Mercurial > repos > bgruening > trna_prediction

annotate test-data/aragorn_tansl-table-1_tmRNA_tRNA.txt @ 2:358f58401cd6 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
author bgruening
date Wed, 26 Jul 2017 10:14:05 -0400
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358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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1 ------------------------------
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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2 ARAGORN v1.2.36 Dean Laslett
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3 ------------------------------
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5 Please reference the following paper if you use this
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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6 program as part of any published research.
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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8 Laslett, D. and Canback, B. (2004) ARAGORN, a
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9 program for the detection of transfer RNA and
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10 transfer-messenger RNA genes in nucleotide sequences.
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11 Nucleic Acids Research, 32;11-16.
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358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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14 Searching for tRNA genes with no introns
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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15 Searching for tmRNA genes
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16 Assuming circular topology, search wraps around ends
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17 Searching both strands
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18 Using standard genetic code
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21 gi|240255695:23036500-23037000 Arabidopsis thaliana chromosome 3, complete sequence
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22 501 nucleotides in sequence
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23 Mean G+C content = 43.1%
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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25 1.
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29 a
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30 g-c
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31 g-c
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32 g+t
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33 g-c
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34 a-t
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35 t-a
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36 g-c tt
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37 t gtccc a
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38 ta a !!!!! g
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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39 a ctcg caggg c
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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40 t !!!! a tt
358f58401cd6 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/trna_prediction commit cfb19d75629f02e0dea4475c16c016ed5510eb44
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41 g gagc c
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42 gta g g
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43 c-gag
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44 t-a
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45 c-g
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46 g-c
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47 c-g
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48 t t
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49 t a
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50 tgc
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51
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54 tRNA-Ala(tgc)
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55 73 bases, %GC = 56.2
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56 Sequence [381,453]
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60 >tRNA-Ala(tgc) [381,453]
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61 ggggatgtagctcatatggtagagcgctcgctttgcatgcgagaggcaca
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62 gggttcgattccctgcatctcca
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67 Number of tmRNA genes = 0
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70 Configuration: aragorn /tmp/tmpx1qAPk/files/000/dataset_3.dat -gc1 -m -t -c -o /tmp/tmpx1qAPk/files/000/dataset_4.dat -fasta