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
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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        *
//