Mercurial > repos > rnateam > hmmcv
view test-data/hammerheadClan.hmm @ 0:559e11a57c3e draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/cmv commit 3bc676ca60e837f8aca261d0b7860128b3474a5c
| author | rnateam |
|---|---|
| date | Fri, 20 Oct 2017 04:34:18 -0400 |
| parents | |
| children |
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HMMER3/f [i1.1 | October 2013] NAME Hammerhead_1 ACC RF00163 LENG 46 MAXL 1024 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Mon Apr 7 16:26:36 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED NSEQ 29 EFFN 29.000000 CKSUM 822789652 STATS LOCAL MSV -7.2434 0.72420 STATS LOCAL VITERBI -8.0368 0.72420 STATS LOCAL FORWARD -3.9333 0.72420 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.23160 1.40725 1.36162 1.57448 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 0.00000 * 1 1.05150 0.79288 2.10623 2.57240 1 c - - ( 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 2 3.57334 2.35748 2.81121 0.20194 2 U - - ( 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 3 2.13788 0.94667 3.09051 0.80165 3 u - - ( 1.38629 1.38629 1.38629 1.38629 0.05509 5.74300 2.98777 1.46634 0.26236 1.09861 0.40547 4 4.19719 0.98552 3.95023 0.52346 4 U - - ( 1.38629 1.38629 1.38629 1.38629 0.00675 5.69466 5.69466 1.46634 0.26236 0.11973 2.18181 5 1.10187 0.99383 2.32825 1.60881 5 c - - ( 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 6 1.81855 1.02498 1.03243 2.09726 6 c - - ( 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 7 2.32168 0.15763 4.96854 3.19967 7 C - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 8 2.51100 2.68275 4.56816 0.17428 8 U - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 9 5.32753 6.52376 0.00925 5.84922 9 G - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 10 0.03510 5.34451 5.30287 3.69926 10 A - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 11 0.78913 1.06413 2.18044 2.43336 11 a - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 12 5.05359 3.99671 0.02921 5.51634 12 G - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 13 0.12729 3.90906 4.06325 2.49775 13 A - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 14 3.40084 5.71124 0.04079 5.70842 14 G - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 15 0.87362 3.64062 4.79136 0.60144 15 U - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 16 5.35572 0.12161 3.01897 2.79792 16 C - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 17 5.34129 0.65767 0.83205 3.17017 17 C - - < 1.38629 1.38629 1.38629 1.38629 0.03409 5.74300 3.49639 1.46634 0.26236 1.09861 0.40547 18 0.83459 0.84384 3.21993 2.34406 18 a - - _ 1.38629 1.38629 1.38629 1.38629 0.00661 5.71553 5.71553 1.46634 0.26236 0.19187 1.74534 19 0.08607 3.46116 3.24250 4.42186 19 A - - _ 1.38629 1.38629 1.38629 1.38629 0.56145 5.74300 0.85234 1.46634 0.26236 1.09861 0.40547 20 2.99374 2.42928 0.28484 2.21031 20 G - - _ 1.38629 1.38629 1.38629 1.38629 1.25738 0.34243 5.19273 4.16835 0.01560 0.01492 4.21243 21 0.60942 0.95344 3.06389 3.72086 92 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 22 0.04450 3.51265 5.05530 4.91560 93 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 23 4.46679 0.72857 5.18579 0.69251 94 U - - _ 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 24 0.08550 4.58105 3.17510 3.50937 95 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 25 0.80650 5.39706 0.61064 5.10817 96 G - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 26 2.41270 5.40317 0.10546 5.11395 97 G - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 27 0.69505 5.01869 2.59499 0.86824 98 a - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 28 5.68031 0.08639 2.98559 3.54589 99 C - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 29 4.83346 5.71925 0.08180 2.69861 100 G - - , 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 30 0.06141 4.75374 3.61727 3.72591 101 A - - , 1.38629 1.38629 1.38629 1.38629 0.01860 5.74300 4.18519 1.46634 0.26236 1.09861 0.40547 31 0.07025 4.62943 3.62627 3.45889 102 A - - , 1.38629 1.38629 1.38629 1.38629 0.05578 2.97569 5.73092 1.11586 0.39695 0.35150 1.21616 32 0.04794 5.74377 3.24245 5.39598 106 A - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 33 5.25081 0.10882 3.62090 2.64356 107 C - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 34 2.18897 3.02831 0.71320 1.05126 108 g - - < 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 35 2.48896 0.39844 2.09457 2.09955 109 C - - < 1.38629 1.38629 1.38629 1.38629 0.53231 0.89270 5.74300 0.01558 4.16960 1.09861 0.40547 36 2.03556 2.23109 0.41757 2.26975 111 G - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 37 1.03674 0.72936 3.18879 2.10413 112 c - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 38 3.34836 5.30979 0.11626 2.66400 113 G - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 39 5.58709 4.48087 5.55181 0.01913 114 U - - > 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 40 4.82532 0.08164 3.39148 3.30471 115 C - - , 1.38629 1.38629 1.38629 1.38629 0.11871 2.21890 5.74300 1.10654 0.40153 1.09861 0.40547 41 2.32997 0.94969 0.94687 2.05660 119 g - - ) 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 42 1.70930 2.45034 0.94884 1.06260 120 g - - ) 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 43 0.77268 4.06315 0.76144 2.91805 121 g - - ) 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 44 0.93066 2.41528 1.00913 1.88500 122 a - - ) 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 45 0.10070 5.28008 2.47777 4.99427 123 A - - ) 1.38629 1.38629 1.38629 1.38629 0.00643 5.74300 5.74300 1.46634 0.26236 1.09861 0.40547 46 2.80174 2.03993 0.87783 0.93249 124 g - - ) 1.38629 1.38629 1.38629 1.38629 0.00322 5.73979 * 1.46634 0.26236 0.00000 * // HMMER3/f [i1.1 | October 2013] NAME Hammerhead_3 ACC RF00008 LENG 58 MAXL 394 ALPH RNA RF no MM no CONS yes CS yes MAP yes DATE Wed Apr 2 10:16:51 2014 COM [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED NSEQ 82 EFFN 37.363953 CKSUM 3010811993 STATS LOCAL MSV -7.6645 0.71923 STATS LOCAL VITERBI -8.4297 0.71923 STATS LOCAL FORWARD -4.3750 0.71923 HMM A C G U m->m m->i m->d i->m i->i d->m d->d COMPO 1.32643 1.47009 1.25645 1.51409 1.38629 1.38629 1.38629 1.38629 0.43619 6.09683 1.04625 1.46634 0.26236 0.00000 * 1 1.82145 0.86676 1.49265 1.64443 1 c - - : 1.38629 1.38629 1.38629 1.38629 0.00694 5.66758 5.66758 1.46634 0.26236 0.27423 1.42778 2 0.83552 1.66404 2.70673 1.17046 2 a - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 3 1.15542 1.18053 2.06288 1.38280 3 a - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 4 1.31675 0.78057 1.36254 4.02643 4 c - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 5 0.28665 2.12273 3.57662 2.28720 5 A - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 6 3.33415 5.75054 0.04308 5.70299 6 G - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 7 6.47594 6.12952 6.71375 0.00494 7 U - - ( 1.38629 1.38629 1.38629 1.38629 0.00491 6.01256 6.01256 1.46634 0.26236 3.66156 0.02603 8 2.77356 0.09503 5.28751 3.76519 8 C - - , 1.38629 1.38629 1.38629 1.38629 0.15169 3.77726 2.13826 0.20170 1.70013 0.05275 2.96842 9 2.86405 4.59505 0.76223 0.76306 10 g - - < 1.38629 1.38629 1.38629 1.38629 0.00487 6.01969 6.01969 1.46634 0.26236 0.04070 3.22185 10 1.33215 2.44594 0.47387 3.61727 11 G - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 11 2.24834 2.05040 0.60684 1.51107 12 G - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 12 0.96873 4.00048 0.62366 2.71586 13 G - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 13 2.66774 0.37852 1.60250 3.11625 14 C - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 14 1.87279 1.33706 1.95959 0.81470 15 u - - _ 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 15 1.34029 3.23842 4.51723 0.37384 16 U - - _ 1.38629 1.38629 1.38629 1.38629 0.52776 6.12818 0.89675 1.46634 0.26236 1.09861 0.40547 16 3.03248 5.58471 0.05975 5.10767 17 G - - _ 1.38629 1.38629 1.38629 1.38629 1.40408 0.31420 3.72837 0.01002 4.60845 5.24207 0.00530 17 0.62567 3.34691 1.33089 1.79781 19 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00752 5.58721 5.58721 1.46634 0.26236 5.27100 0.00515 18 3.09604 2.64198 0.42607 1.46759 20 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00752 5.58721 5.58721 1.46634 0.26236 5.27100 0.00515 19 1.78991 1.89610 1.98614 0.60578 21 U - - _ 1.38629 1.38629 1.38629 1.38629 1.15974 0.38172 5.58721 0.01094 4.52109 0.01033 4.57785 20 0.81364 1.80600 1.35329 2.00947 23 a - - _ 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 21 3.55946 1.64658 0.34876 2.61356 24 G - - > 1.38629 1.38629 1.38629 1.38629 0.02120 6.12818 3.97403 1.46634 0.26236 1.09861 0.40547 22 2.79448 0.60750 3.83600 0.98735 25 C - - > 1.38629 1.38629 1.38629 1.38629 0.00444 6.11142 6.11142 1.46634 0.26236 0.20864 1.66965 23 1.54768 1.19553 1.99559 1.05331 26 u - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 24 3.77909 0.53822 2.37996 1.20125 27 C - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 25 0.67949 0.94447 3.94641 2.46610 28 A - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 26 6.06154 0.00849 6.37611 5.42148 29 C - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 27 6.32646 5.85171 6.98255 0.00561 30 U - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 28 5.40707 4.43524 0.01928 5.89166 31 G - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 29 0.00581 6.55643 6.07425 6.18037 32 A - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 30 4.91034 1.25619 5.49528 0.35128 33 U - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 31 5.54973 6.76018 0.00738 6.07429 34 G - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 32 0.00581 6.55643 6.07425 6.18037 35 A - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 33 4.04422 6.03584 0.02247 6.07351 36 G - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 34 4.01080 1.47735 1.32704 0.71666 37 u - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 35 5.61791 0.10835 5.54724 2.35224 38 C - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 36 3.53341 1.16762 1.64995 0.76008 39 u - - < 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 37 2.03553 1.14366 0.89607 1.94793 40 g - - _ 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 38 1.57384 4.50180 5.08139 0.25431 41 U - - _ 1.38629 1.38629 1.38629 1.38629 0.29218 6.12818 1.38157 1.46634 0.26236 1.09861 0.40547 39 3.09844 5.93445 0.05360 5.42125 42 G - - _ 1.38629 1.38629 1.38629 1.38629 0.00582 5.84183 5.84183 1.46634 0.26236 4.76382 0.00857 40 0.57139 2.99642 0.98909 4.31405 43 A - - _ 1.38629 1.38629 1.38629 1.38629 0.49939 1.05274 3.12088 3.14323 0.04410 4.76382 0.00857 41 1.04364 1.08329 1.31484 3.19837 68 a - - _ 1.38629 1.38629 1.38629 1.38629 0.00608 5.79974 5.79974 1.46634 0.26236 2.04285 0.13887 42 0.02310 5.57631 5.42805 4.22311 69 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00579 5.84716 5.84716 1.46634 0.26236 0.12551 2.13749 43 1.40381 1.25554 2.81848 0.89228 70 u - - _ 1.38629 1.38629 1.38629 1.38629 0.00448 6.10255 6.10255 1.46634 0.26236 2.68142 0.07092 44 0.38958 5.50418 1.15768 5.43206 71 A - - _ 1.38629 1.38629 1.38629 1.38629 0.00448 6.10255 6.10255 1.46634 0.26236 0.14726 1.98827 45 0.78318 1.63842 1.13792 3.56564 72 a - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 46 2.67107 5.67654 0.08033 5.38484 73 G - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 47 0.74767 1.36240 1.39759 3.75960 74 a - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 48 6.09436 0.02609 5.94200 3.86953 75 C - - > 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 49 4.27804 6.30999 0.02714 4.50238 76 G - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 50 0.01709 6.15625 4.41390 5.90874 77 A - - , 1.38629 1.38629 1.38629 1.38629 0.00437 6.12818 6.12818 1.46634 0.26236 1.09861 0.40547 51 0.00581 6.55643 6.07425 6.18037 78 A - - , 1.38629 1.38629 1.38629 1.38629 0.00451 6.09683 6.09683 1.46634 0.26236 1.09861 0.40547 52 0.01022 6.29796 5.35703 5.62188 79 A - - ) 1.38629 1.38629 1.38629 1.38629 0.00451 6.09683 6.09683 1.46634 0.26236 1.09861 0.40547 53 4.82883 0.06808 5.14616 2.95661 80 C - - ) 1.38629 1.38629 1.38629 1.38629 0.00451 6.09683 6.09683 1.46634 0.26236 1.09861 0.40547 54 2.05206 3.60982 2.04635 0.33510 81 U - - ) 1.38629 1.38629 1.38629 1.38629 0.00451 6.09683 6.09683 1.46634 0.26236 1.09861 0.40547 55 4.17624 1.44976 0.70955 1.35420 82 g - - ) 1.38629 1.38629 1.38629 1.38629 0.02546 6.09683 3.77729 1.46634 0.26236 1.09861 0.40547 56 1.57713 2.34364 1.12299 0.98846 83 u - - ) 1.38629 1.38629 1.38629 1.38629 0.00461 6.07598 6.07598 1.46634 0.26236 2.49906 0.08573 57 0.91090 3.50943 2.33812 0.75202 84 u - - ) 1.38629 1.38629 1.38629 1.38629 0.36397 6.07598 1.19472 1.46634 0.26236 2.49906 0.08573 58 2.20011 1.23892 0.74080 2.09739 85 g - - : 1.38629 1.38629 1.38629 1.38629 0.00330 5.71531 * 1.46634 0.26236 0.00000 * //