INFERNAL1/a [1.1 | October 2013] NAME CRC_binding DESC CRC binding motif STATES 49 NODES 17 CLEN 15 W 60 ALPH RNA RF no CONS yes MAP yes DATE Mon Jun 30 15:16:58 2014 COM [1] /share/data/bin/cmbuild -F /share/data/people/ppg15/motifs/CRC_binding/CM /share/data/people/ppg15/motifs/CRC_binding/SEED COM [2] /share/data/bin/cmcalibrate --mpi --seed 1 /share/data/people/ppg15/motifs/CRC_binding/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 85 EFFN 85.000000 CKSUM 2280797317 NULL 0.000 0.000 0.000 0.000 GA 12.00 EFP7GF -9.0708 0.77500 ECMLC 0.38641 -14.26908 3.54121 1600000 1169532 0.001026 ECMGC 0.34819 -15.08993 6.34406 1600000 697005 0.000574 ECMLI 0.40869 -12.68682 4.09369 1600000 1141746 0.001051 ECMGI 0.35783 -14.46910 6.49405 1600000 724052 0.000552 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 60 130 -11.568 -11.775 -0.058 -4.682 IL 1 1 2 1 4 1 1 62 132 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 1 62 132 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - A - - - ML 3 2 3 5 3 1 1 60 130 -2.997 -0.195 -9.713 1.860 -3.820 -1.773 -7.232 D 4 2 3 5 3 0 0 59 129 -15.135 -0.083 -4.170 IL 5 5 3 5 3 1 2 60 130 -9.028 -0.003 -16.672 0.000 0.000 0.000 0.000 [ MATL 2 ] 3 - A - - - ML 6 5 3 8 3 1 1 59 129 -9.768 -0.003 -9.768 1.997 -9.244 -7.882 -8.911 D 7 5 3 8 3 0 0 56 126 -11.551 -1.585 -0.585 IL 8 8 3 8 3 1 1 75 145 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 3 ] 4 - c - - - ML 9 8 3 11 3 1 1 58 128 -9.768 -0.003 -9.768 -1.098 0.523 0.081 0.053 D 10 8 3 11 3 0 0 55 125 -11.551 -1.585 -0.585 IL 11 11 3 11 3 1 1 74 144 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 4 ] 5 - A - - - ML 12 11 3 14 3 1 1 57 126 -9.768 -0.003 -9.768 1.997 -9.244 -7.882 -8.911 D 13 11 3 14 3 0 0 54 123 -11.551 -1.585 -0.585 IL 14 14 3 14 3 1 1 73 142 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 5 ] 6 - A - - - ML 15 14 3 17 3 1 1 55 125 -9.768 -0.003 -9.768 1.938 -2.667 -7.775 -7.403 D 16 14 3 17 3 0 0 52 122 -11.551 -1.585 -0.585 IL 17 17 3 17 3 1 1 71 141 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 6 ] 7 - c - - - ML 18 17 3 20 3 1 1 54 123 -9.768 -0.003 -9.768 0.276 0.376 0.170 -1.448 D 19 17 3 20 3 0 0 51 120 -11.551 -1.585 -0.585 IL 20 20 3 20 3 1 1 70 140 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 7 ] 8 - A - - - ML 21 20 3 23 3 1 1 52 122 -9.768 -0.003 -9.768 1.918 -9.158 -2.202 -8.851 D 22 20 3 23 3 0 0 49 119 -11.551 -1.585 -0.585 IL 23 23 3 23 3 1 1 69 139 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 8 ] 9 - A - - - ML 24 23 3 26 3 1 1 51 120 -9.768 -0.003 -9.768 1.997 -9.244 -7.882 -8.911 D 25 23 3 26 3 0 0 48 117 -11.551 -1.585 -0.585 IL 26 26 3 26 3 1 1 68 138 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 9 ] 10 - C - - - ML 27 26 3 29 3 1 1 49 119 -9.768 -0.003 -9.768 -3.021 1.388 -2.590 0.129 D 28 26 3 29 3 0 0 46 115 -11.551 -1.585 -0.585 IL 29 29 3 29 3 1 1 67 137 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 10 ] 11 - A - - - ML 30 29 3 32 3 1 1 48 117 -9.768 -0.003 -9.768 1.925 -9.159 -2.327 -8.852 D 31 29 3 32 3 0 0 44 114 -11.551 -1.585 -0.585 IL 32 32 3 32 3 1 1 66 136 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 11 ] 12 - A - - - ML 33 32 3 35 3 1 1 46 115 -9.768 -0.003 -9.768 1.940 -9.163 -2.664 -8.855 D 34 32 3 35 3 0 0 42 111 -11.551 -1.585 -0.585 IL 35 35 3 35 3 1 1 65 134 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 12 ] 13 - c - - - ML 36 35 3 38 3 1 1 44 113 -9.768 -0.003 -9.768 0.441 0.573 -0.551 -1.084 D 37 35 3 38 3 0 0 40 109 -11.551 -1.585 -0.585 IL 38 38 3 38 3 1 1 64 133 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 13 ] 14 - A - - - ML 39 38 3 41 3 1 1 41 110 -9.768 -0.211 -2.890 1.849 -3.076 -1.880 -7.052 D 40 38 3 41 3 0 0 36 105 -11.551 -1.585 -0.585 IL 41 41 3 41 3 1 1 63 132 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 14 ] 15 - A - - - ML 42 41 3 44 3 1 1 38 107 -9.561 -0.074 -4.367 1.101 -0.584 -0.150 -1.803 D 43 41 3 44 3 0 0 18 87 -16.868 -6.902 -0.012 IL 44 44 3 44 3 1 1 62 131 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 15 ] 16 - G - - - ML 45 44 3 47 2 1 1 1 1 * 0.000 -0.665 -0.200 1.222 -2.585 D 46 44 3 47 2 0 0 0 0 * 0.000 IL 47 47 3 47 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 16 ] - - - - - - E 48 47 3 -1 0 0 0 0 0 // HMMER3/f [i1.1 | October 2013] NAME CRC_binding DESC CRC binding motif LENG 15 MAXL 60 ALPH RNA RF no MM no CONS yes CS yes MAP no DATE Mon Jun 30 15:16:58 2014 COM [1] /share/data/bin/cmbuild -F /share/data/people/ppg15/motifs/CRC_binding/CM /share/data/people/ppg15/motifs/CRC_binding/SEED COM [2] /share/data/bin/cmbuild -F /share/data/people/ppg15/motifs/CRC_binding/CM /share/data/people/ppg15/motifs/CRC_binding/SEED NSEQ 85 EFFN 85.000000 STATS LOCAL MSV -6.9730 0.77500 STATS LOCAL VITERBI -7.4610 0.77500 STATS LOCAL FORWARD -1.9874 0.77500 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 0.44593 1.86721 2.04284 2.58289 1.38629 1.38629 1.38629 1.38629 0.04010 8.01842 3.24469 0.39730 1.11515 0.00000 * 1 0.09710 4.03446 2.61491 6.39886 - A - - : 1.38629 1.38629 1.38629 1.38629 0.13523 2.07710 6.73222 0.00192 6.25750 0.05717 2.89010 2 0.00199 7.79397 6.84957 7.56274 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 3 2.14705 1.02370 1.32995 1.34932 - c - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 4 0.00199 7.79397 6.84957 7.56274 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 5 0.04290 3.23464 6.77541 6.51738 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 6 1.19530 1.12551 1.26841 2.39008 - c - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 7 0.05691 7.73427 2.91250 7.52161 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 8 0.00199 7.79397 6.84957 7.56274 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 9 3.48024 0.42421 3.18123 1.29689 - C - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 10 0.05213 7.73512 2.99942 7.52232 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 11 0.04126 7.73727 3.23275 7.52407 - A - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 12 1.08046 0.98898 1.76814 2.13744 - c - - : 1.38629 1.38629 1.38629 1.38629 0.00230 6.77079 6.77079 1.46634 0.26236 1.09861 0.40547 13 0.10475 3.51863 2.68933 6.27422 - A - - : 1.38629 1.38629 1.38629 1.38629 0.14622 6.77079 2.00333 1.46634 0.26236 1.09861 0.40547 14 0.62295 1.79142 1.49055 2.63572 - A - - : 1.38629 1.38629 1.38629 1.38629 0.05106 6.62722 3.02706 1.46634 0.26236 4.78432 0.00839 15 1.84714 1.52477 0.53960 3.17827 - G - - : 1.38629 1.38629 1.38629 1.38629 * 0.00000 * 0.45905 0.99935 0.00000 * //