Mercurial > repos > iuc > meme_meme

annotate test-data/streme_output_test2.txt @ 20:faa378fa0c81 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
author iuc
date Mon, 14 Jul 2025 21:33:26 +0000
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20
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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1 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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2 STREME - Sensitive, Thorough, Rapid, Enriched Motif Elicitation
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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3 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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4 MEME version 5.5.8 (Release date: Thu May 15 15:01:46 2025 -0700)
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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5
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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6 For further information on how to interpret these results please access https://meme-suite.org/meme.
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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7 To get a copy of the MEME Suite software please access https://meme-suite.org.
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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8
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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9 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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11
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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12 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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13 REFERENCE
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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14 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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15 If you use this program in your research, please cite:
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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17 Timothy L. Bailey,
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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18 "STREME: accurate and versatile sequence motif discovery",
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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19 Bioinformatics, Mar. 24, 2021.
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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20 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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21
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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23 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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24 ALPHABET "DNA with covalent modifications" DNA-LIKE
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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25 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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26 A "Adenine" 8510A8 ~ T "Thymine" A89610
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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27 C "Cytosine" A50026 ~ G "Guanine" 313695
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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28 a "N6-methyladenine" 8510A8 ~ t "Thymine_lowercase" 756BB1
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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29 c "5-Carboxylcytosine" FEE090 ~ 4 "Guanine:5-Carboxylcytosine" E0F3F8
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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30 f "5-Formylcytosine" FDAE61 ~ 3 "Guanine:5-Formylcytosine" ABD9E9
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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31 g "modified_g" 00897B ~ 5 "cytosine_lowercase" 53698A
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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32 h "5-Hydroxymethylcytosine" F46D43 ~ 2 "Guanine:5-Hydroxymethylcytosine" 74ADD1
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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33 m "5-Methylcytosine" D73027 ~ 1 "Guanine:5-Methylcytosine" 4575B4
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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34 ? = ACGTacfghmt12345
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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35 ********************************************************************************
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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36
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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37 strands: + -
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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38
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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39 Background letter frequencies
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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40 A 0.218 C 0.24 G 0.24 T 0.218 a 0.0266 c 0.0125 f 1.96e-05 g 0.00315 h 1.96e-05 m 1.96e-05 t 0.0266 1 1.96e-05 2 1.96e-05 3 1.96e-05 4 0.0125 5 0.00315
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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41
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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42 MOTIF 1-GTATAAAAGC STREME-1
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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43 letter-probability matrix: alength= 16 w= 10 nsites= 28 S= 7.0e-014
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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44 0.344606 0.001172 0.618858 0.034950 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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45 0.001065 0.001172 0.001172 0.996177 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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46 0.996177 0.001172 0.001172 0.001065 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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47 0.001065 0.001172 0.001172 0.996177 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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48 0.996177 0.001172 0.001172 0.001065 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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49 0.928407 0.001172 0.035057 0.034950 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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50 0.860638 0.136711 0.001172 0.001065 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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51 0.548672 0.001172 0.313139 0.136603 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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52 0.068834 0.068941 0.725207 0.136603 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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53 0.068834 0.485705 0.308443 0.136603 0.000130 0.000061 0.000000 0.000015 0.000000 0.000000 0.000130 0.000000 0.000000 0.000000 0.000061 0.000015
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
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54
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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55 MOTIF 2-CCCACCAGA STREME-2
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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56 letter-probability matrix: alength= 16 w= 9 nsites= 20 S= 2.2e-007
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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57 0.001482 0.947685 0.048775 0.001482 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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58 0.143970 0.805197 0.048775 0.001482 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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59 0.095771 0.711962 0.143064 0.048626 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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60 0.947536 0.001631 0.048775 0.001482 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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61 0.095771 0.710908 0.191263 0.001482 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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62 0.001482 0.900540 0.001631 0.095771 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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63 0.663614 0.095920 0.096974 0.142915 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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64 0.095771 0.332697 0.569474 0.001482 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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65 0.473982 0.239462 0.143064 0.142915 0.000181 0.000085 0.000000 0.000021 0.000000 0.000000 0.000181 0.000000 0.000000 0.000000 0.000085 0.000021
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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66
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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67 MOTIF 3-4a4t4a4a4T STREME-3
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
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68 letter-probability matrix: alength= 16 w= 10 nsites= 7 S= 5.5e-003
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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69 0.004400 0.004842 0.004842 0.004400 0.140510 0.000253 0.000000 0.000064 0.000000 0.000000 0.000537 0.000000 0.000000 0.000000 0.840087 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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70 0.004400 0.004842 0.004842 0.004400 0.700399 0.000253 0.000000 0.000064 0.000000 0.000000 0.280482 0.000000 0.000000 0.000000 0.000253 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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71 0.004400 0.004842 0.004842 0.004400 0.000537 0.000253 0.000000 0.000064 0.000000 0.000000 0.000537 0.000000 0.000000 0.000000 0.980059 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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72 0.004400 0.004842 0.004842 0.004400 0.000537 0.000253 0.000000 0.000064 0.000000 0.000000 0.840371 0.000000 0.000000 0.000000 0.140226 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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73 0.004400 0.004842 0.004842 0.004400 0.000537 0.000253 0.000000 0.000064 0.000000 0.000000 0.280482 0.000000 0.000000 0.000000 0.700115 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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74 0.004400 0.004842 0.004842 0.004400 0.560427 0.000253 0.000000 0.000064 0.000000 0.000000 0.420454 0.000000 0.000000 0.000000 0.000253 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
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75 0.004400 0.004842 0.004842 0.144372 0.000537 0.000253 0.000000 0.000064 0.000000 0.000000 0.280482 0.000000 0.000000 0.000000 0.560142 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
diff changeset
76 0.004400 0.144814 0.144814 0.004400 0.420454 0.000253 0.000000 0.000064 0.000000 0.000000 0.280482 0.000000 0.000000 0.000000 0.000253 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
diff changeset
77 0.004400 0.144814 0.144814 0.144372 0.140510 0.000253 0.000000 0.000064 0.000000 0.000000 0.140510 0.000000 0.000000 0.000000 0.280198 0.000064
faa378fa0c81 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/meme commit 89ee0af6e955ff964b7984d77ad536e0a9154278
iuc
parents:
diff changeset
78 0.004400 0.144814 0.004842 0.284344 0.280482 0.000253 0.000000 0.000064 0.000000 0.000000 0.000537 0.000000 0.000000 0.000000 0.280198 0.000064