INFERNAL1/a [1.1.5 | Sep 2023] NAME HOTAIR_1 ACC RF01904 DESC HOTAIR conserved region 1 STATES 115 NODES 39 CLEN 37 W 101 ALPH RNA RF no CONS yes MAP yes DATE Sat Jul 13 10:48:00 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/RF01904/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 9 EFFN 8.195801 CKSUM 3729573560 NULL 0.000 0.000 0.000 0.000 GA 44.00 TC 47.70 NC 43.00 EFP7GF -14.3518 0.71959 ECMLC 0.60206 -9.07494 1.81419 1600000 844056 0.001422 ECMGC 0.36052 -21.12380 -2.19921 1600000 367377 0.001089 ECMLI 0.54369 -9.41250 2.36222 1600000 723519 0.001659 ECMGI 0.37355 -17.83713 0.06616 1600000 321011 0.001246 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 101 177 -8.423 -8.630 -0.019 -7.044 IL 1 1 2 1 4 1 6 103 179 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 5 103 179 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 1 ] 1 - U - - - ML 3 2 3 5 3 1 6 101 177 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 4 2 3 5 3 0 0 98 174 -11.551 -1.585 -0.585 IL 5 5 3 5 3 1 7 109 186 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 2 ] 2 - A - - - ML 6 5 3 8 3 1 6 100 176 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 7 5 3 8 3 0 0 97 172 -11.551 -1.585 -0.585 IL 8 8 3 8 3 1 7 108 185 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - U - - - ML 9 8 3 11 3 1 5 99 174 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 10 8 3 11 3 0 0 95 171 -11.551 -1.585 -0.585 IL 11 11 3 11 3 1 6 107 183 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - U - - - ML 12 11 3 14 3 1 4 97 173 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 13 11 3 14 3 0 0 94 169 -11.551 -1.585 -0.585 IL 14 14 3 14 3 1 6 105 182 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - U - - - ML 15 14 3 17 3 1 4 96 171 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 16 14 3 17 3 0 0 93 168 -11.551 -1.585 -0.585 IL 17 17 3 17 3 1 5 104 181 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - U - - - ML 18 17 3 20 3 1 3 95 170 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 19 17 3 20 3 0 0 92 167 -11.551 -1.585 -0.585 IL 20 20 3 20 3 1 4 103 179 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - A - - - ML 21 20 3 23 3 1 3 93 168 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 22 20 3 23 3 0 0 90 165 -11.551 -1.585 -0.585 IL 23 23 3 23 3 1 4 102 178 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - C - - - ML 24 23 3 26 3 1 3 92 167 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 25 23 3 26 3 0 0 89 164 -11.551 -1.585 -0.585 IL 26 26 3 26 3 1 3 100 176 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - u - - - ML 27 26 3 29 3 1 2 91 166 -6.700 -0.028 -6.700 0.228 -0.619 -1.593 0.885 D 28 26 3 29 3 0 0 88 162 -11.551 -1.585 -0.585 IL 29 29 3 29 3 1 3 99 175 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 10 ] 10 - G - - - ML 30 29 3 32 3 1 2 89 164 -6.700 -0.028 -6.700 -0.804 -2.424 1.453 -0.991 D 31 29 3 32 3 0 0 86 161 -11.551 -1.585 -0.585 IL 32 32 3 32 3 1 3 98 173 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 11 ] 11 - U - - - ML 33 32 3 35 3 1 2 88 163 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 34 32 3 35 3 0 0 85 159 -11.551 -1.585 -0.585 IL 35 35 3 35 3 1 2 97 172 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 12 ] 12 - C - - - ML 36 35 3 38 3 1 1 87 161 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 37 35 3 38 3 0 0 84 158 -11.551 -1.585 -0.585 IL 38 38 3 38 3 1 2 95 171 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - C - - - ML 39 38 3 41 3 1 1 85 160 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 40 38 3 41 3 0 0 83 157 -11.551 -1.585 -0.585 IL 41 41 3 41 3 1 2 94 169 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - A - - - ML 42 41 3 44 3 1 1 84 158 -6.700 -0.154 -3.450 1.957 -4.964 -4.374 -4.795 D 43 41 3 44 3 0 0 82 155 -11.551 -1.585 -0.585 IL 44 44 3 44 3 1 1 93 168 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 15 ] 15 - A - - - ML 45 44 3 47 3 1 1 83 157 -6.577 -0.031 -6.577 1.668 -3.224 -0.780 -2.915 D 46 44 3 47 3 0 0 81 155 -13.491 -0.275 -2.526 IL 47 47 3 47 3 1 1 91 166 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 16 ] 16 - A - - - ML 48 47 3 50 3 1 1 81 155 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 49 47 3 50 3 0 0 78 152 -11.551 -1.585 -0.585 IL 50 50 3 50 3 1 1 90 165 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 17 ] 17 - G - - - ML 51 50 3 53 3 1 1 80 154 -6.700 -0.028 -6.700 -3.413 -4.683 1.934 -4.409 D 52 50 3 53 3 0 0 77 150 -11.551 -1.585 -0.585 IL 53 53 3 53 3 1 1 89 163 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 18 ] 18 - G - - - ML 54 53 3 56 3 1 1 79 152 -6.700 -0.028 -6.700 -3.413 -4.683 1.934 -4.409 D 55 53 3 56 3 0 0 75 148 -11.551 -1.585 -0.585 IL 56 56 3 56 3 1 1 88 162 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 19 ] 19 - A - - - ML 57 56 3 59 3 1 1 77 150 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 58 56 3 59 3 0 0 74 147 -11.551 -1.585 -0.585 IL 59 59 3 59 3 1 1 86 160 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 20 ] 20 - A - - - ML 60 59 3 62 3 1 1 76 149 -6.700 -0.028 -6.700 1.723 -3.600 -0.958 -3.304 D 61 59 3 62 3 0 0 72 145 -11.551 -1.585 -0.585 IL 62 62 3 62 3 1 1 85 159 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 21 ] 21 - U - - - ML 63 62 3 65 3 1 1 74 147 -6.700 -0.028 -6.700 -3.070 -0.759 -3.331 1.674 D 64 62 3 65 3 0 0 71 144 -11.551 -1.585 -0.585 IL 65 65 3 65 3 1 1 84 157 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 22 ] 22 - C - - - ML 66 65 3 68 3 1 1 73 146 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 67 65 3 68 3 0 0 69 142 -11.551 -1.585 -0.585 IL 68 68 3 68 3 1 1 82 156 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 23 ] 23 - A - - - ML 69 68 3 71 3 1 1 71 144 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 70 68 3 71 3 0 0 68 140 -11.551 -1.585 -0.585 IL 71 71 3 71 3 1 1 81 154 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 24 ] 24 - A - - - ML 72 71 3 74 3 1 1 70 142 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 73 71 3 74 3 0 0 66 138 -11.551 -1.585 -0.585 IL 74 74 3 74 3 1 1 80 153 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 25 ] 25 - U - - - ML 75 74 3 77 3 1 1 68 140 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 76 74 3 77 3 0 0 65 137 -11.551 -1.585 -0.585 IL 77 77 3 77 3 1 1 78 151 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 26 ] 26 - U - - - ML 78 77 3 80 3 1 1 67 139 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 79 77 3 80 3 0 0 63 135 -11.551 -1.585 -0.585 IL 80 80 3 80 3 1 1 77 150 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 27 ] 27 - A - - - ML 81 80 3 83 3 1 1 65 137 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 82 80 3 83 3 0 0 62 133 -11.551 -1.585 -0.585 IL 83 83 3 83 3 1 1 75 148 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 28 ] 28 - A - - - ML 84 83 3 86 3 1 1 64 135 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 85 83 3 86 3 0 0 60 131 -11.551 -1.585 -0.585 IL 86 86 3 86 3 1 1 74 146 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 29 ] 29 - U - - - ML 87 86 3 89 3 1 1 62 133 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 88 86 3 89 3 0 0 58 129 -11.551 -1.585 -0.585 IL 89 89 3 89 3 1 1 73 145 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 30 ] 30 - U - - - ML 90 89 3 92 3 1 1 60 131 -6.700 -0.028 -6.700 -3.925 -3.264 -4.133 1.916 D 91 89 3 92 3 0 0 56 127 -11.551 -1.585 -0.585 IL 92 92 3 92 3 1 1 71 143 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 31 ] 31 - A - - - ML 93 92 3 95 3 1 1 58 129 -6.700 -0.028 -6.700 1.957 -4.964 -4.374 -4.795 D 94 92 3 95 3 0 0 54 125 -11.551 -1.585 -0.585 IL 95 95 3 95 3 1 1 70 141 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 32 ] 32 - G - - - ML 96 95 3 98 3 1 1 56 127 -6.700 -0.028 -6.700 -0.230 -3.304 1.545 -2.964 D 97 95 3 98 3 0 0 52 122 -11.551 -1.585 -0.585 IL 98 98 3 98 3 1 1 68 139 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 33 ] 33 - c - - - ML 99 98 3 101 3 1 1 54 125 -6.700 -0.028 -6.700 -0.136 0.581 -1.624 0.344 D 100 98 3 101 3 0 0 49 119 -11.551 -1.585 -0.585 IL 101 101 3 101 3 1 1 67 137 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 34 ] 34 - G - - - ML 102 101 3 104 3 1 1 52 122 -6.700 -0.028 -6.700 -0.920 -3.545 1.713 -3.216 D 103 101 3 104 3 0 0 46 116 -11.551 -1.585 -0.585 IL 104 104 3 104 3 1 1 65 135 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 35 ] 35 - C - - - ML 105 104 3 107 3 1 1 49 119 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 106 104 3 107 3 0 0 42 111 -11.551 -1.585 -0.585 IL 107 107 3 107 3 1 1 64 133 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 36 ] 36 - C - - - ML 108 107 3 110 3 1 1 46 115 -6.700 -0.028 -6.700 -3.993 1.915 -4.262 -3.149 D 109 107 3 110 3 0 0 32 101 -11.551 -1.585 -0.585 IL 110 110 3 110 3 1 1 62 131 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 37 ] 37 - U - - - ML 111 110 3 113 2 1 1 1 1 * 0.000 -3.925 -3.264 -4.133 1.916 D 112 110 3 113 2 0 0 0 0 * 0.000 IL 113 113 3 113 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 38 ] - - - - - - E 114 113 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME HOTAIR_1 ACC RF01904 DESC HOTAIR conserved region 1 LENG 37 MAXL 101 ALPH RNA RF no MM no CONS yes CS yes MAP no DATE Sat Jul 13 10:48:00 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/RF01904/CM NSEQ 9 EFFN 8.195801 CKSUM 3729573560 STATS LOCAL MSV -6.2530 0.71959 STATS LOCAL VITERBI -7.1036 0.71959 STATS LOCAL FORWARD -3.9601 0.71959 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.09435 1.65684 1.94593 1.10368 1.38629 1.38629 1.38629 1.38629 0.01078 5.83830 4.85312 0.39730 1.11515 0.00000 * 1 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 2 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 3 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 4 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 5 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 6 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 7 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 8 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 9 1.22837 1.81543 2.49016 0.77313 - u - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 10 1.94334 3.06636 0.37918 2.07333 - G - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 11 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 12 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 13 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 14 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.10664 4.64399 2.39106 1.46634 0.26236 1.09861 0.40547 15 0.23001 3.62086 1.92708 3.40701 - A - - : 1.38629 1.38629 1.38629 1.38629 0.02118 4.55852 4.55852 1.46634 0.26236 0.19077 1.75055 16 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 17 3.75233 4.63240 0.04600 4.44246 - G - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 18 3.75233 4.63240 0.04600 4.44246 - G - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 19 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 20 0.19196 3.88139 2.05011 3.67625 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 21 3.51456 1.91270 3.69502 0.22601 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 22 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 23 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 24 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 25 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 26 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 27 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 28 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 29 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 30 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 31 0.02950 4.82717 4.41795 4.71000 - A - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 32 1.54575 3.67616 0.31542 3.44058 - G - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 33 1.48065 0.98330 2.51171 1.14789 - c - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 34 2.02397 3.84362 0.19900 3.61531 - G - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 35 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 36 4.15418 0.05858 4.34061 3.56935 - C - - : 1.38629 1.38629 1.38629 1.38629 0.01943 4.64399 4.64399 1.46634 0.26236 1.09861 0.40547 37 4.10714 3.64843 4.25118 0.05841 - U - - : 1.38629 1.38629 1.38629 1.38629 * 0.00000 * 0.45905 0.99935 0.00000 * //