INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR2 ACC RF01315 DESC CRISPR RNA direct repeat element STATES 94 NODES 26 CLEN 30 W 42 ALPH RNA RF no CONS yes MAP yes DATE Thu Jul 11 00:50:45 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/RF01315/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 19 EFFN 19.000000 CKSUM 4247861343 NULL 0.000 0.000 0.000 0.000 GA 37.00 TC 37.00 NC 36.90 EFP7GF -12.4372 0.73164 ECMLC 0.65110 -4.44381 5.02550 1600000 571204 0.002101 ECMGC 0.40997 -18.41985 -1.44850 1600000 420475 0.000951 ECMLI 0.61123 -4.21530 5.57396 1600000 476169 0.002520 ECMGI 0.41701 -16.40578 -0.29680 1600000 330748 0.001209 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 42 61 -9.496 -9.703 -0.009 -8.117 IL 1 1 2 1 4 1 1 48 67 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 47 66 -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 3 43 61 -10.735 -0.004 -9.053 -1.176 -5.064 1.801 -4.533 D 4 2 3 5 3 0 0 41 60 -5.620 -0.734 -1.403 IL 5 5 3 5 3 1 1 43 62 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 2 ] - 30 - C - - MR 6 5 3 8 5 1 2 42 60 -9.395 -0.008 -9.210 -9.422 -10.314 -4.747 1.885 -2.225 -4.169 D 7 5 3 8 5 0 0 40 59 -5.352 -0.707 -2.978 -4.409 -2.404 IR 8 8 3 8 5 1 1 42 61 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 3 ] 2 29 U A - - MP 9 8 3 13 6 2 3 41 59 -10.618 -10.558 -0.007 -9.334 -9.614 -10.009 -7.834 -8.012 -7.202 -4.250 -5.583 -7.377 -1.300 -6.488 -7.246 -4.220 -7.431 -6.270 3.826 -7.655 -0.645 -0.782 ML 10 8 3 13 6 1 1 40 59 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 11 8 3 13 6 1 1 40 58 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 12 8 3 13 6 0 0 38 57 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 13 13 5 13 6 1 1 40 59 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 14 14 6 14 5 1 1 40 59 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 4 ] 3 28 U A - - MP 15 14 6 19 6 2 2 39 57 -10.618 -10.558 -0.007 -9.334 -9.614 -10.009 -10.120 -10.002 -9.604 -6.573 -8.019 -9.787 -3.980 -8.964 -9.163 -6.646 -9.825 -8.206 3.986 -9.495 -4.914 -5.473 ML 16 14 6 19 6 1 1 39 58 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 17 14 6 19 6 1 1 39 57 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 18 14 6 19 6 0 0 37 56 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 1 39 57 -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 38 57 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 4 27 U A - - MP 21 20 6 25 4 2 2 36 55 -9.496 -9.703 -0.009 -8.117 -7.144 -7.096 -6.589 -3.332 -5.063 -6.851 -0.761 -5.915 -6.639 -3.367 -6.824 -5.053 3.678 0.460 -2.756 -0.387 ML 22 20 6 25 4 1 1 39 57 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 23 20 6 25 4 1 1 38 57 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 24 20 6 25 4 0 0 37 56 -4.568 -4.250 -2.265 -0.520 IL 25 25 5 25 4 1 1 40 59 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 26 26 6 26 3 1 1 39 58 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 5 - C - - - ML 27 26 6 29 3 1 1 34 53 -10.424 -0.004 -9.078 -5.759 1.976 -6.221 -4.867 D 28 26 6 29 3 0 0 34 53 -6.174 -1.687 -0.566 IL 29 29 3 29 3 1 1 38 56 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 7 ] 6 - A - - - ML 30 29 3 32 3 1 1 33 52 -10.424 -0.004 -9.078 1.865 -2.045 -4.275 -3.997 D 31 29 3 32 3 0 0 33 52 -6.174 -1.687 -0.566 IL 32 32 3 32 3 1 1 37 55 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 8 ] 7 - A - - - ML 33 32 3 35 3 1 1 32 50 -10.424 -0.004 -9.078 1.983 -6.410 -5.790 -5.993 D 34 32 3 35 3 0 0 32 50 -6.174 -1.687 -0.566 IL 35 35 3 35 3 1 1 36 54 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 8 - U - - - ML 36 35 3 38 3 1 1 31 49 -10.424 -0.004 -9.078 -5.595 -5.100 -6.444 1.978 D 37 35 3 38 3 0 0 31 49 -6.174 -1.687 -0.566 IL 38 38 3 38 3 1 1 35 53 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 10 ] 9 - C - - - ML 39 38 3 41 3 1 1 30 48 -10.735 -0.004 -9.053 -3.589 1.123 -4.638 0.764 D 40 38 3 41 3 0 0 29 47 -5.620 -0.734 -1.403 IL 41 41 3 41 3 1 1 31 49 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 26 - A - - MR 42 41 3 44 3 1 1 29 47 -10.735 -0.004 -9.053 1.454 -0.224 -1.856 -2.961 D 43 41 3 44 3 0 0 27 46 -6.390 -1.568 -0.620 IR 44 44 3 44 3 1 1 30 48 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 12 ] - 25 - A - - MR 45 44 3 47 3 1 1 28 46 -10.735 -0.004 -9.053 1.421 -1.798 -1.160 -0.768 D 46 44 3 47 3 0 0 26 45 -6.390 -1.568 -0.620 IR 47 47 3 47 3 1 1 29 47 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 13 ] - 24 - U - - MR 48 47 3 50 3 1 1 27 45 -10.735 -0.004 -9.053 -5.595 -5.100 -6.444 1.978 D 49 47 3 50 3 0 0 25 44 -6.390 -1.568 -0.620 IR 50 50 3 50 3 1 1 28 46 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 14 ] - 23 - c - - MR 51 50 3 53 3 1 1 26 44 -10.735 -0.004 -9.053 0.507 0.777 -1.422 -1.020 D 52 50 3 53 3 0 0 24 43 -6.390 -1.568 -0.620 IR 53 53 3 53 3 1 1 27 45 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 15 ] - 22 - G - - MR 54 53 3 56 3 1 1 25 43 -10.735 -0.004 -9.053 -1.902 -4.067 1.777 -2.019 D 55 53 3 56 3 0 0 23 42 -6.390 -1.568 -0.620 IR 56 56 3 56 3 1 1 26 44 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 16 ] - 21 - g - - MR 57 56 3 59 3 1 1 24 42 -10.735 -0.004 -9.053 -0.383 0.081 0.795 -1.182 D 58 56 3 59 3 0 0 22 41 -6.390 -1.568 -0.620 IR 59 59 3 59 3 1 1 25 43 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 17 ] - 20 - A - - MR 60 59 3 62 3 1 1 23 41 -10.735 -0.004 -9.053 1.784 -3.902 -4.126 -1.212 D 61 59 3 62 3 0 0 21 40 -6.390 -1.568 -0.620 IR 62 62 3 62 3 1 1 24 42 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 18 ] - 19 - U - - MR 63 62 3 65 5 1 1 22 40 -9.395 -0.008 -9.210 -9.422 -10.314 -1.910 -1.371 -4.046 1.717 D 64 62 3 65 5 0 0 21 39 -5.352 -0.707 -2.978 -4.409 -2.404 IR 65 65 3 65 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 19 ] 10 18 C G - - MP 66 65 3 70 6 2 2 21 39 -10.618 -10.558 -0.007 -9.334 -9.614 -10.009 -7.328 -7.594 -6.651 -3.822 -5.006 -6.799 3.855 -5.922 -6.755 -3.791 -6.874 -5.965 -1.734 -7.168 -0.085 -5.556 ML 67 65 3 70 6 1 1 20 39 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 68 65 3 70 6 1 1 20 39 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 69 65 3 70 6 0 0 19 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 70 70 5 70 6 1 1 21 39 -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 20 39 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 20 ] 11 17 C G - - MP 72 71 6 76 6 2 2 19 37 -10.618 -10.558 -0.007 -9.334 -9.614 -10.009 -9.318 -9.536 -7.714 -5.876 -6.011 -7.485 3.983 -8.020 -8.840 -5.848 -7.523 -7.908 -3.842 -9.232 -4.819 -7.641 ML 73 71 6 76 6 1 1 20 38 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 74 71 6 76 6 1 1 20 38 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 75 71 6 76 6 0 0 18 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 76 76 5 76 6 1 1 19 38 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 77 77 6 77 5 1 1 19 37 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 21 ] 12 16 U A - - MP 78 77 6 82 4 2 2 17 35 -9.496 -9.703 -0.009 -8.117 -6.525 -6.423 -6.182 0.928 -4.761 -6.600 1.565 -5.568 -6.173 -2.283 -6.468 -4.225 3.394 -6.564 -2.385 -4.951 ML 79 77 6 82 4 1 1 19 38 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 80 77 6 82 4 1 1 19 37 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 81 77 6 82 4 0 0 18 36 -4.568 -4.250 -2.265 -0.520 IL 82 82 5 82 4 1 1 21 39 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 83 83 6 83 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 22 ] 13 - u - - - ML 84 83 6 86 3 1 1 13 31 -10.424 -0.004 -9.078 -0.085 0.264 -0.841 0.377 D 85 83 6 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 23 ] 14 - A - - - ML 87 86 3 89 3 1 1 11 30 -10.424 -0.004 -9.078 1.861 -1.993 -4.256 -3.973 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 24 ] 15 - U - - - ML 90 89 3 92 2 1 1 1 1 * 0.000 0.034 -3.349 -3.940 1.492 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 25 ] - - - - - - E 93 92 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR2 ACC RF01315 DESC CRISPR RNA direct repeat element LENG 30 MAXL 88 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Thu Jul 11 00:50:45 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/RF01315/CM NSEQ 19 EFFN 15.970947 CKSUM 4247861343 STATS LOCAL MSV -6.6655 0.73164 STATS LOCAL VITERBI -6.9682 0.73164 STATS LOCAL FORWARD -3.1224 0.73164 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.11967 1.55548 1.76845 1.23125 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 0.00000 * 1 2.19927 4.69467 0.14287 4.33456 1 G - - : 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 2 5.30563 3.63368 5.21003 0.03754 2 U - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 3 6.10683 4.98990 6.15966 0.01121 3 U - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 4 4.51305 3.03477 4.38733 0.07417 4 U - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 5 5.21138 0.01971 5.54068 4.59159 5 C - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 6 0.09915 2.80032 4.18235 3.99877 6 A - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 7 0.01385 5.62660 5.20937 5.36177 7 A - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 8 5.01328 4.69395 5.59066 0.01973 8 U - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 9 3.66112 0.61648 4.37932 0.86294 9 C - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 10 4.86904 0.10541 4.77426 2.47787 10 C - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 11 5.78595 0.01632 5.78759 4.59957 11 C - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 12 2.10192 1.62741 3.70924 0.42031 12 U - - < 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 13 1.43379 1.21711 1.95658 1.12649 13 u - - _ 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 14 0.10208 2.76538 4.16986 3.98249 14 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 15 1.37452 3.50028 3.87607 0.36224 15 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 16 0.44013 3.88949 1.57075 2.05803 16 A - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 17 4.82351 5.94811 0.01400 5.72827 17 G - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 18 3.64874 4.92039 0.04400 4.63299 18 G - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 19 2.67626 2.32203 4.03259 0.20411 19 U - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 20 0.15552 3.92823 4.06865 2.23260 20 A - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 21 1.62897 1.34849 0.85409 2.13227 21 g - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 22 2.66443 4.06810 0.16175 2.77097 22 G - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 23 1.04181 0.87118 2.33726 2.02394 23 c - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 24 5.01328 4.69395 5.59066 0.01973 24 U - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 25 0.41689 2.57620 2.17202 1.89115 25 A - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 26 0.38845 1.55905 2.63087 3.23046 26 A - - - 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 27 0.23149 2.38759 2.87537 2.84034 27 A - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 28 0.01426 6.37575 4.72415 5.63204 28 A - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 29 0.10024 5.37441 2.86458 3.38907 29 A - - > 1.38629 1.38629 1.38629 1.38629 0.00948 5.35659 5.35659 1.46634 0.26236 1.09861 0.40547 30 4.50704 0.08318 2.95669 4.08680 30 C - - : 1.38629 1.38629 1.38629 1.38629 0.00475 5.35186 * 1.46634 0.26236 0.00000 * //