diff test-data/tRNA.hmm @ 0:159092b83639 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 04:29:03 -0400
parents
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/tRNA.hmm	Fri Oct 20 04:29:03 2017 -0400
@@ -0,0 +1,238 @@
+HMMER3/f [i1.1 | October 2013]
+NAME  tRNA
+ACC   RF00005
+LENG  71
+MAXL  253
+ALPH  RNA
+RF    no
+MM    no
+CONS  yes
+CS    yes
+MAP   yes
+DATE  Tue Mar 18 15:30:04 2014
+COM   [1] /nfs/production/xfam/rfam/software/bin/cmbuild -F CM SEED
+NSEQ  954
+EFFN  559.992432
+CKSUM 1403477983
+STATS LOCAL MSV       -9.0828  0.73401
+STATS LOCAL VITERBI   -9.6771  0.73401
+STATS LOCAL FORWARD   -2.6167  0.73401
+HMM          A        C        G        U   
+            m->m     m->i     m->d     i->m     i->i     d->m     d->d
+  COMPO   1.34376  1.54626  1.34829  1.32272
+          1.38629  1.38629  1.38629  1.38629
+          0.01089  9.16555  4.53501  1.46634  0.26236  0.00000        *
+      1   1.77738  2.48413  0.40741  2.49918      1 G - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.15487  9.15487  1.46634  0.26236  0.01931  3.95671
+      2   1.70723  1.28195  0.88318  2.05828      2 g - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      3   1.16771  1.50075  1.31207  1.62608      3 a - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      4   1.45971  1.75541  0.94997  1.56969      4 g - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      5   0.99705  1.64839  1.41564  1.63013      5 a - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      6   1.62605  1.74147  1.35530  0.99381      6 u - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      7   0.91594  3.16623  1.01357  1.63590      7 a - - (
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+      8   2.66516  4.88171  3.01992  0.13465      8 U - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.03342  3.68933  4.84310  0.00835  4.78975  1.09861  0.40547
+      9   0.58939  3.25595  1.00776  3.17602     10 A - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.02924  3.55044  9.15774  0.00733  4.92001  0.02619  3.65549
+     10   2.41169  2.38509  0.28093  2.76190     12 G - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     11   3.26023  0.54810  2.54667  1.18668     13 C - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     12   2.15431  1.47701  1.82444  0.70443     14 u - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     13   1.60140  1.50019  1.39889  1.11344     15 u - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00210  9.16555  6.21942  1.46634  0.26236  1.09861  0.40547
+     14   0.13193  5.26257  3.22617  2.54198     16 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00916  9.16366  4.70900  1.46634  0.26236  3.04606  0.04871
+     15   0.89567  3.14554  0.79030  2.35479     17 g - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.17992  9.15472  1.80452  1.46634  0.26236  4.66400  0.00947
+     16   1.81826  1.59646  3.52093  0.50169     18 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.48849  1.02501  3.58788  0.29781  1.35652  0.17366  1.83622
+     17   2.18421  3.21803  0.23359  2.88757     22 G - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.01313  9.11400  4.34765  1.46634  0.26236  6.18099  0.00207
+     18   2.72437  3.05446  0.23471  2.33861     23 G - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.16612  9.10109  1.87766  1.46634  0.26236  6.39686  0.00167
+     19   2.54081  1.97700  3.62026  0.27980     24 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.84547  0.56328  6.64183  0.37133  1.17060  0.01129  4.48982
+     20   0.20389  3.95681  2.45766  2.52965     28 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16251  9.16251  1.46634  0.26236  0.06450  2.77317
+     21   0.67070  3.60549  1.12770  1.98271     29 A - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00101  9.16555  7.00724  1.46634  0.26236  1.09861  0.40547
+     22   0.74509  1.80409  1.36106  2.26054     30 a - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16475  9.16475  1.46634  0.26236  0.20786  1.67302
+     23   1.27379  2.51619  0.51274  3.20372     31 G - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     24   2.96340  0.43847  2.29770  1.59531     32 C - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.01002  9.16555  4.61878  1.46634  0.26236  1.09861  0.40547
+     25   0.88499  3.59117  0.81932  2.12876     33 g - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.02263  3.80472  9.15574  0.00946  4.66544  0.02098  3.87461
+     26   1.75309  1.15243  1.97170  0.98974     35 u - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00979  4.64168  9.16555  0.02155  3.84793  1.09861  0.40547
+     27   1.85437  0.99657  2.35852  0.96826     37 u - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     28   1.30168  2.18037  0.98968  1.41375     38 g - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00102  9.16555  6.99298  1.46634  0.26236  1.09861  0.40547
+     29   1.80997  1.88357  0.43335  3.32526     39 G - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00088  9.16474  7.15852  1.46634  0.26236  0.20520  1.68462
+     30   0.90900  1.72612  1.56959  1.55605     40 a - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16488  9.16488  1.46634  0.26236  0.23822  1.55130
+     31   3.65408  0.50544  4.76325  1.01518     41 C - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.01205  4.43341  9.16555  0.01752  4.05299  1.09861  0.40547
+     32   9.00018  3.83708  9.65323  0.02198     43 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     33   2.93223  1.86700  1.05683  0.81063     44 u - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     34   1.20540  1.40761  1.57657  1.39023     45 a - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     35   1.01944  1.69593  1.76006  1.25969     46 a - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     36   0.22981  5.66672  1.63533  4.96602     47 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     37   0.31894  1.97853  3.29279  2.32632     48 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     38   1.75705  1.68372  1.51619  0.86224     49 u - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     39   3.69794  0.50242  1.84119  1.55337     50 C - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     40   1.42184  0.98012  2.20563  1.29725     51 c - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     41   1.07286  2.55525  0.94794  1.64632     52 g - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.01512  4.62725  5.25418  0.02125  3.86212  1.09861  0.40547
+     42   1.07209  2.65235  1.14499  1.31306     54 a - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16042  9.16042  1.46634  0.26236  0.03925  3.25747
+     43   0.80151  1.95751  2.49068  1.11692     55 a - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.00354  9.16555  5.67532  1.46634  0.26236  1.09861  0.40547
+     44   1.18719  3.11026  0.79210  1.62231     56 g - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.35483  1.22280  5.44788  2.52888  0.08311  0.05920  2.85628
+     45   0.94160  3.32903  0.90358  1.77754     81 g - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.48754  0.95525  6.76795  0.05391  2.94730  0.04759  3.06879
+     46   2.80272  0.69545  2.93113  0.94890     85 c - - ,
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16451  9.16451  1.46634  0.26236  0.16775  1.86801
+     47   1.22469  2.17415  0.63431  2.77834     86 G - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     48   1.42620  1.32668  1.62225  1.21413     87 u - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     49   1.18971  2.17674  0.87232  1.80607     88 g - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.01813  4.16800  5.99901  0.01345  4.31515  1.09861  0.40547
+     50   1.54892  3.64681  0.35215  2.84261     90 G - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.05447  9.16317  2.93921  1.46634  0.26236  3.24748  0.03965
+     51   2.91904  3.69075  0.10557  3.85142     91 G - - <
+          1.38629  1.38629  1.38629  1.38629
+          0.01926  9.10892  3.96541  1.46634  0.26236  0.47025  0.98042
+     52   2.58713  3.30063  4.12158  0.13733     92 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.01335  4.33098  9.12642  0.01645  4.11544  0.02336  3.76823
+     53   2.73380  3.55136  3.10063  0.14929     94 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00117  9.16487  6.84764  1.46634  0.26236  0.23519  1.56264
+     54   1.91909  0.28976  3.93473  2.46202     95 C - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.00089  9.16459  7.15486  1.46634  0.26236  2.49712  0.08591
+     55   0.86370  3.18439  0.73315  2.87167     96 g - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.02538  3.85434  5.55452  0.00986  4.62431  0.11370  2.23049
+     56   0.10751  3.36842  3.61643  3.20375     98 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.02690  9.16179  3.63288  1.46634  0.26236  3.66212  0.02601
+     57   0.67201  2.24039  1.88732  1.46350     99 A - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.10924  3.26538  2.72866  0.25713  1.48400  3.15055  0.04377
+     58   3.03220  2.08118  4.58750  0.20232    102 U - - _
+          1.38629  1.38629  1.38629  1.38629
+          0.02872  9.06899  3.56869  1.46634  0.26236  0.44699  1.02041
+     59   3.62885  0.09251  4.76246  2.93245    103 C - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00022  9.10519  9.10519  1.46634  0.26236  0.04490  3.12561
+     60   2.82384  0.36562  3.60560  1.51557    104 C - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16317  9.16317  1.46634  0.26236  0.08093  2.55433
+     61   1.98165  0.93537  2.03138  1.08305    105 c - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     62   1.41052  1.88381  1.22158  1.17374    106 u - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.01727  4.07376  9.16555  0.01225  4.40843  1.09861  0.40547
+     63   2.92352  0.85192  2.12328  0.91624    108 c - - >
+          1.38629  1.38629  1.38629  1.38629
+          0.01067  4.63067  7.04730  0.02132  3.85875  1.09861  0.40547
+     64   1.64302  1.08197  3.15743  0.85533    110 u - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16479  9.16479  1.46634  0.26236  0.21550  1.64060
+     65   1.19333  1.55287  1.48082  1.35596    111 a - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     66   1.77201  1.52940  1.50476  0.93835    112 u - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     67   1.68524  1.08580  1.59640  1.29337    113 c - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     68   1.70095  1.44882  1.44666  1.05760    114 u - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     69   2.07909  0.95836  1.28069  1.54370    115 c - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.00021  9.16555  9.16555  1.46634  0.26236  1.09861  0.40547
+     70   2.48394  0.54896  2.55295  1.34252    116 C - - )
+          1.38629  1.38629  1.38629  1.38629
+          0.02417  9.16555  3.73919  1.46634  0.26236  1.09861  0.40547
+     71   0.68084  2.78597  1.26674  1.89452    118 A - - :
+          1.38629  1.38629  1.38629  1.38629
+          0.00011  9.14149        *  1.46634  0.26236  0.00000        *
+//