INFERNAL1/a [1.1.5 | Sep 2023] NAME SOX2OT_exon2 ACC RF01952 DESC SOX2 overlapping transcript exon 2 STATES 211 NODES 71 CLEN 69 W 150 ALPH RNA RF no CONS yes MAP yes DATE Tue Jul 9 07:31:19 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/RF01952/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 14 EFFN 3.496582 CKSUM 2827239532 NULL 0.000 0.000 0.000 0.000 GA 45.00 TC 57.70 NC 42.50 EFP7GF -9.4022 0.71875 ECMLC 0.72791 -9.04655 -0.26608 1600000 716004 0.001676 ECMGC 0.39870 -18.83664 -5.38779 1600000 85266 0.004691 ECMLI 0.60604 -8.59587 0.76949 1600000 350048 0.003428 ECMGI 0.45240 -10.65168 0.36495 1600000 58420 0.006847 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 4 1 1 150 233 -7.479 -7.686 -0.037 -6.100 IL 1 1 2 1 4 1 28 152 235 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 2 2 3 2 3 1 27 151 235 -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 27 150 233 -5.832 -0.052 -5.832 0.981 0.088 -1.264 -0.871 D 4 2 3 5 3 0 22 147 230 -11.551 -1.585 -0.585 IL 5 5 3 5 3 2 29 156 241 -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 26 149 232 -5.832 -0.052 -5.832 1.269 -1.309 -1.365 -0.325 D 7 5 3 8 3 0 22 146 229 -11.551 -1.585 -0.585 IL 8 8 3 8 3 2 28 155 239 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 3 ] 3 - A - - - ML 9 8 3 11 3 1 26 147 231 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 10 8 3 11 3 0 21 144 227 -11.551 -1.585 -0.585 IL 11 11 3 11 3 2 27 154 238 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 4 ] 4 - g - - - ML 12 11 3 14 3 1 25 146 229 -5.832 -0.052 -5.832 0.077 -0.980 0.934 -0.923 D 13 11 3 14 3 0 20 143 226 -11.551 -1.585 -0.585 IL 14 14 3 14 3 2 27 153 237 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 5 ] 5 - C - - - ML 15 14 3 17 3 1 24 145 228 -5.832 -0.052 -5.832 -1.829 1.426 -2.047 -0.342 D 16 14 3 17 3 0 19 142 224 -11.551 -1.585 -0.585 IL 17 17 3 17 3 1 26 151 235 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 6 ] 6 - c - - - ML 18 17 3 20 3 1 24 144 226 -5.832 -0.052 -5.832 -0.568 0.825 -0.411 -0.318 D 19 17 3 20 3 0 19 140 223 -11.551 -1.585 -0.585 IL 20 20 3 20 3 1 25 150 234 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 7 ] 7 - U - - - ML 21 20 3 23 3 1 23 142 225 -5.832 -0.052 -5.832 -0.998 -1.380 -1.730 1.492 D 22 20 3 23 3 0 18 139 222 -11.551 -1.585 -0.585 IL 23 23 3 23 3 1 24 149 232 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 8 ] 8 - G - - - ML 24 23 3 26 3 1 22 141 224 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 25 23 3 26 3 0 17 138 220 -11.551 -1.585 -0.585 IL 26 26 3 26 3 1 24 148 231 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 9 ] 9 - A - - - ML 27 26 3 29 3 1 21 140 222 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 28 26 3 29 3 0 17 137 219 -11.551 -1.585 -0.585 IL 29 29 3 29 3 1 23 146 230 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 10 ] 10 - C - - - ML 30 29 3 32 3 1 21 138 221 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 31 29 3 32 3 0 16 135 217 -11.551 -1.585 -0.585 IL 32 32 3 32 3 1 22 145 228 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 11 ] 11 - A - - - ML 33 32 3 35 3 1 20 137 219 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 34 32 3 35 3 0 15 134 216 -11.551 -1.585 -0.585 IL 35 35 3 35 3 1 22 144 227 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 12 ] 12 - G - - - ML 36 35 3 38 3 1 19 136 218 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 37 35 3 38 3 0 15 133 214 -11.551 -1.585 -0.585 IL 38 38 3 38 3 1 21 142 225 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - g - - - ML 39 38 3 41 3 1 19 134 216 -5.832 -0.052 -5.832 -0.341 -0.861 0.916 -0.371 D 40 38 3 41 3 0 14 131 213 -11.551 -1.585 -0.585 IL 41 41 3 41 3 1 20 141 224 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - U - - - ML 42 41 3 44 3 1 18 133 215 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 43 41 3 44 3 0 13 130 212 -11.551 -1.585 -0.585 IL 44 44 3 44 3 1 20 140 222 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 15 ] 15 - U - - - ML 45 44 3 47 3 1 17 132 213 -5.832 -0.052 -5.832 -0.847 -1.334 -1.643 1.447 D 46 44 3 47 3 0 13 129 210 -11.551 -1.585 -0.585 IL 47 47 3 47 3 1 19 139 221 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 16 ] 16 - U - - - ML 48 47 3 50 3 1 17 131 212 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 49 47 3 50 3 0 12 127 209 -11.551 -1.585 -0.585 IL 50 50 3 50 3 1 18 137 220 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 17 ] 17 - C - - - ML 51 50 3 53 3 1 16 129 211 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 52 50 3 53 3 0 11 126 207 -11.551 -1.585 -0.585 IL 53 53 3 53 3 1 18 136 218 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 18 ] 18 - U - - - ML 54 53 3 56 3 1 15 128 209 -5.832 -0.052 -5.832 -0.480 -1.225 -1.439 1.314 D 55 53 3 56 3 0 11 125 206 -11.551 -1.585 -0.585 IL 56 56 3 56 3 1 17 135 217 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 19 ] 19 - c - - - ML 57 56 3 59 3 1 15 127 208 -5.832 -0.052 -5.832 -1.048 0.980 -0.501 -0.255 D 58 56 3 59 3 0 10 123 204 -11.551 -1.585 -0.585 IL 59 59 3 59 3 1 16 133 215 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 20 ] 20 - C - - - ML 60 59 3 62 3 1 14 125 206 -5.832 -0.052 -5.832 -1.698 1.303 -1.906 -0.064 D 61 59 3 62 3 0 9 122 203 -11.551 -1.585 -0.585 IL 62 62 3 62 3 1 16 132 214 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 21 ] 21 - G - - - ML 63 62 3 65 3 1 14 124 205 -5.832 -0.052 -5.832 -0.067 -1.900 1.284 -1.548 D 64 62 3 65 3 0 9 121 201 -11.551 -1.585 -0.585 IL 65 65 3 65 3 1 15 131 212 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 22 ] 22 - G - - - ML 66 65 3 68 3 1 13 123 203 -5.832 -0.052 -5.832 -0.515 -1.577 1.273 -0.868 D 67 65 3 68 3 0 8 119 200 -11.551 -1.585 -0.585 IL 68 68 3 68 3 1 14 129 211 -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 12 121 202 -5.832 -0.052 -5.832 1.224 -1.614 -0.116 -1.271 D 70 68 3 71 3 0 8 118 198 -11.551 -1.585 -0.585 IL 71 71 3 71 3 1 14 128 209 -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 12 120 200 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 73 71 3 74 3 0 7 117 197 -11.551 -1.585 -0.585 IL 74 74 3 74 3 1 13 127 208 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 25 ] 25 - A - - - ML 75 74 3 77 3 1 11 119 199 -5.832 -0.052 -5.832 1.406 -0.809 -1.548 -1.193 D 76 74 3 77 3 0 6 115 195 -11.551 -1.585 -0.585 IL 77 77 3 77 3 1 13 126 207 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 26 ] 26 - a - - - ML 78 77 3 80 3 1 11 117 197 -5.832 -0.052 -5.832 0.969 -0.724 -0.293 -0.689 D 79 77 3 80 3 0 6 114 194 -11.551 -1.585 -0.585 IL 80 80 3 80 3 1 12 124 205 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 27 ] 27 - G - - - ML 81 80 3 83 3 1 10 116 196 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 82 80 3 83 3 0 5 113 192 -11.551 -1.585 -0.585 IL 83 83 3 83 3 1 11 123 204 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 28 ] 28 - U - - - ML 84 83 3 86 3 1 9 115 194 -5.832 -0.052 -5.832 -1.114 -1.161 -0.203 1.152 D 85 83 3 86 3 0 5 111 191 -11.551 -1.585 -0.585 IL 86 86 3 86 3 1 11 122 202 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 29 ] 29 - G - - - ML 87 86 3 89 3 1 9 113 193 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 88 86 3 89 3 0 4 110 189 -11.551 -1.585 -0.585 IL 89 89 3 89 3 1 10 120 201 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 30 ] 30 - G - - - ML 90 89 3 92 3 1 8 112 191 -5.832 -0.052 -5.832 -0.647 -2.233 1.526 -1.897 D 91 89 3 92 3 0 4 109 188 -11.551 -1.585 -0.585 IL 92 92 3 92 3 1 9 119 199 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 31 ] 31 - C - - - ML 93 92 3 95 3 1 7 110 190 -5.832 -0.052 -5.832 -1.693 1.298 -1.901 -0.053 D 94 92 3 95 3 0 3 107 186 -11.551 -1.585 -0.585 IL 95 95 3 95 3 1 9 118 198 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 32 ] 32 - C - - - ML 96 95 3 98 3 1 7 109 188 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 97 95 3 98 3 0 3 106 185 -11.551 -1.585 -0.585 IL 98 98 3 98 3 1 8 116 196 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 33 ] 33 - A - - - ML 99 98 3 101 3 1 6 108 187 -5.832 -0.052 -5.832 1.006 -0.394 -1.065 -0.411 D 100 98 3 101 3 0 2 105 183 -11.551 -1.585 -0.585 IL 101 101 3 101 3 1 7 115 195 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 34 ] 34 - U - - - ML 102 101 3 104 3 1 5 106 185 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 103 101 3 104 3 0 2 103 182 -11.551 -1.585 -0.585 IL 104 104 3 104 3 1 7 114 193 -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 4 105 183 -5.832 -0.112 -4.124 -2.457 1.751 -2.684 -1.755 D 106 104 3 107 3 0 1 102 180 -11.551 -1.585 -0.585 IL 107 107 3 107 3 1 6 112 192 -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 4 104 182 -5.773 -0.054 -5.773 -2.336 1.728 -2.557 -1.652 D 109 107 3 110 3 0 1 101 179 -12.363 -0.689 -1.397 IL 110 110 3 110 3 1 5 111 190 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 37 ] 37 - a - - - ML 111 110 3 113 3 1 3 102 180 -5.832 -0.128 -3.899 0.976 -1.009 -0.585 -0.202 D 112 110 3 113 3 0 0 99 177 -11.551 -1.585 -0.585 IL 113 113 3 113 3 1 5 110 189 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 38 ] 38 - U - - - ML 114 113 3 116 3 1 3 101 179 -5.759 -0.054 -5.759 -1.356 -0.039 -1.541 1.197 D 115 113 3 116 3 0 0 99 176 -12.507 -0.608 -1.541 IL 116 116 3 116 3 1 4 108 187 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 39 ] 39 - G - - - ML 117 116 3 119 3 1 3 99 177 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 118 116 3 119 3 0 0 96 174 -11.551 -1.585 -0.585 IL 119 119 3 119 3 1 4 107 185 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 40 ] 40 - G - - - ML 120 119 3 122 3 1 2 98 176 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 121 119 3 122 3 0 0 95 172 -11.551 -1.585 -0.585 IL 122 122 3 122 3 1 4 105 184 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 41 ] 41 - A - - - ML 123 122 3 125 3 1 2 97 174 -5.832 -0.052 -5.832 1.526 -1.962 -0.878 -1.649 D 124 122 3 125 3 0 0 93 170 -11.551 -1.585 -0.585 IL 125 125 3 125 3 1 3 104 182 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 42 ] 42 - A - - - ML 126 125 3 128 3 1 2 95 172 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 127 125 3 128 3 0 0 92 169 -11.551 -1.585 -0.585 IL 128 128 3 128 3 1 3 103 181 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 43 ] 43 - U - - - ML 129 128 3 131 3 1 1 94 171 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 130 128 3 131 3 0 0 90 167 -11.551 -1.585 -0.585 IL 131 131 3 131 3 1 2 101 179 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 44 ] 44 - G - - - ML 132 131 3 134 3 1 1 92 169 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 133 131 3 134 3 0 0 89 165 -11.551 -1.585 -0.585 IL 134 134 3 134 3 1 2 100 178 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 45 ] 45 - A - - - ML 135 134 3 137 3 1 1 91 167 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 136 134 3 137 3 0 0 87 164 -11.551 -1.585 -0.585 IL 137 137 3 137 3 1 2 98 176 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 46 ] 46 - A - - - ML 138 137 3 140 3 1 1 89 166 -5.832 -0.052 -5.832 1.180 -1.588 -0.032 -1.242 D 139 137 3 140 3 0 0 86 162 -11.551 -1.585 -0.585 IL 140 140 3 140 3 1 2 97 174 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 47 ] 47 - U - - - ML 141 140 3 143 3 1 1 88 164 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 142 140 3 143 3 0 0 84 160 -11.551 -1.585 -0.585 IL 143 143 3 143 3 1 1 96 173 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 48 ] 48 - G - - - ML 144 143 3 146 3 1 1 86 162 -5.832 -0.052 -5.832 -2.133 -3.046 1.809 -2.770 D 145 143 3 146 3 0 0 83 159 -11.551 -1.585 -0.585 IL 146 146 3 146 3 1 1 94 171 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 49 ] 49 - A - - - ML 147 146 3 149 3 1 1 85 161 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 148 146 3 149 3 0 0 81 157 -11.551 -1.585 -0.585 IL 149 149 3 149 3 1 1 93 169 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 50 ] 50 - A - - - ML 150 149 3 152 3 1 1 83 159 -5.832 -0.052 -5.832 1.821 -2.855 -2.576 -2.631 D 151 149 3 152 3 0 0 80 155 -11.551 -1.585 -0.585 IL 152 152 3 152 3 1 1 91 168 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 51 ] 51 - A - - - ML 153 152 3 155 3 1 1 82 157 -5.832 -0.052 -5.832 1.523 -1.957 -0.868 -1.644 D 154 152 3 155 3 0 0 78 153 -11.551 -1.585 -0.585 IL 155 155 3 155 3 1 1 90 166 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 52 ] 52 - U - - - ML 156 155 3 158 3 1 1 80 155 -5.832 -0.191 -3.230 -1.101 -1.154 -0.165 1.132 D 157 155 3 158 3 0 0 77 151 -11.551 -1.585 -0.585 IL 158 158 3 158 3 1 1 89 165 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 53 ] 53 - G - - - ML 159 158 3 161 3 1 1 79 154 -5.697 -0.057 -5.697 -1.926 -2.756 1.769 -2.476 D 160 158 3 161 3 0 0 75 150 -12.979 -3.013 -0.191 IL 161 161 3 161 3 1 1 87 163 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 54 ] 54 - U - - - ML 162 161 3 164 3 1 1 77 152 -5.697 -0.057 -5.697 -1.913 -1.543 -2.084 1.658 D 163 161 3 164 3 0 0 75 149 -12.979 -0.411 -2.013 IL 164 164 3 164 3 1 1 86 161 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 55 ] 55 - U - - - ML 165 164 3 167 3 1 1 76 150 -5.832 -0.052 -5.832 -0.701 -0.107 -1.201 1.015 D 166 164 3 167 3 0 0 72 146 -11.551 -1.585 -0.585 IL 167 167 3 167 3 1 1 84 159 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 56 ] 56 - C - - - ML 168 167 3 170 3 1 1 74 148 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 169 167 3 170 3 0 0 70 144 -11.551 -1.585 -0.585 IL 170 170 3 170 3 1 1 83 157 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 57 ] 57 - u - - - ML 171 170 3 173 3 1 1 72 146 -5.832 -0.052 -5.832 -1.400 0.638 -1.588 0.792 D 172 170 3 173 3 0 0 69 142 -11.551 -1.585 -0.585 IL 173 173 3 173 3 1 1 81 156 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 58 ] 58 - C - - - ML 174 173 3 176 3 1 1 71 144 -5.832 -0.052 -5.832 -1.829 1.426 -2.047 -0.342 D 175 173 3 176 3 0 0 67 140 -11.551 -1.585 -0.585 IL 176 176 3 176 3 1 1 79 154 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 59 ] 59 - U - - - ML 177 176 3 179 3 1 1 69 142 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 178 176 3 179 3 0 0 65 138 -11.551 -1.585 -0.585 IL 179 179 3 179 3 1 1 78 152 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 60 ] 60 - U - - - ML 180 179 3 182 3 1 1 67 140 -5.832 -0.112 -4.130 -2.189 -1.771 -2.369 1.720 D 181 179 3 182 3 0 0 64 136 -11.551 -1.585 -0.585 IL 182 182 3 182 3 1 1 76 150 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 61 ] 61 - U - - - ML 183 182 3 185 3 1 1 65 138 -5.774 -0.054 -5.774 -1.449 -0.316 -1.638 1.327 D 184 182 3 185 3 0 0 62 134 -12.359 -0.692 -1.393 IL 185 185 3 185 3 1 1 75 148 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 62 ] 62 - C - - - ML 186 185 3 188 3 1 1 64 135 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 187 185 3 188 3 0 0 59 131 -11.551 -1.585 -0.585 IL 188 188 3 188 3 1 1 73 146 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 63 ] 63 - U - - - ML 189 188 3 191 3 1 1 62 133 -5.832 -0.052 -5.832 -1.545 -0.373 -1.738 1.370 D 190 188 3 191 3 0 0 57 128 -11.551 -1.585 -0.585 IL 191 191 3 191 3 1 1 71 144 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 64 ] 64 - a - - - ML 192 191 3 194 3 1 1 59 131 -5.832 -0.112 -4.130 0.837 -0.746 -0.018 -0.666 D 193 191 3 194 3 0 0 55 126 -11.551 -1.585 -0.585 IL 194 194 3 194 3 1 1 70 142 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 65 ] 65 - U - - - ML 195 194 3 197 3 1 1 57 128 -5.774 -0.054 -5.774 -2.069 -1.672 -2.245 1.695 D 196 194 3 197 3 0 0 53 124 -12.359 -0.692 -1.393 IL 197 197 3 197 3 1 1 68 139 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 66 ] 66 - U - - - ML 198 197 3 200 3 1 1 55 125 -5.832 -0.052 -5.832 -2.189 -1.771 -2.369 1.720 D 199 197 3 200 3 0 0 49 118 -11.551 -1.585 -0.585 IL 200 200 3 200 3 1 1 66 137 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 67 ] 67 - C - - - ML 201 200 3 203 3 1 1 52 122 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 202 200 3 203 3 0 0 44 113 -11.551 -1.585 -0.585 IL 203 203 3 203 3 1 1 64 134 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 68 ] 68 - C - - - ML 204 203 3 206 3 1 1 48 117 -5.832 -0.052 -5.832 -2.457 1.751 -2.684 -1.755 D 205 203 3 206 3 0 0 32 101 -11.551 -1.585 -0.585 IL 206 206 3 206 3 1 1 62 131 -0.384 -2.121 -8.028 0.000 0.000 0.000 0.000 [ MATL 69 ] 69 - A - - - ML 207 206 3 209 2 1 1 1 1 * 0.000 1.464 -1.559 -1.616 -0.796 D 208 206 3 209 2 0 0 0 0 * 0.000 IL 209 209 3 209 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 70 ] - - - - - - E 210 209 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME SOX2OT_exon2 ACC RF01952 DESC SOX2 overlapping transcript exon 2 LENG 69 MAXL 150 ALPH RNA RF no MM no CONS yes CS yes MAP no DATE Tue Jul 9 07:31:19 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/RF01952/CM NSEQ 14 EFFN 3.496582 CKSUM 2827239532 STATS LOCAL MSV -8.7283 0.71875 STATS LOCAL VITERBI -9.0475 0.71875 STATS LOCAL FORWARD -4.0226 0.71875 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.32527 1.44641 1.48305 1.30228 1.38629 1.38629 1.38629 1.38629 0.02083 5.18411 4.19893 0.39730 1.11515 0.00000 * 1 0.70627 1.32514 2.26269 1.99010 - a - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 2 0.50662 2.29377 2.33257 1.61175 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 3 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 4 1.33260 2.06525 0.73912 2.02581 - g - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 5 2.65391 0.39760 2.80518 1.62356 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 6 1.78021 0.81469 1.67129 1.60637 - c - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 7 2.07835 2.34288 2.58513 0.35179 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 8 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 9 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 10 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 11 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 12 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 13 1.62239 1.98315 0.75146 1.64371 - g - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 14 2.90371 2.61400 3.02854 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 15 1.97335 2.31066 2.52480 0.38311 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 16 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 17 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 18 1.71904 2.23568 2.38402 0.47536 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 19 2.11282 0.70735 1.73332 1.56323 - c - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 20 2.56342 0.48278 2.70775 1.43043 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 21 1.43252 2.70305 0.49623 2.45954 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 22 1.74341 2.47966 0.50368 1.98775 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 23 0.53791 2.50507 1.46642 2.26709 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 24 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 25 0.41189 1.94678 2.45925 2.21302 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 26 0.71437 1.88820 1.58931 1.86377 - a - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 27 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 28 2.15870 2.19131 1.52674 0.58786 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 29 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 30 1.83471 2.93416 0.32842 2.70153 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 31 2.55988 0.48663 2.70395 1.42275 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 32 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 33 0.68876 1.65923 2.12453 1.67117 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 34 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 35 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.07787 4.04245 2.85840 1.46634 0.26236 1.09861 0.40547 36 3.00524 0.18822 3.15861 2.53125 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03725 4.00183 4.00183 1.46634 0.26236 0.47752 0.96843 37 0.70981 2.08536 1.79170 1.52636 - a - - : 1.38629 1.38629 1.38629 1.38629 0.08838 4.04245 2.70262 1.46634 0.26236 1.09861 0.40547 38 2.32655 1.41306 2.45444 0.55677 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03764 3.99171 3.99171 1.46634 0.26236 0.42119 1.06788 39 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 40 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 41 0.32837 2.74621 1.99478 2.52960 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 42 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 43 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 44 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 45 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 46 0.56821 2.48668 1.40828 2.24702 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 47 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 48 2.86498 3.49788 0.13228 3.30610 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 49 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 50 0.12427 3.36504 3.17150 3.21002 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 51 0.33039 2.74267 1.98809 2.52573 - A - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 52 2.14947 2.18643 1.50035 0.60133 - U - - : 1.38629 1.38629 1.38629 1.38629 0.13257 4.04245 2.23862 1.46634 0.26236 1.09861 0.40547 53 2.72160 3.29642 0.15986 3.10223 - G - - : 1.38629 1.38629 1.38629 1.38629 0.03930 3.94918 3.94918 1.46634 0.26236 2.08851 0.13224 54 2.71241 2.45615 2.83055 0.23714 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03930 3.94918 3.94918 1.46634 0.26236 0.28468 1.39536 55 1.87230 1.46031 2.21859 0.68259 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 56 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 57 2.35697 0.94376 2.48667 0.83715 - u - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 58 2.65391 0.39760 2.80518 1.62356 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 59 2.90371 2.61400 3.02854 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 60 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.07760 4.04245 2.86278 1.46634 0.26236 1.09861 0.40547 61 2.39099 1.60552 2.52161 0.46626 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03724 4.00209 4.00209 1.46634 0.26236 0.47919 0.96571 62 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 63 2.45711 1.64471 2.59086 0.43650 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 64 0.80626 1.90341 1.39902 1.84784 - a - - : 1.38629 1.38629 1.38629 1.38629 0.07760 4.04245 2.86278 1.46634 0.26236 1.09861 0.40547 65 2.82011 2.54501 2.94220 0.21174 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03724 4.00209 4.00209 1.46634 0.26236 0.47919 0.96571 66 2.90371 2.61400 3.02855 0.19413 - U - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 67 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 68 3.08929 0.17255 3.24679 2.60306 - C - - : 1.38629 1.38629 1.38629 1.38629 0.03574 4.04245 4.04245 1.46634 0.26236 1.09861 0.40547 69 0.37172 2.46686 2.50625 1.93773 - A - - : 1.38629 1.38629 1.38629 1.38629 * 0.00000 * 0.45905 0.99935 0.00000 * //