INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR27 ACC RF01339 DESC CRISPR RNA direct repeat element STATES 79 NODES 23 CLEN 25 W 39 ALPH RNA RF no CONS yes MAP yes DATE Sat Jul 13 03:22:48 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/RF01339/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 3 EFFN 3.000000 CKSUM 1820951022 NULL 0.000 0.000 0.000 0.000 GA 35.00 TC 35.00 NC 34.90 EFP7GF -3.8493 0.75383 ECMLC 0.50349 -7.76195 4.68162 1600000 631119 0.001901 ECMGC 0.42181 -11.82184 4.89038 1600000 460845 0.000868 ECMLI 0.53977 -5.32285 5.68009 1600000 455495 0.002634 ECMGI 0.45027 -9.66906 5.65965 1600000 397743 0.001006 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 39 58 -7.331 -7.538 -0.041 -5.952 IL 1 1 2 1 4 1 1 44 63 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 43 62 -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 39 58 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 4 2 3 5 3 0 0 38 57 -6.174 -1.687 -0.566 IL 5 5 3 5 3 1 1 42 61 -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 38 57 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 7 5 3 8 3 0 0 37 56 -6.174 -1.687 -0.566 IL 8 8 3 8 3 1 1 41 60 -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 37 56 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 10 8 3 11 3 0 0 36 55 -6.174 -1.687 -0.566 IL 11 11 3 11 3 1 1 39 59 -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 36 55 -8.693 -0.015 -7.010 -2.168 -2.049 -2.929 1.767 D 13 11 3 14 3 0 0 35 54 -5.620 -0.734 -1.403 IL 14 14 3 14 3 1 1 37 56 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 5 ] - 25 - C - - MR 15 14 3 17 3 1 1 35 54 -8.693 -0.015 -7.010 -2.619 1.795 -3.443 -1.863 D 16 14 3 17 3 0 0 33 52 -6.390 -1.568 -0.620 IR 17 17 3 17 3 1 1 36 55 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 6 ] - 24 - A - - MR 18 17 3 20 3 1 1 34 53 -8.693 -0.015 -7.010 1.837 -3.097 -2.659 -2.714 D 19 17 3 20 3 0 0 32 51 -6.390 -1.568 -0.620 IR 20 20 3 20 3 1 1 35 54 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 23 - U - - MR 21 20 3 23 3 1 1 33 52 -8.693 -0.015 -7.010 -2.168 -2.049 -2.929 1.767 D 22 20 3 23 3 0 0 31 50 -6.390 -1.568 -0.620 IR 23 23 3 23 3 1 1 34 53 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 22 - U - - MR 24 23 3 26 5 1 1 32 51 -7.411 -0.031 -7.227 -7.439 -8.330 -1.065 0.139 -1.849 1.100 D 25 23 3 26 5 0 0 31 49 -5.352 -0.707 -2.978 -4.409 -2.404 IR 26 26 3 26 5 1 1 32 51 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 9 ] 5 21 C G - - MP 27 26 3 31 6 2 2 31 50 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -5.348 -5.320 -4.896 -1.500 -3.462 -5.201 3.738 -4.352 -4.984 -1.348 -5.146 -3.290 -0.044 -5.361 -1.200 -3.801 ML 28 26 3 31 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 29 26 3 31 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 30 26 3 31 6 0 0 27 46 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 31 31 5 31 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 32 32 6 32 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 20 A U - - MP 33 32 6 37 6 2 2 29 48 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -4.476 -3.353 -4.422 3.642 -5.136 -6.285 -0.788 -4.416 -4.312 0.335 -4.892 -0.734 -1.200 -5.339 -2.725 -3.234 ML 34 32 6 37 6 1 1 28 47 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 35 32 6 37 6 1 1 28 46 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 36 32 6 37 6 0 0 26 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 37 37 5 37 6 1 1 29 48 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 38 38 6 38 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 19 A U - - MP 39 38 6 43 6 2 2 27 46 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -4.476 -3.353 -4.422 3.642 -5.136 -6.285 -0.788 -4.416 -4.312 0.335 -4.892 -0.734 -1.200 -5.339 -2.725 -3.234 ML 40 38 6 43 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 41 38 6 43 6 1 1 26 45 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 42 38 6 43 6 0 0 25 44 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 6 1 1 27 46 -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 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 8 18 U G - - MP 45 44 6 49 4 2 2 25 44 -7.331 -7.538 -0.041 -5.952 -4.813 -4.762 -4.353 -1.035 -2.919 -4.667 1.378 -3.748 -4.402 -0.961 -4.623 -2.746 0.441 -4.827 3.364 -3.241 ML 46 44 6 49 4 1 1 26 45 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 47 44 6 49 4 1 1 25 44 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 48 44 6 49 4 0 0 24 43 -4.568 -4.250 -2.265 -0.520 IL 49 49 5 49 4 1 1 27 46 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 50 50 6 50 3 1 1 26 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 9 - U - - - ML 51 50 6 53 3 1 1 22 41 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 52 50 6 53 3 0 0 21 40 -6.174 -1.687 -0.566 IL 53 53 3 53 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 10 - C - - - ML 54 53 3 56 3 1 1 21 40 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 55 53 3 56 3 0 0 20 39 -6.174 -1.687 -0.566 IL 56 56 3 56 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 11 - U - - - ML 57 56 3 59 3 1 1 20 38 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 58 56 3 59 3 0 0 19 38 -6.174 -1.687 -0.566 IL 59 59 3 59 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 12 - U - - - ML 60 59 3 62 3 1 1 18 37 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 61 59 3 62 3 0 0 18 37 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 13 - U - - - ML 63 62 3 65 3 1 1 17 36 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 64 62 3 65 3 0 0 17 36 -6.174 -1.687 -0.566 IL 65 65 3 65 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 14 - C - - - ML 66 65 3 68 3 1 1 16 34 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 67 65 3 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 19 ] 15 - U - - - ML 69 68 3 71 3 1 1 15 33 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 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 20 ] 16 - G - - - ML 72 71 3 74 3 1 1 13 31 -8.323 -0.016 -6.977 0.339 -1.883 1.043 -1.311 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 21 ] 17 - U - - - ML 75 74 3 77 2 1 1 1 1 * 0.000 -2.168 -2.049 -2.929 1.767 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 22 ] - - - - - - E 78 77 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR27 ACC RF01339 DESC CRISPR RNA direct repeat element LENG 25 MAXL 94 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Sat Jul 13 03:22:48 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/RF01339/CM NSEQ 3 EFFN 2.510742 CKSUM 1820951022 STATS LOCAL MSV -7.2093 0.75383 STATS LOCAL VITERBI -7.5439 0.75383 STATS LOCAL FORWARD -2.6435 0.75383 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.77708 1.44382 1.96243 0.78894 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 0.00000 * 1 2.94380 0.18278 3.52009 2.46762 1 C - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 2 2.68555 2.63671 3.20591 0.19882 2 U - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 3 2.68555 2.63671 3.20591 0.19882 3 U - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 4 2.68555 2.63671 3.20591 0.19882 4 U - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 5 3.27632 0.22139 3.06187 2.17132 5 C - - < 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 6 0.31021 2.87109 1.90258 2.79876 6 A - - < 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 7 0.31019 2.87117 1.90259 2.79887 7 A - - < 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 8 3.01313 1.61609 2.81388 0.36786 8 U - - < 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 9 2.68555 2.63671 3.20591 0.19882 9 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 10 2.94380 0.18278 3.52009 2.46762 10 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 11 2.68555 2.63671 3.20591 0.19882 11 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 12 2.68555 2.63671 3.20591 0.19882 12 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 13 2.68555 2.63671 3.20591 0.19882 13 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 14 2.94380 0.18278 3.52009 2.46762 14 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 15 2.68555 2.63671 3.20591 0.19882 15 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 16 1.15170 2.57768 0.70480 2.17381 16 g - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 17 2.68555 2.63671 3.20591 0.19882 17 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 18 2.16818 2.99341 0.25893 2.75476 18 G - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 19 3.02833 2.20652 2.68342 0.25723 19 U - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 20 3.03137 2.20692 2.68460 0.25688 20 U - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 21 2.45544 3.23797 0.18943 3.04706 21 G - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 22 2.02384 1.30640 2.56007 0.65439 22 U - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 23 2.68555 2.63671 3.20591 0.19882 23 U - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 24 0.14205 3.31964 3.03590 3.03183 24 A - - : 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 25 2.94380 0.18278 3.52009 2.46762 25 C - - : 1.38629 1.38629 1.38629 1.38629 0.01980 3.93183 * 1.46634 0.26236 0.00000 * //