INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR45 ACC RF01354 DESC CRISPR RNA direct repeat element STATES 76 NODES 20 CLEN 24 W 38 ALPH RNA RF no CONS yes MAP yes DATE Thu Jul 4 19:52:20 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/RF01354/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 1843785236 NULL 0.000 0.000 0.000 0.000 GA 37.00 TC 37.20 NC 36.60 EFP7GF -4.0846 0.75617 ECMLC 0.57900 -5.69967 4.93445 1600000 566515 0.002118 ECMGC 0.49084 -10.35126 4.61959 1600000 621419 0.000644 ECMLI 0.57977 -4.66301 5.71209 1600000 491519 0.002441 ECMGI 0.50865 -8.73636 5.33790 1600000 514211 0.000778 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 38 57 -7.331 -7.538 -0.041 -5.952 IL 1 1 2 1 4 1 1 42 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 41 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 -8.693 -0.015 -7.010 -2.619 1.795 -3.443 -1.863 D 4 2 3 5 3 0 0 37 55 -5.620 -0.734 -1.403 IL 5 5 3 5 3 1 1 39 58 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 24 - c - - MR 6 5 3 8 3 1 1 37 56 -8.693 -0.015 -7.010 -1.118 0.977 -1.962 0.394 D 7 5 3 8 3 0 0 35 54 -6.390 -1.568 -0.620 IR 8 8 3 8 3 1 1 38 56 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 3 ] - 23 - U - - MR 9 8 3 11 3 1 1 36 55 -8.693 -0.015 -7.010 -2.168 -2.049 -2.929 1.767 D 10 8 3 11 3 0 0 34 53 -6.390 -1.568 -0.620 IR 11 11 3 11 3 1 1 37 55 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 4 ] - 22 - U - - MR 12 11 3 14 5 1 1 35 54 -7.411 -0.031 -7.227 -7.439 -8.330 -2.168 -2.049 -2.929 1.767 D 13 11 3 14 5 0 0 33 52 -5.352 -0.707 -2.978 -4.409 -2.404 IR 14 14 3 14 5 1 1 35 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 2 21 U A - - MP 15 14 3 19 6 2 2 34 53 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -5.110 -4.948 -4.841 -1.191 -3.607 -5.317 0.730 -4.359 -4.839 -1.044 -5.166 -2.820 3.636 -5.217 -1.262 -3.547 ML 16 14 3 19 6 1 1 32 51 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 17 14 3 19 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 18 14 3 19 6 0 0 30 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 1 33 52 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 20 20 6 20 5 1 1 33 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 6 ] 3 20 U G - - MP 21 20 6 25 6 2 2 32 51 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -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 22 20 6 25 6 1 1 30 49 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 23 20 6 25 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 24 20 6 25 6 0 0 28 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 1 31 50 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 26 26 6 26 5 1 1 31 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 7 ] 4 19 U A - - MP 27 26 6 31 6 2 2 30 49 -9.266 -9.205 -0.019 -7.982 -8.261 -8.656 -5.110 -4.948 -4.841 -1.191 -3.607 -5.317 0.730 -4.359 -4.839 -1.044 -5.166 -2.820 3.636 -5.217 -1.262 -3.547 ML 28 26 6 31 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 29 26 6 31 6 1 1 28 47 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 30 26 6 31 6 0 0 26 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 31 31 5 31 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 32 32 6 32 5 1 1 29 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 8 ] 5 18 C G - - MP 33 32 6 37 6 2 2 28 47 -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 34 32 6 37 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 35 32 6 37 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 36 32 6 37 6 0 0 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 37 37 5 37 6 1 1 28 46 -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 27 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 9 ] 6 17 A U - - MP 39 38 6 43 6 2 2 26 45 -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 25 44 -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 25 44 -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 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 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 44 44 6 44 5 1 1 25 44 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 10 ] 7 16 A U - - MP 45 44 6 49 4 2 2 24 43 -7.331 -7.538 -0.041 -5.952 -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 46 44 6 49 4 1 1 25 44 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 47 44 6 49 4 1 1 24 43 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 48 44 6 49 4 0 0 23 42 -4.568 -4.250 -2.265 -0.520 IL 49 49 5 49 4 1 1 26 45 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 50 50 6 50 3 1 1 25 44 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 11 ] 8 - U - - - ML 51 50 6 53 3 1 1 21 40 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 52 50 6 53 3 0 0 20 39 -6.174 -1.687 -0.566 IL 53 53 3 53 3 1 1 24 43 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 12 ] 9 - C - - - ML 54 53 3 56 3 1 1 20 38 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 55 53 3 56 3 0 0 19 38 -6.174 -1.687 -0.566 IL 56 56 3 56 3 1 1 23 42 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 10 - C - - - ML 57 56 3 59 3 1 1 18 37 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 58 56 3 59 3 0 0 18 37 -6.174 -1.687 -0.566 IL 59 59 3 59 3 1 1 22 41 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 11 - U - - - ML 60 59 3 62 3 1 1 17 36 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 61 59 3 62 3 0 0 17 36 -6.174 -1.687 -0.566 IL 62 62 3 62 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 12 - C - - - ML 63 62 3 65 3 1 1 16 34 -8.323 -0.016 -6.977 -2.619 1.795 -3.443 -1.863 D 64 62 3 65 3 0 0 16 34 -6.174 -1.687 -0.566 IL 65 65 3 65 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 16 ] 13 - U - - - ML 66 65 3 68 3 1 1 15 33 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 67 65 3 68 3 0 0 15 33 -6.174 -1.687 -0.566 IL 68 68 3 68 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 14 - U - - - ML 69 68 3 71 3 1 1 13 31 -8.323 -0.016 -6.977 -2.168 -2.049 -2.929 1.767 D 70 68 3 71 3 0 0 13 32 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 1 18 36 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 18 ] 15 - U - - - ML 72 71 3 74 2 1 1 1 1 * 0.000 -1.065 0.139 -1.849 1.100 D 73 71 3 74 2 0 0 0 0 * 0.000 IL 74 74 3 74 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 19 ] - - - - - - E 75 74 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR45 ACC RF01354 DESC CRISPR RNA direct repeat element LENG 24 MAXL 93 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Thu Jul 4 19:52:20 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/RF01354/CM NSEQ 3 EFFN 2.692383 CKSUM 1843785236 STATS LOCAL MSV -7.0888 0.75617 STATS LOCAL VITERBI -7.4584 0.75617 STATS LOCAL FORWARD -2.5722 0.75617 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.69628 1.34099 2.00172 0.86763 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 0.00000 * 1 3.04348 0.16569 3.61895 2.54836 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 3.15911 2.04514 2.92890 0.25526 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 3.08777 1.65777 2.89772 0.34434 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 3.15970 2.04518 2.92918 0.25520 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 3.36443 0.20294 3.15854 2.23862 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 0.28069 2.97433 1.97702 2.89731 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 0.28077 2.97390 1.97693 2.89671 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 2.76365 2.70172 3.28680 0.18335 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 3.04348 0.16569 3.61895 2.54836 9 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 10 3.04348 0.16569 3.61895 2.54836 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 2.76365 2.70172 3.28680 0.18335 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 3.04348 0.16569 3.61895 2.54836 12 C - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 13 2.76365 2.70172 3.28680 0.18335 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 2.76365 2.70172 3.28680 0.18335 14 U - - _ 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 15 2.06160 1.29979 2.60066 0.64257 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 3.12066 2.29001 2.78403 0.23216 16 U - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 17 3.12225 2.29023 2.78467 0.23200 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 2.51862 3.32707 0.17477 3.12635 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 0.28914 3.11833 1.88216 2.90778 19 A - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 20 2.22070 3.08107 0.24012 2.82986 20 G - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 21 0.28836 3.12287 1.88276 2.91308 21 A - - > 1.38629 1.38629 1.38629 1.38629 0.03922 3.95124 3.95124 1.46634 0.26236 1.09861 0.40547 22 2.76365 2.70172 3.28680 0.18335 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 2.76365 2.70172 3.28680 0.18335 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 2.09533 0.73707 2.67193 1.11067 24 c - - : 1.38629 1.38629 1.38629 1.38629 0.01980 3.93183 * 1.46634 0.26236 0.00000 * //