INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR25 ACC RF01338 DESC CRISPR RNA direct repeat element STATES 79 NODES 21 CLEN 25 W 38 ALPH RNA RF no CONS yes MAP yes DATE Sun Jul 7 23:57:39 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/RF01338/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 5 EFFN 5.000000 CKSUM 869842131 NULL 0.000 0.000 0.000 0.000 GA 36.00 TC 36.20 NC 35.70 EFP7GF -7.3484 0.73965 ECMLC 0.61116 -6.55179 4.45862 1600000 1003643 0.001196 ECMGC 0.50712 -12.22667 2.74172 1600000 791878 0.000505 ECMLI 0.64216 -4.72177 5.30680 1600000 751638 0.001597 ECMGI 0.51210 -10.89873 3.75050 1600000 724588 0.000552 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 38 57 -7.853 -8.060 -0.028 -6.474 IL 1 1 2 1 4 1 1 43 62 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 42 61 -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 1 38 57 -8.820 -0.011 -7.474 -3.685 1.899 -4.419 -2.783 D 4 2 3 5 3 0 0 37 56 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 1 41 60 -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 37 56 -8.820 -0.011 -7.474 -3.083 -2.826 -3.864 1.877 D 7 5 3 8 3 0 0 36 55 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 1 40 59 -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 36 55 -8.820 -0.011 -7.474 -3.083 -2.826 -3.864 1.877 D 10 8 3 11 3 0 0 35 54 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 1 39 58 -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 35 54 -8.820 -0.011 -7.474 -3.083 -2.826 -3.864 1.877 D 13 11 3 14 3 0 0 34 53 -6.174 -1.687 -0.566 IL 14 14 3 14 3 1 1 38 57 -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 34 53 -9.168 -0.011 -7.485 -3.685 1.899 -4.419 -2.783 D 16 14 3 17 3 0 0 33 51 -5.620 -0.734 -1.403 IL 17 17 3 17 3 1 1 35 53 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 25 - C - - MR 18 17 3 20 3 1 1 33 52 -9.168 -0.011 -7.485 -3.685 1.899 -4.419 -2.783 D 19 17 3 20 3 0 0 31 50 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 1 34 52 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 24 - U - - MR 21 20 3 23 3 1 1 32 51 -9.168 -0.011 -7.485 -3.083 -2.826 -3.864 1.877 D 22 20 3 23 3 0 0 30 49 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 1 33 51 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 23 - A - - MR 24 23 3 26 3 1 1 31 50 -9.168 -0.011 -7.485 1.388 -1.772 -1.874 -0.290 D 25 23 3 26 3 0 0 29 48 -6.390 -1.568 -0.620 IR 26 26 3 26 3 1 1 32 50 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 22 - C - - MR 27 26 3 29 5 1 1 30 49 -7.865 -0.023 -7.680 -7.892 -8.784 -0.447 1.397 -2.496 -1.136 D 28 26 3 29 5 0 0 29 47 -5.352 -0.707 -2.978 -4.409 -2.404 IR 29 29 3 29 5 1 1 30 49 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 6 21 A U - - MP 30 29 3 34 6 2 2 29 48 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.421 -4.170 -5.143 3.837 -6.509 -7.803 -2.118 -5.083 -5.190 -0.708 -5.803 -1.473 -2.497 -6.615 -4.039 -4.031 ML 31 29 3 34 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 32 29 3 34 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 33 29 3 34 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 34 34 5 34 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 35 35 6 35 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 7 20 A U - - MP 36 35 6 40 6 2 2 27 46 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.421 -4.170 -5.143 3.837 -6.509 -7.803 -2.118 -5.083 -5.190 -0.708 -5.803 -1.473 -2.497 -6.615 -4.039 -4.031 ML 37 35 6 40 6 1 1 26 44 -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 25 44 -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 23 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 40 40 5 40 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 41 41 6 41 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 8 19 U A - - MP 42 41 6 46 6 2 2 25 44 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -6.530 -6.383 -6.095 -2.606 -4.670 -6.446 -0.356 -5.486 -6.084 -2.576 -6.357 -4.253 3.852 -6.538 -2.284 -4.463 ML 43 41 6 46 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 44 41 6 46 6 1 1 24 42 -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 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 46 46 5 46 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 47 47 6 47 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 9 18 u g - - MP 48 47 6 52 6 2 2 23 42 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.303 -5.422 -4.823 -1.611 -3.321 -5.097 2.739 -4.185 -4.886 -1.507 -5.095 -3.553 0.092 -5.257 2.819 -3.700 ML 49 47 6 52 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 50 47 6 52 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 51 47 6 52 6 0 0 20 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 52 52 5 52 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 53 53 6 53 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 10 17 C G - - MP 54 53 6 58 6 2 2 21 40 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -6.436 -6.502 -5.772 -2.678 -4.205 -5.936 3.874 -5.224 -5.962 -2.604 -5.938 -4.563 -0.969 -6.377 -2.038 -4.766 ML 55 53 6 58 6 1 1 21 40 -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 21 39 -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 19 38 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 58 58 5 58 6 1 1 21 40 -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 21 39 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 11 16 C G - - MP 60 59 6 64 4 2 2 19 38 -7.853 -8.060 -0.028 -6.474 -6.436 -6.502 -5.772 -2.678 -4.205 -5.936 3.874 -5.224 -5.962 -2.604 -5.938 -4.563 -0.969 -6.377 -2.038 -4.766 ML 61 59 6 64 4 1 1 20 39 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 62 59 6 64 4 1 1 20 39 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 63 59 6 64 4 0 0 19 38 -4.568 -4.250 -2.265 -0.520 IL 64 64 5 64 4 1 1 22 41 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 65 65 6 65 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 12 - U - - - ML 66 65 6 68 3 1 1 16 34 -8.820 -0.011 -7.474 -3.083 -2.826 -3.864 1.877 D 67 65 6 68 3 0 0 16 34 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 13 - U - - - ML 69 68 3 71 3 1 1 14 33 -8.820 -0.011 -7.474 -3.083 -2.826 -3.864 1.877 D 70 68 3 71 3 0 0 15 33 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 14 - U - - - ML 72 71 3 74 3 1 1 12 31 -8.820 -0.011 -7.474 -0.293 -1.588 -2.046 1.383 D 73 71 3 74 3 0 0 13 32 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 19 ] 15 - U - - - ML 75 74 3 77 2 1 1 1 1 * 0.000 -3.083 -2.826 -3.864 1.877 D 76 74 3 77 2 0 0 0 0 * 0.000 IL 77 77 3 77 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 20 ] - - - - - - E 78 77 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR25 ACC RF01338 DESC CRISPR RNA direct repeat element LENG 25 MAXL 91 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sun Jul 7 23:57:39 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/RF01338/CM NSEQ 5 EFFN 4.282227 CKSUM 869842131 STATS LOCAL MSV -6.0878 0.73965 STATS LOCAL VITERBI -7.0509 0.73965 STATS LOCAL FORWARD -3.0301 0.73965 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.73747 1.36454 1.93816 0.85668 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 0.00000 * 1 3.72402 0.08597 4.25972 3.12100 1 C - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 2 3.32787 3.17689 3.86560 0.10373 2 U - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 3 3.32787 3.17689 3.86560 0.10373 3 U - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 4 3.32787 3.17689 3.86560 0.10373 4 U - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 5 3.72402 0.08597 4.25972 3.12100 5 C - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 6 0.13869 3.73846 2.53880 3.62107 6 A - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 7 0.13885 3.73672 2.53836 3.61886 7 A - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 8 3.92484 2.66430 3.76892 0.11931 8 U - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 9 3.38203 0.85476 3.21328 0.69232 9 U - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 10 3.99220 0.10857 3.85527 2.76048 10 C - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 11 3.98946 0.10871 3.85371 2.75995 11 C - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 12 3.32787 3.17689 3.86560 0.10373 12 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 13 3.32787 3.17689 3.86560 0.10373 13 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 14 1.56844 2.38191 2.69088 0.45976 14 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 15 3.32787 3.17689 3.86560 0.10373 15 U - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 16 3.04061 4.01632 0.09314 3.76744 16 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 17 3.04207 4.01876 0.09295 3.77011 17 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 18 2.40632 3.36792 0.18380 3.13991 18 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 19 0.13551 3.96952 2.49854 3.66364 19 A - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 20 3.84595 2.91720 3.54677 0.11011 20 U - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 21 3.85949 2.91962 3.55309 0.10945 21 U - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 22 1.66369 0.45972 2.96380 2.05983 22 C - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 23 0.45362 2.51653 2.58066 1.56920 23 A - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 24 3.32787 3.17689 3.86560 0.10373 24 U - - : 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 25 3.72402 0.08597 4.25972 3.12100 25 C - - : 1.38629 1.38629 1.38629 1.38629 0.01418 4.26268 * 1.46634 0.26236 0.00000 * //