.697 -0.382 -0.955 0.345 0.532 D 49 47 3 50 3 0 0 54 73 -6.390 -1.568 -0.620 IR 50 50 3 50 3 1 1 57 76 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 17 ] - 41 - u - - MR 51 50 3 53 3 1 1 55 74 -8.380 -0.018 -6.697 -0.727 0.473 -1.508 0.728 D 52 50 3 53 3 0 0 53 72 -6.390 -1.568 -0.620 IR 53 53 3 53 3 1 1 56 75 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 18 ] - 40 - U - - MR 54 53 3 56 3 1 1 54 73 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 55 53 3 56 3 0 0 52 71 -6.390 -1.568 -0.620 IR 56 56 3 56 3 1 1 55 74 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 19 ] - 39 - U - - MR 57 56 3 59 3 1 1 53 72 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 58 56 3 59 3 0 0 51 70 -6.390 -1.568 -0.620 IR 59 59 3 59 3 1 1 54 73 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 20 ] - 38 - U - - MR 60 59 3 62 5 1 1 52 71 -7.117 -0.038 -6.932 -7.144 -8.036 -1.535 -1.523 -2.271 1.632 D 61 59 3 62 5 0 0 50 70 -5.352 -0.707 -2.978 -4.409 -2.404 IR 62 62 3 62 5 1 1 52 71 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 21 ] 2 37 U A - - MP 63 62 3 67 6 2 2 51 70 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.256 -4.083 -4.087 -0.373 -3.015 -4.645 1.315 -3.716 -4.092 -0.129 -4.462 -1.980 3.359 -4.405 -0.690 -2.909 ML 64 62 3 67 6 1 1 49 69 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 65 62 3 67 6 1 1 49 68 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 66 62 3 67 6 0 0 47 66 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 67 67 5 67 6 1 1 50 70 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 68 68 6 68 5 1 1 50 69 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 22 ] 3 36 A U - - MP 69 68 6 73 6 2 2 49 68 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 70 68 6 73 6 1 1 47 67 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 71 68 6 73 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 72 68 6 73 6 0 0 45 64 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 73 73 5 73 6 1 1 48 68 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 74 74 6 74 5 1 1 48 67 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 23 ] 4 35 A U - - MP 75 74 6 79 6 2 2 47 66 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 76 74 6 79 6 1 1 45 65 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 77 74 6 79 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 78 74 6 79 6 0 0 43 62 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 79 79 5 79 6 1 1 46 66 -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 1 46 65 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 24 ] 5 34 A U - - MP 81 80 6 85 6 2 2 45 64 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 82 80 6 85 6 1 1 43 63 -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 1 43 62 -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 0 41 60 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 85 85 5 85 6 1 1 44 64 -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 1 44 63 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 25 ] 6 33 C G - - MP 87 86 6 91 6 2 2 43 62 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.612 -4.524 -4.292 -0.750 -2.996 -4.695 3.570 -3.812 -4.343 -0.519 -4.597 -2.472 0.512 -4.677 -0.704 -3.181 ML 88 86 6 91 6 1 1 41 61 -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 1 41 60 -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 0 39 58 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 91 91 5 91 6 1 1 42 62 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 92 92 6 92 5 1 1 42 61 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 26 ] 7 32 A U - - MP 93 92 6 97 6 2 2 41 60 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 94 92 6 97 6 1 1 39 59 -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 1 39 58 -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 0 37 56 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 97 97 5 97 6 1 1 40 60 -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 1 40 59 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 27 ] 8 31 A U - - MP 99 98 6 103 6 2 2 39 58 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 100 98 6 103 6 1 1 37 57 -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 1 37 56 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 102 98 6 103 6 0 0 35 54 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 1 38 58 -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 1 38 57 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 28 ] 9 30 A U - - MP 105 104 6 109 6 2 2 37 56 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.842 -2.861 -3.857 3.364 -4.221 -5.288 0.082 -3.896 -3.747 1.023 -4.297 -0.328 -0.335 -4.467 -1.858 -2.688 ML 106 104 6 109 6 1 1 35 55 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 107 104 6 109 6 1 1 35 55 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 108 104 6 109 6 0 0 33 53 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 109 109 5 109 6 1 1 36 56 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 110 110 6 110 5 1 1 36 55 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 29 ] 10 29 u g - - MP 111 110 6 115 6 2 2 35 54 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -3.285 -3.392 -3.228 0.022 1.678 -3.821 1.771 -3.039 -3.278 0.109 -3.689 -1.699 1.076 -3.480 1.964 -2.262 ML 112 110 6 115 6 1 1 34 53 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 113 110 6 115 6 1 1 34 53 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 114 110 6 115 6 0 0 32 52 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 115 115 5 115 6 1 1 35 54 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 116 116 6 116 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 30 ] 11 28 c g - - MP 117 116 6 121 4 2 2 33 52 -6.977 -7.184 -0.052 -5.598 -3.769 -3.764 -3.602 -0.084 -2.490 -4.116 2.729 -3.229 -3.632 0.123 -3.990 -1.832 1.089 -3.891 1.991 -2.516 ML 118 116 6 121 4 1 1 33 53 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 119 116 6 121 4 1 1 33 52 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 120 116 6 121 4 0 0 32 51 -4.568 -4.250 -2.265 -0.520 IL 121 121 5 121 4 1 1 35 54 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 122 122 6 122 3 1 1 34 53 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 12 - U - - - ML 123 122 6 125 3 1 1 30 49 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 124 122 6 125 3 0 0 29 48 -6.174 -1.687 -0.566 IL 125 125 3 125 3 1 1 33 52 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 13 - U - - - ML 126 125 3 128 3 1 1 29 48 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 127 125 3 128 3 0 0 28 47 -6.174 -1.687 -0.566 IL 128 128 3 128 3 1 1 32 51 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 14 - C - - - ML 129 128 3 131 3 1 1 28 47 -7.991 -0.020 -6.645 -1.806 1.641 -2.632 -1.207 D 130 128 3 131 3 0 0 27 46 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 30 50 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 15 - U - - - ML 132 131 3 134 3 1 1 27 46 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 133 131 3 134 3 0 0 26 45 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 29 49 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 16 - U - - - ML 135 134 3 137 3 1 1 26 45 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 136 134 3 137 3 0 0 25 44 -6.174 -1.687 -0.566 IL 137 137 3 137 3 1 1 28 47 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 36 ] 17 - A - - - ML 138 137 3 140 3 1 1 25 43 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 139 137 3 140 3 0 0 24 43 -6.174 -1.687 -0.566 IL 140 140 3 140 3 1 1 27 46 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 37 ] 18 - A - - - ML 141 140 3 143 3 1 1 23 42 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 142 140 3 143 3 0 0 22 41 -6.174 -1.687 -0.566 IL 143 143 3 143 3 1 1 26 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 38 ] 19 - A - - - ML 144 143 3 146 3 1 1 22 41 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 145 143 3 146 3 0 0 21 40 -6.174 -1.687 -0.566 IL 146 146 3 146 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 39 ] 20 - A - - - ML 147 146 3 149 3 1 1 21 40 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 148 146 3 149 3 0 0 20 39 -6.174 -1.687 -0.566 IL 149 149 3 149 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 40 ] 21 - U - - - ML 150 149 3 152 3 1 1 20 39 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 151 149 3 152 3 0 0 19 38 -6.174 -1.687 -0.566 IL 152 152 3 152 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 41 ] 22 - U - - - ML 153 152 3 155 3 1 1 19 37 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 154 152 3 155 3 0 0 18 37 -6.174 -1.687 -0.566 IL 155 155 3 155 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 42 ] 23 - U - - - ML 156 155 3 158 3 1 1 18 36 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 157 155 3 158 3 0 0 17 36 -6.174 -1.687 -0.566 IL 158 158 3 158 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 43 ] 24 - C - - - ML 159 158 3 161 3 1 1 16 35 -7.991 -0.020 -6.645 -1.806 1.641 -2.632 -1.207 D 160 158 3 161 3 0 0 16 34 -6.174 -1.687 -0.566 IL 161 161 3 161 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 25 - U - - - ML 162 161 3 164 3 1 1 15 33 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 163 161 3 164 3 0 0 15 33 -6.174 -1.687 -0.566 IL 164 164 3 164 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 26 - G - - - ML 165 164 3 167 3 1 1 13 31 -7.991 -0.020 -6.645 -1.638 -2.867 1.736 -2.254 D 166 164 3 167 3 0 0 13 32 -6.174 -1.687 -0.566 IL 167 167 3 167 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 27 - A - - - ML 168 167 3 170 2 1 1 1 1 * 0.000 1.730 -2.426 -2.052 -1.973 D 169 167 3 170 2 0 0 0 0 * 0.000 IL 170 170 3 170 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 47 ] - - - - - - E 171 170 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME PK-HAV ACC RF01096 DESC HepA virus 3'-terminal pseudoknot LENG 56 MAXL 141 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Thu Jul 4 16:23:48 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/RF01096/CM NSEQ 2 EFFN 1.644531 CKSUM 2446867074 STATS LOCAL MSV -8.0568 0.73329 STATS LOCAL VITERBI -9.5003 0.73329 STATS LOCAL FORWARD -2.6121 0.73329 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.22713 1.75974 1.81431 0.98932 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 0.00000 * 1 2.27392 2.29683 2.77449 0.30907 1 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 2 2.59064 1.63542 2.29628 0.46279 2 U - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 3 0.52601 2.35842 1.53815 2.30565 3 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 4 0.52583 2.35882 1.53816 2.30632 4 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 5 0.52579 2.35892 1.53816 2.30648 5 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 6 2.83607 0.34850 2.56131 1.84265 6 C - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 7 0.52584 2.35878 1.53816 2.30626 7 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 8 0.52589 2.35868 1.53816 2.30609 8 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 9 0.52593 2.35858 1.53816 2.30593 9 A - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 10 2.29314 0.90879 2.13360 0.97384 10 c - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 11 2.45111 0.86635 2.20205 0.96039 11 c - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 12 2.27392 2.29683 2.77449 0.30907 12 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 13 2.27392 2.29683 2.77449 0.30907 13 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 14 2.40609 0.31709 2.96985 2.03826 14 C - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 15 2.27392 2.29683 2.77449 0.30907 15 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 16 2.27392 2.29683 2.77449 0.30907 16 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 17 0.23197 2.87348 2.63412 2.54148 17 A - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 18 0.23197 2.87348 2.63412 2.54148 18 A - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 19 0.23197 2.87348 2.63412 2.54148 19 A - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 20 0.23197 2.87348 2.63412 2.54148 20 A - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 21 2.27392 2.29683 2.77449 0.30907 21 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 22 2.27392 2.29683 2.77449 0.30907 22 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 23 2.27392 2.29683 2.77449 0.30907 23 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 24 2.40609 0.31709 2.96985 2.03826 24 C - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 25 2.27392 2.29683 2.77449 0.30907 25 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 26 2.31488 3.13322 0.23456 2.70720 26 G - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 27 0.23197 2.87348 2.63412 2.54148 27 A - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 28 1.77957 2.36262 0.46444 2.21981 28 G - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 29 1.12220 2.29525 0.79942 2.08658 29 g - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 30 2.53642 1.79173 2.17429 0.44552 30 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 31 2.53685 1.79175 2.17442 0.44544 31 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 32 2.53737 1.79178 2.17458 0.44534 32 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 33 2.11648 2.72777 0.30192 2.59321 33 G - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 34 2.53878 1.79184 2.17500 0.44508 34 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 35 2.53971 1.79189 2.17528 0.44490 35 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 36 2.54084 1.79194 2.17562 0.44469 36 U - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 37 0.52542 2.47678 1.47191 2.35184 37 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 38 2.27392 2.29683 2.77449 0.30907 38 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 39 2.27392 2.29683 2.77449 0.30907 39 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 40 2.27392 2.29683 2.77449 0.30907 40 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 41 1.81396 1.09639 2.34533 0.89869 41 u - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 42 1.60246 1.99633 1.17984 1.03441 42 u - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 43 1.81396 1.09639 2.34533 0.89869 43 u - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 44 1.01497 1.93683 2.07612 0.99964 44 u - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 45 2.27392 2.29683 2.77449 0.30907 45 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 46 0.23197 2.87348 2.63412 2.54148 46 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 47 2.27392 2.29683 2.77449 0.30907 47 U - - : 1.38629 1.38629 1.38629 1.38629 0.33353 3.73767 1.34785 1.46634 0.26236 1.09861 0.40547 48 1.82714 1.94196 2.29133 0.51991 48 U - - : 1.38629 1.38629 1.38629 1.38629 0.06435 3.46850 3.46850 1.46634 0.26236 0.16830 1.86497 49 2.40609 0.31709 2.96985 2.03826 49 C - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 50 0.23197 2.87348 2.63412 2.54148 50 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 51 2.31488 3.13322 0.23456 2.70720 51 G - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 52 2.27392 2.29683 2.77449 0.30907 52 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 53 0.23197 2.87348 2.63412 2.54148 53 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 54 0.23197 2.87348 2.63412 2.54148 54 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 55 0.23197 2.87348 2.63412 2.54148 55 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 56 2.27392 2.29683 2.77449 0.30907 56 U - - : 1.38629 1.38629 1.38629 1.38629 0.02469 3.71357 * 1.46634 0.26236 0.00000 * //