INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR24 ACC RF01337 DESC CRISPR RNA direct repeat element STATES 94 NODES 27 CLEN 30 W 44 ALPH RNA RF no CONS yes MAP yes DATE Sun Jul 7 21:48:39 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/RF01337/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 4.000000 CKSUM 1067983752 NULL 0.000 0.000 0.000 0.000 GA 35.00 TC 35.00 NC 34.90 EFP7GF -6.5373 0.73871 ECMLC 0.53093 -10.32042 2.07391 1600000 865068 0.001387 ECMGC 0.48112 -14.18254 0.17741 1600000 400442 0.000999 ECMLI 0.54045 -8.61739 2.93692 1600000 618257 0.001941 ECMGI 0.52206 -11.35595 1.50582 1600000 329727 0.001213 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 44 63 -7.615 -7.822 -0.033 -6.236 IL 1 1 2 1 4 1 1 49 68 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 48 67 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - G - - - ML 3 2 3 5 3 1 1 44 63 -8.593 -0.013 -7.247 -2.823 -4.195 1.895 -3.558 D 4 2 3 5 3 0 0 43 62 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 1 47 66 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - U - - - ML 6 5 3 8 3 1 1 43 62 -8.593 -0.013 -7.247 -2.677 -2.478 -3.451 1.837 D 7 5 3 8 3 0 0 42 61 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 1 45 65 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - U - - - ML 9 8 3 11 3 1 1 42 61 -8.593 -0.013 -7.247 -2.677 -2.478 -3.451 1.837 D 10 8 3 11 3 0 0 41 60 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 1 44 64 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - U - - - ML 12 11 3 14 3 1 1 41 60 -8.593 -0.013 -7.247 -0.108 -1.328 -1.730 1.246 D 13 11 3 14 3 0 0 40 59 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 1 43 63 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - C - - - ML 15 14 3 17 3 1 1 40 59 -8.593 -0.013 -7.247 -3.231 1.864 -4.018 -2.379 D 16 14 3 17 3 0 0 39 58 -6.174 -1.687 -0.566 IL 17 17 3 17 3 1 1 42 61 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - A - - - ML 18 17 3 20 3 1 1 39 57 -8.593 -0.013 -7.247 1.889 -3.622 -3.140 -3.290 D 19 17 3 20 3 0 0 38 57 -6.174 -1.687 -0.566 IL 20 20 3 20 3 1 1 41 60 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - G - - - ML 21 20 3 23 3 1 1 38 56 -8.593 -0.013 -7.247 -2.823 -4.195 1.895 -3.558 D 22 20 3 23 3 0 0 37 56 -6.174 -1.687 -0.566 IL 23 23 3 23 3 1 1 40 59 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - A - - - ML 24 23 3 26 3 1 1 36 55 -8.593 -0.013 -7.247 1.889 -3.622 -3.140 -3.290 D 25 23 3 26 3 0 0 36 54 -6.174 -1.687 -0.566 IL 26 26 3 26 3 1 1 39 58 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - C - - - ML 27 26 3 29 3 1 1 35 54 -8.593 -0.013 -7.247 -1.555 1.266 -2.449 0.099 D 28 26 3 29 3 0 0 34 53 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 1 38 57 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 10 ] 10 - G - - - ML 30 29 3 32 3 1 1 34 53 -8.950 -0.012 -7.267 -2.823 -4.195 1.895 -3.558 D 31 29 3 32 3 0 0 33 52 -5.620 -0.734 -1.403 IL 32 32 3 32 3 1 1 35 54 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 30 - u - - MR 33 32 3 35 3 1 1 33 52 -8.950 -0.012 -7.267 -1.283 0.648 -2.123 0.842 D 34 32 3 35 3 0 0 32 50 -6.390 -1.568 -0.620 IR 35 35 3 35 3 1 1 34 53 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 29 - G - - MR 36 35 3 38 3 1 1 32 51 -8.950 -0.012 -7.267 -2.823 -4.195 1.895 -3.558 D 37 35 3 38 3 0 0 31 49 -6.390 -1.568 -0.620 IR 38 38 3 38 3 1 1 33 52 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 13 ] - 28 - A - - MR 39 38 3 41 3 1 1 31 50 -8.950 -0.012 -7.267 1.889 -3.622 -3.140 -3.290 D 40 38 3 41 3 0 0 30 48 -6.390 -1.568 -0.620 IR 41 41 3 41 3 1 1 32 51 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 14 ] - 27 - A - - MR 42 41 3 44 3 1 1 30 49 -8.950 -0.012 -7.267 1.889 -3.622 -3.140 -3.290 D 43 41 3 44 3 0 0 29 47 -6.390 -1.568 -0.620 IR 44 44 3 44 3 1 1 31 50 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 15 ] - 26 - G - - MR 45 44 3 47 5 1 1 29 48 -7.656 -0.026 -7.471 -7.683 -8.575 -2.823 -4.195 1.895 -3.558 D 46 44 3 47 5 0 0 28 47 -5.352 -0.707 -2.978 -4.409 -2.404 IR 47 47 3 47 5 1 1 30 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 11 25 a u - - MP 48 47 3 52 6 2 2 28 47 -9.400 -9.339 -0.017 -8.115 -8.395 -8.790 -4.226 -2.991 -4.380 2.759 -5.684 -6.395 -1.278 -4.487 -4.067 0.651 -4.672 2.636 -1.425 -5.206 -3.163 -3.072 ML 49 47 3 52 6 1 1 27 45 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 50 47 3 52 6 1 1 27 45 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 51 47 3 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 28 47 -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 28 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 17 ] 12 24 A U - - MP 54 53 6 58 6 2 2 26 45 -9.400 -9.339 -0.017 -8.115 -8.395 -8.790 -5.003 -3.794 -4.847 3.771 -5.908 -7.143 -1.529 -4.807 -4.794 -0.246 -5.395 -1.126 -1.928 -6.065 -3.460 -3.682 ML 55 53 6 58 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 56 53 6 58 6 1 1 25 43 -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 23 41 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 58 58 5 58 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 59 59 6 59 5 1 1 26 44 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 18 ] 13 23 C G - - MP 60 59 6 64 6 2 2 24 43 -9.400 -9.339 -0.017 -8.115 -8.395 -8.790 -5.950 -5.973 -5.383 -2.142 -3.866 -5.609 3.825 -4.822 -5.519 -2.037 -5.588 -3.985 -0.541 -5.921 -1.647 -4.326 ML 61 59 6 64 6 1 1 23 42 -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 23 42 -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 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 64 64 5 64 6 1 1 24 43 -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 24 42 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 19 ] 14 22 C G - - MP 66 65 6 70 6 2 2 22 41 -9.400 -9.339 -0.017 -8.115 -8.395 -8.790 -5.950 -5.973 -5.383 -2.142 -3.866 -5.609 3.825 -4.822 -5.519 -2.037 -5.588 -3.985 -0.541 -5.921 -1.647 -4.326 ML 67 65 6 70 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 68 65 6 70 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 69 65 6 70 6 0 0 20 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 70 70 5 70 6 1 1 22 41 -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 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 15 21 C G - - MP 72 71 6 76 4 2 2 20 39 -7.615 -7.822 -0.033 -6.236 -4.498 -4.561 -4.262 -0.977 -3.068 1.252 3.317 -3.851 -4.316 -0.827 -4.620 -2.760 0.372 -4.591 -0.800 -3.214 ML 73 71 6 76 4 1 1 22 40 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 74 71 6 76 4 1 1 21 40 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 75 71 6 76 4 0 0 20 39 -4.568 -4.250 -2.265 -0.520 IL 76 76 5 76 4 1 1 23 42 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 77 77 6 77 3 1 1 22 40 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 21 ] 16 - U - - - ML 78 77 6 80 3 1 1 17 36 -8.593 -0.013 -7.247 -2.677 -2.478 -3.451 1.837 D 79 77 6 80 3 0 0 17 35 -6.174 -1.687 -0.566 IL 80 80 3 80 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 17 - U - - - ML 81 80 3 83 3 1 1 16 34 -8.593 -0.013 -7.247 -1.446 -0.138 -2.229 1.328 D 82 80 3 83 3 0 0 16 34 -6.174 -1.687 -0.566 IL 83 83 3 83 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 23 ] 18 - G - - - ML 84 83 3 86 3 1 1 14 33 -8.593 -0.013 -7.247 -2.823 -4.195 1.895 -3.558 D 85 83 3 86 3 0 0 15 33 -6.174 -1.687 -0.566 IL 86 86 3 86 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 24 ] 19 - U - - - ML 87 86 3 89 3 1 1 13 31 -8.593 -0.013 -7.247 -0.972 -1.351 -0.423 1.234 D 88 86 3 89 3 0 0 13 32 -6.174 -1.687 -0.566 IL 89 89 3 89 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 25 ] 20 - G - - - ML 90 89 3 92 2 1 1 1 1 * 0.000 -1.104 -1.901 1.299 -0.311 D 91 89 3 92 2 0 0 0 0 * 0.000 IL 92 92 3 92 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 26 ] - - - - - - E 93 92 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR24 ACC RF01337 DESC CRISPR RNA direct repeat element LENG 30 MAXL 99 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sun Jul 7 21:48:39 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/RF01337/CM NSEQ 4 EFFN 3.316406 CKSUM 1067983752 STATS LOCAL MSV -6.7967 0.73871 STATS LOCAL VITERBI -7.4745 0.73871 STATS LOCAL FORWARD -3.2210 0.73871 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.51265 1.64073 1.11802 1.35127 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 0.00000 * 1 3.11746 4.04575 0.09287 3.61487 1 G - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 2 3.00973 2.90756 3.54027 0.14262 2 U - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 3 3.00973 2.90756 3.54027 0.14262 3 U - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 4 1.44350 2.20578 2.47856 0.56234 4 U - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 5 3.34961 0.12310 3.91509 2.80034 5 C - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 6 0.09905 3.65800 3.34325 3.40534 6 A - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 7 3.11746 4.04575 0.09287 3.61487 7 G - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 8 0.09905 3.65800 3.34325 3.40534 8 A - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 9 2.31959 0.55388 2.92206 1.29774 9 C - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 10 3.11746 4.04575 0.09287 3.61487 10 G - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 11 0.87033 3.15270 0.72366 2.92852 11 g - - < 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 12 0.20522 3.30777 2.21844 3.21492 12 A - - < 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 13 3.63841 0.15463 3.46176 2.45810 13 C - - < 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 14 3.63658 0.15475 3.46078 2.45776 14 C - - < 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 15 2.91595 0.30507 2.71479 1.94804 15 C - - < 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 16 3.00973 2.90756 3.54027 0.14262 16 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 17 2.24792 1.48213 2.78473 0.50173 17 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 18 3.11746 4.04575 0.09287 3.61487 18 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 19 1.95024 2.22011 1.67669 0.57595 19 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 20 2.02909 2.56953 0.53717 1.57227 20 G - - _ 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 21 2.21994 1.73362 0.43512 2.69480 21 G - - > 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 22 2.73971 3.62842 0.13283 3.40397 22 G - - > 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 23 2.74145 3.63113 0.13251 3.40704 23 G - - > 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 24 3.44466 2.56287 3.11899 0.16629 24 U - - > 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 25 3.14595 2.01286 2.94731 0.26021 25 U - - > 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 26 3.11746 4.04575 0.09287 3.61487 26 G - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 27 0.09905 3.65800 3.34325 3.40534 27 A - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 28 0.09905 3.65800 3.34325 3.40534 28 A - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 29 3.11746 4.04575 0.09287 3.61487 29 G - - : 1.38629 1.38629 1.38629 1.38629 0.03279 4.12713 4.12713 1.46634 0.26236 1.09861 0.40547 30 2.15050 0.97450 2.71975 0.82029 30 u - - : 1.38629 1.38629 1.38629 1.38629 0.01653 4.11087 * 1.46634 0.26236 0.00000 * //