INFERNAL1/a [1.1.5 | Sep 2023] NAME CRISPR-DR12 ACC RF01325 DESC CRISPR RNA direct repeat element STATES 94 NODES 22 CLEN 30 W 44 ALPH RNA RF no CONS yes MAP yes DATE Wed Jul 10 16:11:33 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/RF01325/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 916326411 NULL 0.000 0.000 0.000 0.000 GA 37.00 TC 37.10 NC 36.90 EFP7GF -8.2037 0.73286 ECMLC 0.70163 -4.54516 4.14254 1600000 532640 0.002253 ECMGC 0.52577 -13.63598 -0.46359 1600000 407222 0.000982 ECMLI 0.65714 -4.29933 4.76555 1600000 463675 0.002588 ECMGI 0.54713 -11.42817 0.74397 1600000 312152 0.001281 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 6 1 1 44 62 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 IL 1 1 2 1 6 1 1 45 64 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 2 2 3 2 5 1 1 45 64 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 1 ] 1 30 G C - - MP 3 2 3 7 6 2 2 44 62 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -6.342 -3.890 -6.812 -0.957 -7.412 -5.284 -2.384 -7.018 -5.240 3.865 -5.496 -1.688 -2.745 -5.471 -4.546 -5.668 ML 4 2 3 7 6 1 1 42 61 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 5 2 3 7 6 1 1 42 61 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 6 2 3 7 6 0 0 40 59 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 7 7 5 7 6 1 1 43 62 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 8 8 6 8 5 1 1 43 62 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 2 ] 2 29 U A - - MP 9 8 6 13 6 2 2 42 60 -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 10 8 6 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 6 13 6 1 1 40 59 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 12 8 6 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 41 60 -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 41 60 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 3 ] 3 28 U G - - MP 15 14 6 19 6 2 2 40 58 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.328 -5.437 -4.838 -1.663 -3.339 -5.106 0.971 -4.202 -4.904 -1.576 -5.107 -3.577 1.799 -5.285 3.232 -3.726 ML 16 14 6 19 6 1 1 39 57 -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 38 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 36 55 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 1 39 58 -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 39 58 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 4 ] 4 27 G C - - MP 21 20 6 25 6 2 2 38 56 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -6.342 -3.890 -6.812 -0.957 -7.412 -5.284 -2.384 -7.018 -5.240 3.865 -5.496 -1.688 -2.745 -5.471 -4.546 -5.668 ML 22 20 6 25 6 1 1 37 56 -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 37 56 -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 36 55 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 1 38 56 -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 37 56 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 5 26 C G - - MP 27 26 6 31 4 2 2 36 54 -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 28 26 6 31 4 1 1 37 56 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 29 26 6 31 4 1 1 36 55 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 30 26 6 31 4 0 0 35 54 -4.568 -4.250 -2.265 -0.520 IL 31 31 5 31 4 1 1 38 57 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 32 32 6 32 3 1 1 37 56 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - G - - - ML 33 32 6 35 3 1 1 33 52 -9.168 -0.011 -7.485 -1.494 -2.360 1.485 -0.617 D 34 32 6 35 3 0 0 32 50 -5.620 -0.734 -1.403 IL 35 35 3 35 3 1 1 34 52 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 7 ] - 25 - A - - MR 36 35 3 38 3 1 1 32 51 -9.168 -0.011 -7.485 1.917 -4.036 -3.527 -3.736 D 37 35 3 38 3 0 0 30 49 -6.390 -1.568 -0.620 IR 38 38 3 38 3 1 1 33 51 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 8 ] - 24 - c - - MR 39 38 3 41 3 1 1 31 50 -9.168 -0.011 -7.485 0.029 0.667 -0.469 -0.579 D 40 38 3 41 3 0 0 29 48 -6.390 -1.568 -0.620 IR 41 41 3 41 3 1 1 32 50 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 9 ] - 23 - U - - MR 42 41 3 44 3 1 1 30 49 -9.168 -0.011 -7.485 -3.083 -2.826 -3.864 1.877 D 43 41 3 44 3 0 0 28 47 -6.390 -1.568 -0.620 IR 44 44 3 44 3 1 1 31 49 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 22 - A - - MR 45 44 3 47 3 1 1 29 48 -9.168 -0.011 -7.485 1.917 -4.036 -3.527 -3.736 D 46 44 3 47 3 0 0 27 46 -6.390 -1.568 -0.620 IR 47 47 3 47 3 1 1 30 48 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 11 ] - 21 - G - - MR 48 47 3 50 5 1 1 28 47 -7.865 -0.023 -7.680 -7.892 -8.784 -3.201 -4.609 1.920 -3.943 D 49 47 3 50 5 0 0 27 45 -5.352 -0.707 -2.978 -4.409 -2.404 IR 50 50 3 50 5 1 1 28 47 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 7 20 A U - - MP 51 50 3 55 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 52 50 3 55 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 53 50 3 55 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 54 50 3 55 6 0 0 23 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 55 55 5 55 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 56 56 6 56 5 1 1 26 45 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 13 ] 8 19 u g - - MP 57 56 6 61 6 2 2 25 44 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.075 -5.147 -4.691 -1.375 -3.288 -5.033 1.033 -4.120 -4.740 -1.265 -4.993 -3.240 2.452 -5.089 2.829 -3.575 ML 58 56 6 61 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 59 56 6 61 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 60 56 6 61 6 0 0 21 40 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 61 61 5 61 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 62 62 6 62 5 1 1 24 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 14 ] 9 18 C G - - MP 63 62 6 67 6 2 2 23 42 -9.522 -9.461 -0.016 -8.238 -8.517 -8.912 -5.081 -5.179 -4.717 -1.489 -3.353 1.168 3.455 -4.190 -4.782 -1.366 -5.027 -3.357 0.058 -5.106 -1.068 -3.638 ML 64 62 6 67 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 65 62 6 67 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 66 62 6 67 6 0 0 20 39 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 67 67 5 67 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 68 68 6 68 5 1 1 22 41 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 15 ] 10 17 C G - - MP 69 68 6 73 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 70 68 6 73 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 71 68 6 73 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 72 68 6 73 6 0 0 19 38 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 73 73 5 73 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 74 74 6 74 5 1 1 21 39 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 16 ] 11 16 C G - - MP 75 74 6 79 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 76 74 6 79 4 1 1 20 39 -3.758 -3.940 -0.507 -2.670 0.368 -0.385 -0.191 0.094 MR 77 74 6 79 4 1 1 20 39 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 78 74 6 79 4 0 0 19 38 -4.568 -4.250 -2.265 -0.520 IL 79 79 5 79 4 1 1 22 41 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 80 80 6 80 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 17 ] 12 - U - - - ML 81 80 6 83 3 1 1 16 34 -8.820 -0.011 -7.474 -1.841 -0.442 -2.615 1.496 D 82 80 6 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 18 ] 13 - C - - - ML 84 83 3 86 3 1 1 14 33 -8.820 -0.011 -7.474 -3.685 1.899 -4.419 -2.783 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 19 ] 14 - C - - - ML 87 86 3 89 3 1 1 12 31 -8.820 -0.011 -7.474 -1.961 1.434 -2.886 -0.143 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 20 ] 15 - A - - - ML 90 89 3 92 2 1 1 1 1 * 0.000 1.917 -4.036 -3.527 -3.736 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 21 ] - - - - - - E 93 92 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME CRISPR-DR12 ACC RF01325 DESC CRISPR RNA direct repeat element LENG 30 MAXL 98 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Jul 10 16:11:33 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/RF01325/CM NSEQ 5 EFFN 4.497070 CKSUM 916326411 STATS LOCAL MSV -6.2469 0.73286 STATS LOCAL VITERBI -7.1216 0.73286 STATS LOCAL FORWARD -3.3221 0.73286 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.55678 1.27875 1.21409 1.54262 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 0.00000 * 1 3.15474 4.06814 0.08068 4.03104 1 G - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 2 4.05394 2.74517 3.88845 0.10766 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 3.48184 1.92396 3.31642 0.23960 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 3.13007 4.03012 0.08359 3.97908 4 G - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 5 4.07149 0.10084 3.93792 2.82381 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 2.33547 2.92759 0.37987 1.79722 6 G - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 7 0.12887 3.81954 2.60137 3.69677 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 3.28608 1.87929 3.10737 0.26764 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 3.35276 0.20735 3.17751 2.20194 9 C - - < 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 10 4.06506 0.10112 3.93424 2.82255 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 4.06166 0.10127 3.93229 2.82189 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 2.56442 1.68423 3.09971 0.36761 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 3.79354 0.08042 4.32145 3.18261 13 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 14 2.65016 0.41277 3.28229 1.46968 14 C - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 15 0.06596 4.04728 3.70283 3.82994 15 A - - _ 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 16 3.10322 4.09501 0.08665 3.84254 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 3.10527 4.09850 0.08639 3.84634 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 2.48733 1.82381 0.34038 3.12445 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 1.05785 3.27107 0.56663 3.04920 19 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 20 3.93605 2.98820 3.63501 0.10124 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 3.48185 4.44582 0.06281 3.99517 21 G - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 22 0.06596 4.04728 3.70283 3.82994 22 A - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 23 3.38959 3.22974 3.92850 0.09757 23 U - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 24 1.35805 0.94758 1.71046 1.74655 24 c - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 25 0.06596 4.04728 3.70283 3.82994 25 A - - - 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 26 3.10694 4.10134 0.08619 3.84945 26 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 27 4.13811 0.10139 3.89022 2.81304 27 C - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 28 1.47401 3.47391 0.35589 3.23279 28 G - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 29 0.12279 4.09137 2.57845 3.77486 29 A - - > 1.38629 1.38629 1.38629 1.38629 0.02817 4.27667 4.27667 1.46634 0.26236 1.09861 0.40547 30 4.21590 0.09832 3.92878 2.82654 30 C - - > 1.38629 1.38629 1.38629 1.38629 0.01418 4.26268 * 1.46634 0.26236 0.00000 * //