INFERNAL1/a [1.1.5 | Sep 2023] NAME TLS-PK2 ACC RF01077 DESC Pseudoknot of tRNA-like structure STATES 202 NODES 50 CLEN 66 W 82 ALPH RNA RF no CONS yes MAP yes DATE Sat Jul 6 19:43:23 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/RF01077/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 4 EFFN 1.808594 CKSUM 3771560152 NULL 0.000 0.000 0.000 0.000 GA 42.00 TC 88.80 NC 39.50 EFP7GF -9.1723 0.71912 ECMLC 0.58977 -7.93179 2.35492 1600000 517569 0.002319 ECMGC 0.43884 -16.88764 -3.47051 1600000 144277 0.002772 ECMLI 0.56725 -6.23067 3.53371 1600000 305270 0.003931 ECMGI 0.45114 -12.40724 -0.50329 1600000 85971 0.004653 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 82 102 -6.818 -8.064 -0.084 -4.517 IL 1 1 2 1 4 1 13 83 103 -2.817 -4.319 -0.613 -2.698 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 14 84 104 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 1 ] - 67 - A - - MR 3 2 3 5 3 1 13 82 102 -8.311 -0.019 -6.629 1.003 -1.010 -1.085 0.040 D 4 2 3 5 3 0 8 80 100 -6.390 -1.568 -0.620 IR 5 5 3 5 3 1 13 83 103 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 66 - G - - MR 6 5 3 8 3 1 13 81 101 -8.311 -0.019 -6.629 -1.481 -2.685 1.700 -2.071 D 7 5 3 8 3 0 7 79 99 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 12 82 102 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 65 - C - - MR 9 8 3 11 3 1 12 80 100 -8.311 -0.019 -6.629 -1.628 1.592 -2.448 -1.065 D 10 8 3 11 3 0 6 78 98 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 11 81 101 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 64 - G - - MR 12 11 3 14 3 1 11 79 99 -3.055 -0.202 -6.629 -1.481 -2.685 1.700 -2.071 D 13 11 3 14 3 0 5 77 97 -6.390 -1.568 -0.620 IR 14 14 3 14 3 1 10 79 99 -2.381 -0.382 -4.619 0.000 0.000 0.000 0.000 [ MATR 5 ] - 62 - A - - MR 15 14 3 17 3 1 10 78 97 -8.311 -0.019 -6.629 1.003 -1.010 -1.085 0.040 D 16 14 3 17 3 0 4 76 96 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 9 79 98 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 61 - A - - MR 18 17 3 20 3 1 9 77 96 -8.311 -0.019 -6.629 1.003 -1.010 -1.085 0.040 D 19 17 3 20 3 0 3 75 95 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 8 78 97 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 60 - A - - MR 21 20 3 23 3 1 9 76 95 -8.311 -0.019 -6.629 1.698 -2.278 -1.919 -1.811 D 22 20 3 23 3 0 2 74 94 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 7 77 96 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 59 - a - - MR 24 23 3 26 3 1 8 75 94 -8.311 -0.019 -6.629 0.595 -0.833 -1.024 0.522 D 25 23 3 26 3 0 2 73 93 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 6 75 95 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 58 - A - - MR 27 26 3 29 3 1 7 74 93 -8.311 -0.019 -6.629 1.698 -2.278 -1.919 -1.811 D 28 26 3 29 3 0 1 72 92 -6.390 -1.568 -0.620 IR 29 29 3 29 3 1 6 74 94 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 57 - A - - MR 30 29 3 32 3 1 7 73 92 -8.311 -0.019 -6.629 1.698 -2.278 -1.919 -1.811 D 31 29 3 32 3 0 1 71 91 -6.390 -1.568 -0.620 IR 32 32 3 32 3 1 5 73 93 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 56 - u - - MR 33 32 3 35 3 1 6 72 91 -8.311 -0.019 -6.629 0.041 -0.833 -1.182 0.977 D 34 32 3 35 3 0 0 70 90 -6.390 -1.568 -0.620 IR 35 35 3 35 3 1 4 72 92 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 55 - G - - MR 36 35 3 38 5 1 6 71 90 -7.053 -0.040 -6.868 -7.080 -7.972 -1.481 -2.685 1.700 -2.071 D 37 35 3 38 5 0 0 69 89 -5.352 -0.707 -2.978 -4.409 -2.404 IR 38 38 3 38 5 1 3 71 91 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 1 54 G C - - MP 39 38 3 43 6 2 7 70 89 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.654 -3.052 -4.746 0.258 -5.109 -4.659 -0.496 -4.982 -4.270 3.617 -4.613 -0.748 -0.883 -4.410 -2.528 -3.624 ML 40 38 3 43 6 1 2 68 88 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 41 38 3 43 6 1 2 68 88 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 42 38 3 43 6 0 0 66 85 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 6 1 2 69 89 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 44 44 6 44 5 1 3 69 89 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 2 53 U A - - MP 45 44 6 49 6 2 7 68 87 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.095 -3.917 -3.944 -0.219 -2.907 -4.517 1.420 -3.596 -3.950 0.049 -4.328 -1.819 3.281 -4.250 -0.585 -2.783 ML 46 44 6 49 6 1 1 66 86 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 47 44 6 49 6 1 1 66 86 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 48 44 6 49 6 0 0 64 83 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 49 49 5 49 6 1 2 67 87 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 50 50 6 50 5 1 2 67 87 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 3 52 G C - - MP 51 50 6 55 6 2 6 66 85 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.654 -3.052 -4.746 0.258 -5.109 -4.659 -0.496 -4.982 -4.270 3.617 -4.613 -0.748 -0.883 -4.410 -2.528 -3.624 ML 52 50 6 55 6 1 1 64 84 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 53 50 6 55 6 1 1 64 84 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 54 50 6 55 6 0 0 62 81 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 55 55 5 55 6 1 2 65 85 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 56 56 6 56 5 1 2 65 85 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 4 51 u g - - MP 57 56 6 61 6 2 5 64 83 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.997 -3.914 -3.721 -0.258 -2.508 -4.161 1.776 -3.272 -3.760 -0.049 -4.062 -1.918 0.941 -4.091 2.944 -2.636 ML 58 56 6 61 6 1 1 62 82 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 59 56 6 61 6 1 1 62 82 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 60 56 6 61 6 0 0 60 80 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 61 61 5 61 6 1 2 63 83 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 62 62 6 62 5 1 2 63 83 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 5 50 C G - - MP 63 62 6 67 6 2 4 62 81 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.459 -4.356 -4.164 -0.597 -2.902 -4.587 3.522 -3.703 -4.210 -0.343 -4.481 -2.302 0.622 -4.534 -0.606 -3.053 ML 64 62 6 67 6 1 1 61 81 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 65 62 6 67 6 1 1 61 80 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 66 62 6 67 6 0 0 59 79 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 67 67 5 67 6 1 1 61 81 -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 2 61 81 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 6 49 U A - - MP 69 68 6 73 4 2 3 60 79 -6.898 -7.105 -0.055 -5.519 -4.095 -3.917 -3.944 -0.219 -2.907 -4.517 1.420 -3.596 -3.950 0.049 -4.328 -1.819 3.281 -4.250 -0.585 -2.783 ML 70 68 6 73 4 1 1 60 80 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 71 68 6 73 4 1 1 60 79 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 72 68 6 73 4 0 0 58 78 -4.568 -4.250 -2.265 -0.520 IL 73 73 5 73 4 1 1 61 81 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 74 74 6 74 3 1 1 60 80 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 7 - U - - - ML 75 74 6 77 3 1 2 57 77 -7.918 -0.021 -6.572 -1.400 -1.411 -2.129 1.593 D 76 74 6 77 3 0 0 56 76 -6.174 -1.687 -0.566 IL 77 77 3 77 3 1 1 59 79 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 8 - G - - - ML 78 77 3 80 3 1 1 56 76 -7.918 -0.021 -6.572 -1.481 -2.685 1.700 -2.071 D 79 77 3 80 3 0 0 55 74 -6.174 -1.687 -0.566 IL 80 80 3 80 3 1 1 58 78 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 9 - G - - - ML 81 80 3 83 3 1 1 55 75 -7.918 -0.021 -6.572 -1.481 -2.685 1.700 -2.071 D 82 80 3 83 3 0 0 54 73 -6.174 -1.687 -0.566 IL 83 83 3 83 3 1 1 57 77 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 10 - A - - - ML 84 83 3 86 3 1 1 54 73 -7.918 -0.021 -6.572 1.062 -1.054 -1.111 -0.046 D 85 83 3 86 3 0 0 53 72 -6.174 -1.687 -0.566 IL 86 86 3 86 3 1 1 56 76 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 11 - u - - - ML 87 86 3 89 3 1 1 53 72 -7.918 -0.021 -6.572 0.207 -0.773 -0.244 0.502 D 88 86 3 89 3 0 0 52 71 -6.174 -1.687 -0.566 IL 89 89 3 89 3 1 1 55 75 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 12 - C - - - ML 90 89 3 92 3 1 1 52 71 -7.918 -0.021 -6.572 -1.628 1.592 -2.448 -1.065 D 91 89 3 92 3 0 0 51 70 -6.174 -1.687 -0.566 IL 92 92 3 92 3 1 1 54 74 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 13 - G - - - ML 93 92 3 95 3 1 1 51 70 -7.918 -0.021 -6.572 -1.481 -2.685 1.700 -2.071 D 94 92 3 95 3 0 0 50 69 -6.174 -1.687 -0.566 IL 95 95 3 95 3 1 1 53 73 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 26 ] 14 - C - - - ML 96 95 3 98 5 1 1 50 69 -7.053 -0.040 -6.868 -7.080 -7.972 -1.628 1.592 -2.448 -1.065 D 97 95 3 98 5 0 0 49 68 -4.959 -0.803 -4.221 -2.596 -2.508 IL 98 98 3 98 5 1 1 50 69 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 27 ] 15 48 g c - - MP 99 98 3 103 6 2 2 49 68 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.506 -2.370 -3.622 1.138 -4.249 -4.665 0.143 -3.801 -3.440 2.422 -3.923 2.381 -0.144 -3.932 -1.797 -2.433 ML 100 98 3 103 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 101 98 3 103 6 1 1 47 67 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 102 98 3 103 6 0 0 45 64 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 1 49 68 -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 48 67 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 28 ] 16 47 C G - - MP 105 104 6 109 6 2 2 47 66 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.459 -4.356 -4.164 -0.597 -2.902 -4.587 3.522 -3.703 -4.210 -0.343 -4.481 -2.302 0.622 -4.534 -0.606 -3.053 ML 106 104 6 109 6 1 1 46 65 -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 45 65 -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 43 63 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 109 109 5 109 6 1 1 47 66 -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 46 65 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 29 ] 17 46 G C - - MP 111 110 6 115 6 2 2 45 64 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.654 -3.052 -4.746 0.258 -5.109 -4.659 -0.496 -4.982 -4.270 3.617 -4.613 -0.748 -0.883 -4.410 -2.528 -3.624 ML 112 110 6 115 6 1 1 44 63 -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 44 63 -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 42 62 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 115 115 5 115 6 1 1 45 64 -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 44 64 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 30 ] 18 45 G C - - MP 117 116 6 121 4 2 2 43 62 -6.898 -7.105 -0.055 -5.519 -4.654 -3.052 -4.746 0.258 -5.109 -4.659 -0.496 -4.982 -4.270 3.617 -4.613 -0.748 -0.883 -4.410 -2.528 -3.624 ML 118 116 6 121 4 1 1 43 63 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 119 116 6 121 4 1 1 43 62 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 120 116 6 121 4 0 0 42 61 -4.568 -4.250 -2.265 -0.520 IL 121 121 5 121 4 1 1 45 64 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 122 122 6 122 3 1 1 44 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 19 - G - - - ML 123 122 6 125 3 1 1 40 59 -7.918 -0.021 -6.572 0.108 -1.583 1.059 -0.987 D 124 122 6 125 3 0 0 39 58 -6.174 -1.687 -0.566 IL 125 125 3 125 3 1 1 43 62 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 32 ] 20 - u - - - ML 126 125 3 128 3 1 1 39 58 -7.918 -0.021 -6.572 -0.455 -0.858 -0.392 0.969 D 127 125 3 128 3 0 0 38 57 -6.174 -1.687 -0.566 IL 128 128 3 128 3 1 1 42 61 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 33 ] 21 - c - - - ML 129 128 3 131 3 1 1 38 57 -7.918 -0.021 -6.572 -0.809 0.955 -1.611 0.218 D 130 128 3 131 3 0 0 37 56 -6.174 -1.687 -0.566 IL 131 131 3 131 3 1 1 41 60 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 34 ] 22 - A - - - ML 132 131 3 134 3 1 1 37 56 -7.918 -0.021 -6.572 1.698 -2.278 -1.919 -1.811 D 133 131 3 134 3 0 0 36 55 -6.174 -1.687 -0.566 IL 134 134 3 134 3 1 1 39 59 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 35 ] 23 - A - - - ML 135 134 3 137 5 1 1 36 55 -7.053 -0.040 -6.868 -7.080 -7.972 1.698 -2.278 -1.919 -1.811 D 136 134 3 137 5 0 0 35 53 -4.959 -0.803 -4.221 -2.596 -2.508 IL 137 137 3 137 5 1 1 36 55 -2.408 -0.496 -4.087 -5.920 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 24 44 a u - - MP 138 137 3 142 6 2 2 35 54 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.301 -2.386 -3.401 2.784 -3.899 -4.660 0.320 -3.585 -3.297 1.619 -3.844 1.257 0.054 -3.797 -1.571 -2.262 ML 139 137 3 142 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 140 137 3 142 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 141 137 3 142 6 0 0 31 50 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 142 142 5 142 6 1 1 35 53 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 143 143 6 143 5 1 1 34 53 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 37 ] 25 43 u a - - MP 144 143 6 148 6 2 2 33 52 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.606 -3.527 -3.491 0.186 -2.468 -4.071 2.319 -3.168 -3.508 0.460 -3.901 -1.514 2.636 -3.749 -0.151 -2.386 ML 145 143 6 148 6 1 1 31 50 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 146 143 6 148 6 1 1 31 50 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 147 143 6 148 6 0 0 29 48 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 148 148 5 148 6 1 1 33 51 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 149 149 6 149 5 1 1 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 38 ] 26 42 g c - - MP 150 149 6 154 6 2 2 31 50 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.478 -2.477 -3.513 2.107 -3.912 -4.369 0.485 -3.781 -3.505 2.789 -3.967 -0.099 0.172 -3.651 -1.471 -2.415 ML 151 149 6 154 6 1 1 29 48 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 152 149 6 154 6 1 1 29 48 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 153 149 6 154 6 0 0 27 46 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 154 154 5 154 6 1 1 31 49 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 155 155 6 155 5 1 1 30 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 39 ] 27 41 U A - - MP 156 155 6 160 6 2 2 29 48 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -4.095 -3.917 -3.944 -0.219 -2.907 -4.517 1.420 -3.596 -3.950 0.049 -4.328 -1.819 3.281 -4.250 -0.585 -2.783 ML 157 155 6 160 6 1 1 27 46 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 158 155 6 160 6 1 1 27 46 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 159 155 6 160 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 160 160 5 160 6 1 1 29 47 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 161 161 6 161 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 40 ] 28 40 A U - - MP 162 161 6 166 6 2 2 27 46 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.717 -2.768 -3.741 3.281 -4.042 -5.098 0.253 -3.788 -3.636 1.159 -4.180 -0.256 -0.165 -4.298 -1.688 -2.579 ML 163 161 6 166 6 1 1 25 44 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 164 161 6 166 6 1 1 25 44 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 165 161 6 166 6 0 0 23 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 166 166 5 166 6 1 1 27 45 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 167 167 6 167 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 41 ] 29 39 u a - - MP 168 167 6 172 6 2 2 25 44 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.103 -2.841 -3.147 1.459 -2.598 -3.947 1.685 -3.088 -3.148 1.145 -3.638 -0.733 2.370 -3.348 -0.311 -2.083 ML 169 167 6 172 6 1 1 24 42 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 170 167 6 172 6 1 1 23 42 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 171 167 6 172 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 172 172 5 172 6 1 1 25 43 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 173 173 6 173 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 42 ] 30 38 a u - - MP 174 173 6 178 6 2 2 23 42 -9.088 -9.028 -0.021 -7.804 -8.084 -8.479 -3.376 -2.446 -3.435 2.523 -3.793 -4.456 0.538 -3.646 -3.393 2.399 -3.894 -0.038 0.221 -3.683 -1.404 -2.319 ML 175 173 6 178 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 176 173 6 178 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 177 173 6 178 6 0 0 21 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 178 178 5 178 6 1 1 23 41 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 179 179 6 179 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 ] 31 37 U A - - MP 180 179 6 184 4 2 2 21 40 -6.898 -7.105 -0.055 -5.519 -4.095 -3.917 -3.944 -0.219 -2.907 -4.517 1.420 -3.596 -3.950 0.049 -4.328 -1.819 3.281 -4.250 -0.585 -2.783 ML 181 179 6 184 4 1 1 22 41 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 182 179 6 184 4 1 1 21 40 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 183 179 6 184 4 0 0 20 39 -4.568 -4.250 -2.265 -0.520 IL 184 184 5 184 4 1 1 23 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 185 185 6 185 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 44 ] 32 - G - - - ML 186 185 6 188 3 1 1 18 36 -7.918 -0.021 -6.572 -1.481 -2.685 1.700 -2.071 D 187 185 6 188 3 0 0 17 36 -6.174 -1.687 -0.566 IL 188 188 3 188 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 45 ] 33 - G - - - ML 189 188 3 191 3 1 1 16 35 -7.918 -0.021 -6.572 -1.481 -2.685 1.700 -2.071 D 190 188 3 191 3 0 0 16 34 -6.174 -1.687 -0.566 IL 191 191 3 191 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 46 ] 34 - U - - - ML 192 191 3 194 3 1 1 15 33 -7.918 -0.021 -6.572 -1.400 -1.411 -2.129 1.593 D 193 191 3 194 3 0 0 15 33 -6.174 -1.687 -0.566 IL 194 194 3 194 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 47 ] 35 - u - - - ML 195 194 3 197 3 1 1 13 32 -7.918 -0.021 -6.572 -0.468 -0.861 -0.434 0.990 D 196 194 3 197 3 0 0 13 32 -6.174 -1.687 -0.566 IL 197 197 3 197 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 48 ] 36 - C - - - ML 198 197 3 200 2 1 1 1 1 * 0.000 -1.628 1.592 -2.448 -1.065 D 199 197 3 200 2 0 0 0 0 * 0.000 IL 200 200 3 200 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 49 ] - - - - - - E 201 200 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME TLS-PK2 ACC RF01077 DESC Pseudoknot of tRNA-like structure LENG 66 MAXL 150 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sat Jul 6 19:43:24 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/RF01077/CM NSEQ 4 EFFN 2.628906 CKSUM 3771560152 STATS LOCAL MSV -8.4797 0.71912 STATS LOCAL VITERBI -8.7574 0.71912 STATS LOCAL FORWARD -3.4647 0.71912 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.38766 1.52717 1.21995 1.43571 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 0.00000 * 1 2.67044 3.37371 0.15077 3.31114 1 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 2 3.12423 2.01923 2.89107 0.26428 2 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 3 2.67207 3.37575 0.15044 3.31395 3 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 4 3.06082 1.64331 2.86836 0.35237 4 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 5 3.33286 0.20923 3.12459 2.21504 5 C - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 6 3.12249 2.01911 2.89026 0.26446 6 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 7 2.73669 2.67926 3.25891 0.18854 7 U - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 8 2.83720 3.73311 0.12681 3.30793 8 G - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 9 2.83720 3.73311 0.12681 3.30793 9 G - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 10 0.58096 2.24304 2.29630 1.45297 10 A - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 11 1.24529 1.99958 1.54131 1.01432 11 u - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 12 3.00919 0.17136 3.58507 2.52053 12 C - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 13 2.83720 3.73311 0.12681 3.30793 13 G - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 14 3.00919 0.17136 3.58507 2.52053 14 C - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 15 1.96203 2.88045 0.30502 2.71492 15 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 16 3.33861 0.20869 3.12744 2.21607 16 C - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 17 2.67294 3.37684 0.15027 3.31545 17 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 18 2.67210 3.37578 0.15044 3.31399 18 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 19 1.34967 2.70508 0.55497 2.30540 19 G - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 20 1.83914 2.11371 1.67217 0.63033 20 U - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 21 2.15983 0.61541 2.74273 1.27354 21 C - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 22 0.13404 3.37364 3.08472 3.09146 22 A - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 23 0.13404 3.37364 3.08472 3.09146 23 A - - - 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 24 0.63654 2.78336 1.09415 2.60064 24 A - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 25 2.63122 1.11119 2.38367 0.67997 25 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 26 1.13786 2.53836 0.67166 2.41195 26 G - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 27 3.12449 2.01925 2.89119 0.26426 27 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 28 0.29061 2.93819 1.95111 2.86267 28 A - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 29 1.58728 1.60015 1.83279 0.83543 29 u - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 30 0.82255 2.53405 0.93874 2.40540 30 a - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 31 3.12080 2.01899 2.88947 0.26464 31 U - - < 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 32 2.83720 3.73311 0.12681 3.30793 32 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 33 2.83720 3.73311 0.12681 3.30793 33 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 34 2.73669 2.67926 3.25891 0.18854 34 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 35 1.85190 2.11816 1.70752 0.61342 35 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 36 3.00919 0.17136 3.58507 2.52053 36 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 37 0.30012 3.07562 1.85574 2.86869 37 A - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 38 2.63348 1.06951 2.34335 0.71542 38 u - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 39 0.93461 2.02104 1.43344 1.44284 39 a - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 40 3.08569 2.26066 2.74797 0.24085 40 U - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 41 0.29992 3.07674 1.85588 2.87000 41 A - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 42 2.64576 0.76397 2.34923 1.00024 42 c - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 43 0.77010 2.54832 1.00149 2.39154 43 a - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 44 2.80711 1.79781 2.57706 0.35959 44 U - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 45 3.50719 0.17906 3.21173 2.36789 45 C - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 46 3.50698 0.17908 3.21164 2.36786 46 C - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 47 2.49249 3.29038 0.18075 3.09190 47 G - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 48 2.92207 1.11082 2.67750 0.60120 48 U - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 49 0.29988 3.07699 1.85592 2.87030 49 A - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 50 2.49396 3.29247 0.18038 3.09436 50 G - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 51 2.20116 3.04879 0.24693 2.80158 51 G - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 52 3.51669 0.17831 3.21604 2.36969 52 C - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 53 0.29904 3.08165 1.85651 2.87578 53 A - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 54 3.52940 0.17733 3.22177 2.37206 54 C - - > 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 55 2.83720 3.73311 0.12681 3.30793 55 G - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 56 1.38806 2.09216 2.34847 0.63204 56 U - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 57 0.13404 3.37364 3.08472 3.09146 57 A - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 58 0.13404 3.37364 3.08472 3.09146 58 A - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 59 0.93643 2.06417 2.20153 0.99313 59 a - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 60 0.13404 3.37364 3.08472 3.09146 60 A - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 61 0.62513 2.20549 2.27009 1.38107 61 A - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 62 0.62513 2.20549 2.27009 1.38107 62 A - - : 1.38629 1.38629 1.38629 1.38629 0.20688 1.78373 3.96985 0.21130 1.65828 1.09861 0.40547 63 2.83720 3.73311 0.12681 3.30793 64 G - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 64 3.00919 0.17136 3.58507 2.52053 65 C - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 65 2.83720 3.73311 0.12681 3.30793 66 G - - : 1.38629 1.38629 1.38629 1.38629 0.03848 3.96985 3.96985 1.46634 0.26236 1.09861 0.40547 66 0.62513 2.20549 2.27009 1.38107 67 A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 3.95079 * 1.46634 0.26236 0.00000 * //