INFERNAL1/a [1.1.5 | Sep 2023] NAME blv_FSE ACC RF01785 DESC ribosomal frameshift site STATES 85 NODES 23 CLEN 27 W 41 ALPH RNA RF no CONS yes MAP yes DATE Mon Jul 8 09:10:36 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/RF01785/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 1260552359 NULL 0.000 0.000 0.000 0.000 GA 34.00 TC 34.00 NC 33.50 EFP7GF -3.2502 0.76956 ECMLC 0.61603 -6.58112 3.36941 1600000 551251 0.002177 ECMGC 0.50584 -9.63504 3.38499 1600000 289955 0.001380 ECMLI 0.60356 -5.30735 4.13867 1600000 359089 0.003342 ECMGI 0.52706 -7.96524 4.09094 1600000 230002 0.001739 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 41 60 -6.891 -8.136 -0.079 -4.590 IL 1 1 2 1 4 1 1 43 62 -2.817 -4.319 -0.613 -2.698 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 43 62 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 1 ] - 27 - U - - MR 3 2 3 5 3 1 1 41 60 -8.380 -0.018 -6.697 -1.535 -1.523 -2.271 1.632 D 4 2 3 5 3 0 0 39 58 -6.390 -1.568 -0.620 IR 5 5 3 5 3 1 1 42 61 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 26 - a - - MR 6 5 3 8 3 1 1 40 59 -8.380 -0.018 -6.697 0.713 -1.419 0.512 -0.832 D 7 5 3 8 3 0 0 38 57 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 1 41 60 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 25 - C - - MR 9 8 3 11 3 1 1 39 58 -8.380 -0.018 -6.697 -1.806 1.641 -2.632 -1.207 D 10 8 3 11 3 0 0 37 56 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 1 40 59 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 24 - u - - MR 12 11 3 14 3 1 1 38 57 -8.380 -0.018 -6.697 -0.727 0.473 -1.508 0.728 D 13 11 3 14 3 0 0 36 55 -6.390 -1.568 -0.620 IR 14 14 3 14 3 1 1 39 58 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 5 ] - 23 - A - - MR 15 14 3 17 3 1 1 37 56 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 16 14 3 17 3 0 0 35 54 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 1 38 57 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 22 - A - - MR 18 17 3 20 3 1 1 36 55 -8.380 -0.018 -6.697 1.730 -2.426 -2.052 -1.973 D 19 17 3 20 3 0 0 35 53 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 1 37 56 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 21 - A - - MR 21 20 3 23 5 1 1 35 54 -7.117 -0.038 -6.932 -7.144 -8.036 1.730 -2.426 -2.052 -1.973 D 22 20 3 23 5 0 0 34 53 -5.352 -0.707 -2.978 -4.409 -2.404 IR 23 23 3 23 5 1 1 35 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 8 ] 1 20 G C - - MP 24 23 3 28 6 2 2 34 53 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 25 23 3 28 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 26 23 3 28 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 27 23 3 28 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 28 28 5 28 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 29 29 6 29 5 1 1 33 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 9 ] 2 19 G C - - MP 30 29 6 34 6 2 2 32 51 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 31 29 6 34 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 32 29 6 34 6 1 1 30 49 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 33 29 6 34 6 0 0 28 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 34 34 5 34 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 35 35 6 35 5 1 1 31 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 3 18 G C - - MP 36 35 6 40 6 2 2 30 49 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 37 35 6 40 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 38 35 6 40 6 1 1 29 47 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 39 35 6 40 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 40 40 5 40 6 1 1 30 49 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 41 41 6 41 5 1 1 29 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 4 17 G C - - MP 42 41 6 46 6 2 2 28 47 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 43 41 6 46 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 44 41 6 46 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 45 41 6 46 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 46 46 5 46 6 1 1 28 47 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 47 47 6 47 5 1 1 27 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 5 16 G C - - MP 48 47 6 52 6 2 2 26 45 -9.118 -9.058 -0.021 -7.834 -8.114 -8.509 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 49 47 6 52 6 1 1 26 45 -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 25 44 -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 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 52 52 5 52 6 1 1 26 45 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 53 53 6 53 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 6 15 G C - - MP 54 53 6 58 4 2 2 24 43 -6.977 -7.184 -0.052 -5.598 -4.798 -3.121 -4.902 0.163 -5.312 -4.716 -0.662 -5.149 -4.364 3.651 -4.697 -0.822 -1.046 -4.505 -2.702 -3.778 ML 55 53 6 58 4 1 1 25 44 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 56 53 6 58 4 1 1 24 43 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 57 53 6 58 4 0 0 23 42 -4.568 -4.250 -2.265 -0.520 IL 58 58 5 58 4 1 1 26 45 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 59 59 6 59 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 7 - A - - - ML 60 59 6 62 3 1 1 21 40 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 61 59 6 62 3 0 0 20 39 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 8 - C - - - ML 63 62 3 65 3 1 1 20 39 -7.991 -0.020 -6.645 -1.806 1.641 -2.632 -1.207 D 64 62 3 65 3 0 0 19 38 -6.174 -1.687 -0.566 IL 65 65 3 65 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 9 - u - - - ML 66 65 3 68 3 1 1 19 37 -7.991 -0.020 -6.645 -0.727 0.473 -1.508 0.728 D 67 65 3 68 3 0 0 18 37 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 10 - U - - - ML 69 68 3 71 3 1 1 18 36 -7.991 -0.020 -6.645 -1.535 -1.523 -2.271 1.632 D 70 68 3 71 3 0 0 17 36 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 1 21 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 11 - A - - - ML 72 71 3 74 3 1 1 16 35 -7.991 -0.020 -6.645 1.730 -2.426 -2.052 -1.973 D 73 71 3 74 3 0 0 16 34 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 12 - G - - - ML 75 74 3 77 3 1 1 15 33 -7.991 -0.020 -6.645 -1.638 -2.867 1.736 -2.254 D 76 74 3 77 3 0 0 15 33 -6.174 -1.687 -0.566 IL 77 77 3 77 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 20 ] 13 - C - - - ML 78 77 3 80 3 1 1 13 31 -7.991 -0.020 -6.645 -1.806 1.641 -2.632 -1.207 D 79 77 3 80 3 0 0 13 32 -6.174 -1.687 -0.566 IL 80 80 3 80 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 14 - G - - - ML 81 80 3 83 2 1 1 1 1 * 0.000 -1.638 -2.867 1.736 -2.254 D 82 80 3 83 2 0 0 0 0 * 0.000 IL 83 83 3 83 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 22 ] - - - - - - E 84 83 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME blv_FSE ACC RF01785 DESC ribosomal frameshift site LENG 27 MAXL 100 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon Jul 8 09:10:36 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/RF01785/CM NSEQ 2 EFFN 1.394531 CKSUM 1260552359 STATS LOCAL MSV -7.1497 0.76956 STATS LOCAL VITERBI -8.0898 0.76956 STATS LOCAL FORWARD -2.2939 0.76956 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.45137 1.21101 1.24807 1.71039 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 0.00000 * 1 2.25941 2.69111 0.27898 2.64187 1 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 2 2.26226 2.69360 0.27801 2.64563 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 2.26340 2.69459 0.27763 2.64712 3 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 4 2.26374 2.69489 0.27751 2.64757 4 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 5 2.26373 2.69489 0.27751 2.64756 5 G - - < 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 6 2.26359 2.69476 0.27756 2.64737 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 0.27375 2.72780 2.50302 2.38298 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 2.23567 0.38177 2.79040 1.90359 8 C - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 9 1.75786 1.12626 2.28161 0.91324 9 u - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 10 2.14391 2.19107 2.63583 0.35761 10 U - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 11 0.27375 2.72780 2.50302 2.38298 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 2.15796 2.94812 0.28547 2.52147 12 G - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 13 2.23567 0.38177 2.79040 1.90359 13 C - - _ 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 14 2.15796 2.94812 0.28547 2.52147 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 2.86883 0.32311 2.52324 1.97228 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 2.86972 0.32297 2.52357 1.97245 16 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 17 2.87078 0.32280 2.52396 1.97266 17 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 18 2.87200 0.32261 2.52441 1.97290 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 2.87337 0.32240 2.52492 1.97317 19 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 20 2.87484 0.32217 2.52546 1.97345 20 C - - > 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 21 0.27375 2.72780 2.50302 2.38298 21 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 22 0.27375 2.72780 2.50302 2.38298 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 0.27375 2.72780 2.50302 2.38298 23 A - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 24 1.75786 1.12626 2.28161 0.91324 24 u - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 25 2.23567 0.38177 2.79040 1.90359 25 C - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 26 0.92849 2.22826 1.09501 1.81648 26 a - - : 1.38629 1.38629 1.38629 1.38629 0.04879 3.73767 3.73767 1.46634 0.26236 1.09861 0.40547 27 2.14391 2.19107 2.63583 0.35761 27 U - - : 1.38629 1.38629 1.38629 1.38629 0.02469 3.71357 * 1.46634 0.26236 0.00000 * //