INFERNAL1/a [1.1.4 | Dec 2020] NAME PK-CuYV_BPYV ACC RF01095 DESC 3'-terminal pseudoknot of CuYV/BPYV STATES 172 NODES 46 CLEN 56 W 71 ALPH RNA RF no CONS yes MAP yes DATE Wed Mar 5 13:53:49 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/software/bin/cmcalibrate --mpi 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 1.746094 CKSUM 1334313597 NULL 0.000 0.000 0.000 0.000 GA 60.00 TC 89.90 NC 34.20 EFP7GF -6.0916 0.72723 ECMLC 0.55439 -8.64643 2.67712 1600000 639056 0.001878 ECMGC 0.47246 -15.12140 -1.99464 1600000 197465 0.002026 ECMLI 0.56516 -6.36783 3.95984 1600000 411202 0.002918 ECMGI 0.45288 -12.35652 0.33206 1600000 125228 0.003194 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 71 90 -6.871 -7.078 -0.056 -5.492 IL 1 1 2 1 4 1 12 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 12 74 94 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - C - - - ML 3 2 3 5 3 1 11 71 90 -8.288 -0.020 -6.606 -1.569 1.574 -2.387 -1.018 D 4 2 3 5 3 0 7 70 89 -5.620 -0.734 -1.403 IL 5 5 3 5 3 1 10 72 91 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 56 - G - - MR 6 5 3 8 3 1 10 70 89 -8.288 -0.020 -6.606 -1.428 -2.623 1.686 -2.009 D 7 5 3 8 3 0 5 68 87 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 10 71 90 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 55 - G - - MR 9 8 3 11 3 1 10 69 88 -8.288 -0.020 -6.606 -1.428 -2.623 1.686 -2.009 D 10 8 3 11 3 0 4 67 86 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 9 70 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 9 68 87 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 13 11 3 14 3 0 3 66 85 -6.390 -1.568 -0.620 IR 14 14 3 14 3 1 8 69 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 8 67 86 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 16 14 3 17 3 0 2 65 84 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 7 68 87 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 52 - A - - MR 18 17 3 20 3 1 7 66 85 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 19 17 3 20 3 0 2 64 83 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 6 67 86 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 51 - U - - MR 21 20 3 23 3 1 7 65 84 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 D 22 20 3 23 3 0 1 63 82 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 5 66 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 6 64 83 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 25 23 3 26 3 0 0 62 81 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 5 65 84 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 49 - A - - MR 27 26 3 29 3 1 5 63 82 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 28 26 3 29 3 0 0 61 80 -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 - A - - MR 30 29 3 32 3 1 5 62 81 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 31 29 3 32 3 0 0 60 79 -6.390 -1.568 -0.620 IR 32 32 3 32 3 1 3 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 4 61 80 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 D 34 32 3 35 3 0 0 59 78 -6.390 -1.568 -0.620 IR 35 35 3 35 3 1 3 62 81 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 46 - G - - MR 36 35 3 38 3 1 4 60 79 -8.288 -0.020 -6.606 -1.428 -2.623 1.686 -2.009 D 37 35 3 38 3 0 0 58 77 -6.390 -1.568 -0.620 IR 38 38 3 38 3 1 2 61 80 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 13 ] - 45 - A - - MR 39 38 3 41 3 1 3 59 78 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 40 38 3 41 3 0 0 57 76 -6.390 -1.568 -0.620 IR 41 41 3 41 3 1 2 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 3 58 77 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 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 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 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 - A - - MR 48 47 3 50 3 1 2 56 75 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 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 2 55 74 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 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 - G - - MR 54 53 3 56 3 1 1 54 73 -8.288 -0.020 -6.606 -1.428 -2.623 1.686 -2.009 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 - A - - MR 57 56 3 59 3 1 1 53 72 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 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 -7.031 -0.041 -6.847 -7.059 -7.950 -1.355 -1.374 -2.081 1.579 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 G C - - MP 63 62 3 67 6 2 2 51 70 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.606 -3.029 -4.693 0.290 -5.041 -4.640 -0.439 -4.925 -4.238 3.604 -4.585 -0.724 -0.828 -4.378 -2.469 -3.572 ML 64 62 3 67 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 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 U A - - MP 69 68 6 73 6 2 2 49 68 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 70 68 6 73 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 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 U A - - MP 75 74 6 79 6 2 2 47 66 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 76 74 6 79 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 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 U A - - MP 81 80 6 85 6 2 2 45 64 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 82 80 6 85 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 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 G C - - MP 87 86 6 91 6 2 2 43 62 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.606 -3.029 -4.693 0.290 -5.041 -4.640 -0.439 -4.925 -4.238 3.604 -4.585 -0.724 -0.828 -4.378 -2.469 -3.572 ML 88 86 6 91 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 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 G C - - MP 93 92 6 97 6 2 2 41 60 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.606 -3.029 -4.693 0.290 -5.041 -4.640 -0.439 -4.925 -4.238 3.604 -4.585 -0.724 -0.828 -4.378 -2.469 -3.572 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 59 -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 U A - - MP 99 98 6 103 6 2 2 39 58 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 100 98 6 103 6 1 1 38 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 38 57 -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 36 55 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 103 103 5 103 6 1 1 39 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 C G - - MP 105 104 6 109 4 2 2 37 56 -6.871 -7.078 -0.056 -5.492 -4.408 -4.301 -4.121 -0.546 -2.871 -4.551 3.505 -3.667 -4.166 -0.285 -4.442 -2.246 0.657 -4.486 -0.574 -3.011 ML 106 104 6 109 4 1 1 37 57 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 107 104 6 109 4 1 1 37 56 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 108 104 6 109 4 0 0 36 55 -4.568 -4.250 -2.265 -0.520 IL 109 109 5 109 4 1 1 39 58 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 110 110 6 110 3 1 1 38 57 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 29 ] 10 - G - - - ML 111 110 6 113 3 1 1 34 53 -7.893 -0.022 -6.547 -1.428 -2.623 1.686 -2.009 D 112 110 6 113 3 0 0 33 52 -6.174 -1.687 -0.566 IL 113 113 3 113 3 1 1 37 56 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 30 ] 11 - A - - - ML 114 113 3 116 3 1 1 33 52 -7.893 -0.022 -6.547 1.686 -2.228 -1.874 -1.756 D 115 113 3 116 3 0 0 32 51 -6.174 -1.687 -0.566 IL 116 116 3 116 3 1 1 35 55 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 31 ] 12 - A - - - ML 117 116 3 119 3 1 1 32 51 -8.288 -0.020 -6.606 1.686 -2.228 -1.874 -1.756 D 118 116 3 119 3 0 0 31 49 -5.620 -0.734 -1.403 IL 119 119 3 119 3 1 1 33 52 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 32 ] - 29 - U - - MR 120 119 3 122 3 1 1 31 50 -8.288 -0.020 -6.606 -1.355 -1.374 -2.081 1.579 D 121 119 3 122 3 0 0 29 48 -6.390 -1.568 -0.620 IR 122 122 3 122 3 1 1 32 50 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 33 ] - 28 - C - - MR 123 122 3 125 3 1 1 30 49 -8.288 -0.020 -6.606 -1.569 1.574 -2.387 -1.018 D 124 122 3 125 3 0 0 28 47 -6.390 -1.568 -0.620 IR 125 125 3 125 3 1 1 31 49 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 34 ] - 27 - C - - MR 126 125 3 128 3 1 1 29 48 -8.288 -0.020 -6.606 -1.569 1.574 -2.387 -1.018 D 127 125 3 128 3 0 0 27 46 -6.390 -1.568 -0.620 IR 128 128 3 128 3 1 1 30 48 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 35 ] - 26 - G - - MR 129 128 3 131 5 1 1 28 47 -7.031 -0.041 -6.847 -7.059 -7.950 -1.428 -2.623 1.686 -2.009 D 130 128 3 131 5 0 0 27 45 -5.352 -0.707 -2.978 -4.409 -2.404 IR 131 131 3 131 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 36 ] 13 25 U A - - MP 132 131 3 136 6 2 2 27 46 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 133 131 3 136 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 134 131 3 136 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 135 131 3 136 6 0 0 23 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 136 136 5 136 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 137 137 6 137 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 37 ] 14 24 G C - - MP 138 137 6 142 6 2 2 25 44 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.606 -3.029 -4.693 0.290 -5.041 -4.640 -0.439 -4.925 -4.238 3.604 -4.585 -0.724 -0.828 -4.378 -2.469 -3.572 ML 139 137 6 142 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 140 137 6 142 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 141 137 6 142 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 142 142 5 142 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 143 143 6 143 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 38 ] 15 23 C G - - MP 144 143 6 148 6 2 2 23 42 -9.079 -9.018 -0.022 -7.794 -8.074 -8.469 -4.408 -4.301 -4.121 -0.546 -2.871 -4.551 3.505 -3.667 -4.166 -0.285 -4.442 -2.246 0.657 -4.486 -0.574 -3.011 ML 145 143 6 148 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 146 143 6 148 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 147 143 6 148 6 0 0 21 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 148 148 5 148 6 1 1 23 42 -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 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 39 ] 16 22 U A - - MP 150 149 6 154 4 2 2 21 40 -6.871 -7.078 -0.056 -5.492 -4.043 -3.864 -3.898 -0.170 -2.872 -4.475 1.453 -3.557 -3.904 0.107 -4.285 -1.767 3.253 -4.200 -0.551 -2.742 ML 151 149 6 154 4 1 1 22 41 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 152 149 6 154 4 1 1 21 40 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 153 149 6 154 4 0 0 20 39 -4.568 -4.250 -2.265 -0.520 IL 154 154 5 154 4 1 1 23 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 155 155 6 155 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 40 ] 17 - A - - - ML 156 155 6 158 3 1 1 18 36 -7.893 -0.022 -6.547 1.686 -2.228 -1.874 -1.756 D 157 155 6 158 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 41 ] 18 - C - - - ML 159 158 3 161 3 1 1 16 35 -7.893 -0.022 -6.547 -1.569 1.574 -2.387 -1.018 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 42 ] 19 - U - - - ML 162 161 3 164 3 1 1 15 33 -7.893 -0.022 -6.547 -1.355 -1.374 -2.081 1.579 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 43 ] 20 - A - - - ML 165 164 3 167 3 1 1 13 32 -7.893 -0.022 -6.547 1.686 -2.228 -1.874 -1.756 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 44 ] 21 - G - - - ML 168 167 3 170 2 1 1 1 1 * 0.000 -1.428 -2.623 1.686 -2.009 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 45 ] - - - - - - E 171 170 3 -1 0 0 0 0 0 // HMMER3/f [3.3.2 | Nov 2020] NAME PK-CuYV_BPYV ACC RF01095 DESC 3'-terminal pseudoknot of CuYV/BPYV LENG 56 MAXL 141 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Mar 5 13:53:49 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED COM [2] /nfs/production/xfam/rfam/software/bin/cmcalibrate --mpi CM NSEQ 2 EFFN 1.589844 CKSUM 1334313597 STATS LOCAL MSV -7.6015 0.72723 STATS LOCAL VITERBI -8.8444 0.72723 STATS LOCAL FORWARD -3.1300 0.72723 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.20721 1.58006 1.37156 1.42173 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 0.00000 * 1 2.36922 0.32989 2.93122 2.00907 1 C - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 2 2.33089 2.81749 0.24843 2.76448 2 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 3 2.56590 1.61598 2.26468 0.47708 3 U - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 4 2.56720 1.61597 2.26513 0.47685 4 U - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 5 2.56750 1.61596 2.26523 0.47680 5 U - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 6 2.33450 2.82092 0.24731 2.76952 6 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 7 2.33429 2.82072 0.24738 2.76922 7 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 8 2.56675 1.61597 2.26497 0.47693 8 U - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 9 2.80553 0.35975 2.52664 1.82171 9 C - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 10 2.28134 3.09386 0.24448 2.66766 10 G - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 11 0.24029 2.84226 2.60604 2.50743 11 A - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 12 0.24029 2.84226 2.60604 2.50743 12 A - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 13 2.56292 1.61601 2.26365 0.47761 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 2.33365 2.82011 0.24757 2.76833 14 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 15 2.80681 0.35954 2.52716 1.82190 15 C - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 16 2.56762 1.61596 2.26528 0.47678 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 0.24029 2.84226 2.60604 2.50743 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 2.36922 0.32989 2.93122 2.00907 18 C - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 19 2.24588 2.27392 2.74471 0.31884 19 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 20 0.24029 2.84226 2.60604 2.50743 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 2.28134 3.09386 0.24448 2.66766 21 G - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 22 0.54317 2.44182 1.45247 2.32176 22 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 23 2.09636 2.69442 0.31114 2.56519 23 G - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 24 2.99370 0.28812 2.65262 2.04204 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 0.54268 2.44314 1.45240 2.32366 25 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 26 2.28134 3.09386 0.24448 2.66766 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 2.36922 0.32989 2.93122 2.00907 27 C - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 28 2.36922 0.32989 2.93122 2.00907 28 C - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 29 2.24588 2.27392 2.74471 0.31884 29 U - - - 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 30 2.09457 2.69241 0.31191 2.56248 30 G - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 31 0.54346 2.44103 1.45251 2.32064 31 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 32 2.98744 0.28898 2.65019 2.04082 32 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 33 2.98855 0.28883 2.65062 2.04104 33 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 34 0.54318 2.44178 1.45247 2.32171 34 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 35 0.54305 2.44214 1.45245 2.32222 35 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 36 0.54289 2.44257 1.45243 2.32284 36 A - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 37 2.99573 0.28785 2.65341 2.04244 37 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 38 2.24588 2.27392 2.74471 0.31884 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 0.24029 2.84226 2.60604 2.50743 39 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 40 2.28134 3.09386 0.24448 2.66766 40 G - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 41 2.24588 2.27392 2.74471 0.31884 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 0.24029 2.84226 2.60604 2.50743 42 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 43 2.24588 2.27392 2.74471 0.31884 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 2.24588 2.27392 2.74471 0.31884 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 0.24029 2.84226 2.60604 2.50743 45 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 46 2.28134 3.09386 0.24448 2.66766 46 G - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 47 2.24588 2.27392 2.74471 0.31884 47 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 48 0.24029 2.84226 2.60604 2.50743 48 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 49 0.24029 2.84226 2.60604 2.50743 49 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 50 0.24029 2.84226 2.60604 2.50743 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 2.24588 2.27392 2.74471 0.31884 51 U - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 52 0.24029 2.84226 2.60604 2.50743 52 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 53 0.24029 2.84226 2.60604 2.50743 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 0.24029 2.84226 2.60604 2.50743 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 2.28134 3.09386 0.24448 2.66766 55 G - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 56 2.28134 3.09386 0.24448 2.66766 56 G - - : 1.38629 1.38629 1.38629 1.38629 0.02469 3.71357 * 1.46634 0.26236 0.00000 * //