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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
author earlhaminst
date Fri, 11 Nov 2016 07:03:25 -0500
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05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
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3 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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4 miranda v3.3a microRNA Target Scanning Algorithm
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5 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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6 (c) 2003 Memorial Sloan-Kettering Cancer Center, New York
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8 Authors: Anton Enright, Bino John, Chris Sander and Debora Marks
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9 (mirnatargets (at) cbio.mskcc.org - reaches all authors)
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11 Software written by: Anton Enright
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12 Distributed for anyone to use under the GNU Public License (GPL),
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13 See the files 'COPYING' and 'LICENSE' for details
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15 If you use this software please cite:
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16 Enright AJ, John B, Gaul U, Tuschl T, Sander C and Marks DS;
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17 (2003) Genome Biology; 5(1):R1.
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19 miranda comes with ABSOLUTELY NO WARRANTY;
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20 This is free software, and you are welcome to redistribute it
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21 under certain conditions; type `miranda --license' for details.
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23 Current Settings:
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24 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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25 Query Filename: /tmp/tmpCIUFbf/files/000/dataset_109.dat
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26 Reference Filename: /tmp/tmpCIUFbf/files/000/dataset_110.dat
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27 Gap Open Penalty: -9.000000
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28 Gap Extend Penalty: -4.000000
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29 Score Threshold: 140.000000
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30 Energy Threshold: 1.000000 kcal/mol
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31 Scaling Parameter: 4.000000
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32 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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33 Read Sequence:gi|29565487|emb|AJ550546.1| Drosophila melanogaster microRNA miR-bantam(21 nt)
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34 Read Sequence:gi|945100|gb|U31226.1|DMU31226 Drosophila melanogaster head involution defective protein (hid) mRNA, complete cds (3'UTR only)(3902 nt)
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35 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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36 Performing Scan: gi|29565487|emb|AJ550546.1| vs gi|945100|gb|U31226.1|DMU31226
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37 =-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
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39 Forward: Score: 167.000000 Q:2 to 20 R:3340 to 3360 Align Len (18) (83.33%) (94.44%)
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41 Query: 3' gtCGAAAGTTTTACTAGAGTg 5'
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42 |:||||| |||||||||:
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43 Ref: 5' taGTTTTCACAATGATCTCGg 3'
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45 Energy: -24.540001 kCal/Mol
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47 Scores for this hit:
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48 >gi|29565487|emb|AJ550546.1| gi|945100|gb|U31226.1|DMU31226 167.00 -24.54 2 20 3340 3360 18 83.33% 94.44%
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51 Forward: Score: 156.000000 Q:2 to 17 R:2505 to 2525 Align Len (15) (86.67%) (93.33%)
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53 Query: 3' gtcgaAAGTTTTACTAGAGTg 5'
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54 |||||| ||:|||||
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55 Ref: 5' tcataTTCAAATTGGTCTCAc 3'
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57 Energy: -20.030001 kCal/Mol
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59 Scores for this hit:
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60 >gi|29565487|emb|AJ550546.1| gi|945100|gb|U31226.1|DMU31226 156.00 -20.03 2 17 2505 2525 15 86.67% 93.33%
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63 Forward: Score: 155.000000 Q:2 to 16 R:2852 to 2872 Align Len (14) (78.57%) (85.71%)
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65 Query: 3' gtcgaaAGTTTTACTAGAGTg 5'
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66 ||: | ||||||||
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67 Ref: 5' caaaaaTCGCATTGATCTCAt 3'
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69 Energy: -14.570000 kCal/Mol
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71 Scores for this hit:
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72 >gi|29565487|emb|AJ550546.1| gi|945100|gb|U31226.1|DMU31226 155.00 -14.57 2 16 2852 2872 14 78.57% 85.71%
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75 Forward: Score: 152.000000 Q:2 to 18 R:3820 to 3841 Align Len (17) (76.47%) (76.47%)
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77 Query: 3' gtcgAAAGT-TTTACTAGAGTg 5'
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78 | ||| | ||||||||
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79 Ref: 5' taaaTATCATTATTGATCTCAt 3'
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81 Energy: -14.180000 kCal/Mol
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earlhaminst
parents:
diff changeset
83 Scores for this hit:
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
84 >gi|29565487|emb|AJ550546.1| gi|945100|gb|U31226.1|DMU31226 152.00 -14.18 2 18 3820 3841 17 76.47% 76.47%
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
85
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
86 Score for this Scan:
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
87 Seq1,Seq2,Tot Score,Tot Energy,Max Score,Max Energy,Strand,Len1,Len2,Positions
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
88 >>gi|29565487|emb|AJ550546.1| gi|945100|gb|U31226.1|DMU31226 630.00 -73.32 167.00 -24.54 1 21 3902 3340 2505 2852 3820
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
89 Complete
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
90
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
91 Scan Complete
05bc31ccc323 planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/miranda commit e24b91d3051c422ee2a20caf8bb12f0896e2c84a-dirty
earlhaminst
parents:
diff changeset
92