INFERNAL1/a [1.1.5 | Sep 2023] NAME L25-Gammaproteobacteria ACC RF03131 DESC L25-Gammaproteobacteria ribosomal protein leader STATES 82 NODES 18 CLEN 26 W 36 ALPH RNA RF no CONS yes MAP yes DATE Wed Jul 10 08:55:26 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/RF03131/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 381 EFFN 381.000000 CKSUM 1715434718 NULL 0.000 0.000 0.000 0.000 GA 34.10 TC 34.10 NC 33.90 EFP7GF -18.3277 0.73199 ECMLC 0.68841 -3.95586 4.61962 1600000 439564 0.002730 ECMGC 0.48430 -21.71520 -6.39016 1600000 668848 0.000598 ECMLI 0.69166 -3.51124 4.92248 1600000 409757 0.002929 ECMGI 0.48444 -20.22636 -5.56396 1600000 486249 0.000823 CM [ ROOT 0 ] - - - - - - S 0 -1 0 1 6 1 1 36 55 -14.502 -14.442 -0.008 -13.218 -7.499 -13.893 IL 1 1 2 1 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 2 2 3 2 5 1 1 38 56 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 1 ] 1 28 C G - - MP 3 2 3 7 6 2 2 36 55 -14.495 -14.434 -0.001 -13.210 -13.490 -13.885 -8.800 -8.502 -4.624 0.274 -4.105 -9.644 3.575 -2.798 -8.659 -1.539 -3.965 -0.605 0.516 -8.983 -3.069 -7.378 ML 4 2 3 7 6 1 1 35 53 -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 35 54 -8.854 -7.583 -0.296 -7.561 -2.695 -5.775 -1.613 -1.587 -2.353 1.653 D 6 2 3 7 6 0 0 33 51 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 7 7 5 7 6 1 1 36 54 -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 36 54 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 2 ] 2 27 C G - - MP 9 8 6 13 6 2 2 34 53 -14.502 -14.442 -0.000 -13.218 -13.498 -13.893 -10.884 -10.875 -10.459 1.195 -8.960 -10.797 3.419 -9.803 -10.478 -1.063 -10.728 -8.766 -0.921 -10.863 0.995 -9.251 ML 10 8 6 13 6 1 1 33 51 -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 33 51 -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 31 49 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 13 13 5 13 6 1 1 34 52 -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 34 52 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 3 ] 3 26 U A - - MP 15 14 6 19 6 2 2 32 51 -14.502 -14.442 -0.000 -13.218 -13.498 -13.893 -4.890 -11.750 -10.838 1.648 -9.200 -10.996 0.653 -10.110 -10.935 -7.932 -11.064 -10.086 3.453 -11.349 -1.767 -9.736 ML 16 14 6 19 6 1 1 31 49 -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 31 49 -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 29 47 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 19 19 5 19 6 1 1 32 50 -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 32 50 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 4 ] 4 25 G C - - MP 21 20 6 25 6 2 2 30 49 -14.502 -14.442 -0.000 -13.218 -13.498 -13.893 -11.602 -9.095 -12.332 1.284 -13.610 -10.664 -8.348 -12.283 -10.386 3.695 -10.708 -0.732 -8.571 -10.961 -10.590 -10.988 ML 22 20 6 25 6 1 1 29 47 -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 29 47 -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 27 45 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 25 25 5 25 6 1 1 30 48 -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 30 48 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 5 ] 5 24 c g - - MP 27 26 6 31 6 2 2 28 47 -14.502 -14.442 -0.000 -13.218 -13.498 -13.893 -11.541 -11.823 -10.858 -8.059 -2.756 -11.003 2.659 -10.124 -10.962 -8.031 -11.082 -10.227 2.213 -11.375 2.289 -9.764 ML 28 26 6 31 6 1 1 27 45 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 29 26 6 31 6 1 1 27 46 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 30 26 6 31 6 0 0 25 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 31 31 5 31 6 1 1 28 46 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 32 32 6 32 5 1 1 28 46 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 6 ] 6 23 U A - - MP 33 32 6 37 6 2 2 26 45 -14.502 -14.442 -0.000 -13.218 -13.498 -13.893 -11.021 -11.068 -10.546 -1.376 -4.272 -10.840 1.027 -3.620 -10.583 -6.963 -10.806 -9.032 3.649 -2.370 -1.176 -2.015 ML 34 32 6 37 6 1 1 25 44 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 35 32 6 37 6 1 1 26 45 -6.988 -5.717 -1.625 -5.695 -0.829 -3.908 0.368 -0.385 -0.191 0.094 D 36 32 6 37 6 0 0 24 43 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 37 37 5 37 6 1 1 26 45 -2.579 -2.842 -0.760 -4.497 -5.274 -4.934 0.000 0.000 0.000 0.000 IR 38 38 6 38 5 1 1 26 44 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 7 ] 7 22 G U - - MP 39 38 6 43 6 2 2 24 43 -14.502 -14.442 -0.012 -7.014 -13.498 -13.893 -10.531 -9.191 -10.726 1.902 -12.867 -14.022 -8.325 -10.769 -2.121 1.166 -10.956 3.289 -8.250 -12.031 -10.156 -9.324 ML 40 38 6 43 6 1 1 24 43 -6.250 -6.596 -1.310 -1.005 -6.446 -3.975 0.368 -0.385 -0.191 0.094 MR 41 38 6 43 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 42 38 6 43 6 0 0 24 42 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 43 43 5 43 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 44 44 6 44 5 1 1 25 43 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 8 ] 8 21 C G - - MP 45 44 6 49 4 2 2 22 41 -5.425 -13.907 -0.034 -12.322 -11.530 -11.811 -10.847 -8.047 -9.198 -10.992 3.962 -10.113 -10.951 -8.020 -11.071 -10.214 -5.930 -11.364 -1.398 -9.753 ML 46 44 6 49 4 1 1 24 42 -5.822 -6.004 -0.106 -4.734 -2.593 1.791 -3.419 -1.842 MR 47 44 6 49 4 1 1 25 43 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 48 44 6 49 4 0 0 24 42 -4.568 -4.250 -2.265 -0.520 IL 49 49 5 49 4 1 1 24 42 -5.264 -5.948 -0.067 -8.433 0.000 0.000 0.000 0.000 IR 50 50 6 50 3 1 1 27 45 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 9 ] 10 - U - - - ML 51 50 6 53 3 1 1 19 37 -14.916 -0.000 -13.233 -11.811 -10.485 -13.313 2.000 D 52 50 6 53 3 0 0 19 37 -5.620 -0.734 -1.403 IL 53 53 3 53 3 1 1 22 39 -1.925 -0.554 -4.164 0.000 0.000 0.000 0.000 [ MATR 10 ] - 20 - U - - MR 54 53 3 56 5 1 1 18 36 -13.557 -0.000 -13.372 -13.584 -14.476 -9.022 -8.704 -1.944 1.901 D 55 53 3 56 5 0 0 19 37 -5.352 -0.707 -2.978 -4.409 -2.404 IR 56 56 3 56 5 1 1 20 38 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 11 ] 11 19 G C - - MP 57 56 3 61 6 2 2 17 35 -14.502 -14.442 -0.003 -9.259 -13.498 -13.893 -12.349 -9.073 -14.253 -6.514 0.031 -10.255 -8.247 -13.803 -10.430 3.902 -10.631 -6.991 -8.646 -10.712 -10.638 -13.200 ML 58 56 3 61 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 59 56 3 61 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 60 56 3 61 6 0 0 19 37 -9.049 -7.747 -3.544 -4.226 -4.244 -0.319 IL 61 61 5 61 6 1 1 20 38 -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 19 38 -2.408 -0.496 -5.920 -4.087 -5.193 0.000 0.000 0.000 0.000 [ MATP 12 ] 12 18 G C - - MP 63 62 6 67 4 2 2 15 33 -13.709 -13.916 -0.000 -12.331 -12.447 -9.058 -14.839 -6.540 -14.066 -10.216 -8.358 -14.264 -10.428 3.997 -10.618 -6.993 -8.725 -10.685 -10.811 -13.967 ML 64 62 6 67 4 1 1 20 38 -4.469 -4.651 -0.288 -3.381 -0.320 -1.287 1.117 -0.690 MR 65 62 6 67 4 1 1 20 38 -4.809 -3.838 -1.706 -0.766 0.368 -0.385 -0.191 0.094 D 66 62 6 67 4 0 0 19 37 -4.568 -4.250 -2.265 -0.520 IL 67 67 5 67 4 1 1 22 40 -1.686 -2.369 -1.117 -4.855 0.000 0.000 0.000 0.000 IR 68 68 6 68 3 1 1 21 39 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 13 ] 13 - G - - - ML 69 68 6 71 3 1 1 12 30 -14.622 -0.000 -13.276 -9.162 -10.902 1.969 -3.602 D 70 68 6 71 3 0 0 16 34 -6.174 -1.687 -0.566 IL 71 71 3 71 3 1 1 20 38 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 14 ] 14 - U - - - ML 72 71 3 74 3 1 1 11 28 -14.622 -0.000 -13.276 -11.811 -10.485 -13.313 2.000 D 73 71 3 74 3 0 0 14 33 -6.174 -1.687 -0.566 IL 74 74 3 74 3 1 1 19 37 -1.442 -0.798 -4.142 0.000 0.000 0.000 0.000 [ MATL 15 ] 15 - C - - - ML 75 74 3 77 3 1 1 10 24 -9.261 -0.002 -13.276 -10.832 1.999 -11.520 -9.461 D 76 74 3 77 3 0 0 10 24 -6.174 -1.687 -0.566 IL 77 77 3 77 3 1 1 14 28 -1.899 -0.534 -4.599 0.000 0.000 0.000 0.000 [ MATL 16 ] 17 - G - - - ML 78 77 3 80 2 1 1 1 1 * 0.000 -9.153 -10.921 1.999 -9.909 D 79 77 3 80 2 0 0 0 0 * 0.000 IL 80 80 3 80 2 1 1 13 28 -1.823 -0.479 0.000 0.000 0.000 0.000 [ END 17 ] - - - - - - E 81 80 3 -1 0 0 0 0 0 // HMMER3/f [3.4 | Aug 2023] NAME L25-Gammaproteobacteria ACC RF03131 DESC L25-Gammaproteobacteria ribosomal protein leader LENG 26 MAXL 70 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Jul 10 08:55:26 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/RF03131/CM NSEQ 381 EFFN 381.000000 CKSUM 1715434718 STATS LOCAL MSV -6.1875 0.73199 STATS LOCAL VITERBI -6.5818 0.73199 STATS LOCAL FORWARD -4.0635 0.73199 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 2.21987 1.30507 1.03916 1.32249 1.38629 1.38629 1.38629 1.38629 0.00606 8.25114 5.15407 1.46634 0.26236 0.00000 * 1 2.54534 0.27778 2.70670 2.32963 1 C - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.24561 8.24561 1.46634 0.26236 0.08651 2.49044 2 1.94331 0.40221 3.50052 1.84675 2 C - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 3 1.61919 2.31775 7.75943 0.35237 3 U - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 4 1.88157 8.12099 0.16603 7.99894 4 G - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 5 7.84268 0.90638 7.79957 0.51883 5 U - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 6 3.71888 1.99721 7.18780 0.17522 6 U - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 7 1.45363 8.12629 0.26718 7.71484 7 G - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 8 7.36344 0.02672 7.53093 3.68096 8 C - - < 1.38629 1.38629 1.38629 1.38629 0.02379 3.76158 8.25114 0.02230 3.81422 1.09861 0.40547 9 9.57307 8.65419 10.61432 0.00027 10 U - - - 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 10 7.04961 2.74703 0.06750 8.17054 11 G - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 11 6.77060 7.76000 0.00207 7.61781 12 G - - < 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 12 7.73705 8.94308 0.02138 3.88323 13 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 13 9.57307 8.65419 10.61432 0.00027 14 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 14 8.89464 0.00058 9.37143 7.94398 15 C - - _ 1.38629 1.38629 1.38629 1.38629 0.00211 6.29264 8.25114 0.26160 1.46887 1.09861 0.40547 15 7.73060 8.95608 0.00083 8.25454 17 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00207 8.25114 6.31508 1.46634 0.26236 1.09861 0.40547 16 8.24949 0.00178 8.10020 6.71416 18 C - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.24959 8.24959 1.46634 0.26236 0.25351 1.49643 17 2.74765 0.06786 8.07102 6.71213 19 C - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 18 7.64011 7.41979 2.73359 0.06835 20 U - - - 1.38629 1.38629 1.38629 1.38629 0.00829 8.25114 4.82883 1.46634 0.26236 1.09861 0.40547 19 6.66115 7.90327 0.00215 7.60691 21 G - - > 1.38629 1.38629 1.38629 1.38629 0.00053 8.24338 8.24338 1.46634 0.26236 0.06323 2.79240 20 4.21859 1.96316 7.86044 0.16903 22 U - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 21 0.23906 4.36525 1.86363 3.10519 23 A - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 22 1.20687 7.86518 0.35672 7.56744 24 G - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 23 7.84960 0.21151 7.85919 1.66143 25 C - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 24 0.37590 7.70171 2.14751 1.62912 26 A - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 25 3.39644 3.50070 0.23216 1.94131 27 G - - > 1.38629 1.38629 1.38629 1.38629 0.00052 8.25114 8.25114 1.46634 0.26236 1.09861 0.40547 26 2.37271 3.80689 0.28119 2.04276 28 G - - > 1.38629 1.38629 1.38629 1.38629 0.00026 8.25088 * 1.46634 0.26236 0.00000 * //