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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit e6639e130c5bf50f489dd09e38a1cbc712280fff
author iuc
date Fri, 07 Apr 2023 15:03:57 +0000
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<HTML><HEAD><TITLE>fake_phix_peaks_bed_motif/ - Homer de novo Motif Results</TITLE></HEAD>
<BODY>
<H1>Homer <i>de novo</i> Motif Results (fake_phix_peaks_bed_motif/)</H1>
<A HREF="knownResults.html">Known Motif Enrichment Results</A><BR/>
<A HREF="geneOntology.html">Gene Ontology Enrichment Results</A><BR/>
If Homer is having trouble matching a motif to a known motif, try copy/pasting the matrix file into 
<A HREF="http://www.benoslab.pitt.edu/stamp/">STAMP</A><BR/>
More information on motif finding results: <A HREF="http://biowhat.ucsd.edu/homer/">HOMER</A>
 | <A HREF="http://biowhat.ucsd.edu/homer/motif/index.html">Description of Results</A>
 | <A HREF="http://biowhat.ucsd.edu/homer/motif/practicalTips.html">Tips</A>
<BR/>
Total target sequences = 1<BR/>
Total background sequences = 4009<BR/>
<FONT color="red">* - possible false positive</FONT><BR/>
<TABLE border="1" cellpading="0" cellspacing="0">
<TR><TD>Rank</TD><TD>Motif</TD><TD>P-value</TD><TD>log P-pvalue</TD><TD>% of Targets</TD><TD>% of Background</TD>
<TD>STD(Bg STD)</TD>
<TD>Best Match/Details</TD><TD>Motif File</TD></TR>
<TR><TD>1
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</TD><TD>1e-1</TD><TD>-2.921e+00</TD><TD>100.00%</TD><TD>5.39%</TD><TD>0.0bp (71.4bp)</TD><TD>Oc/dmmpmm(Noyes_hd)/fly(0.654)<BR/><A target="_blank" HREF="homerResults/motif1.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif1.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif1.motif">motif file (matrix)</A></TD></TR>
<TR><TD>2
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</TD><TD>1e-1</TD><TD>-2.921e+00</TD><TD>100.00%</TD><TD>5.39%</TD><TD>0.0bp (83.1bp)</TD><TD>RFX1/RFX1_YPD/[](Harbison)/Yeast(0.645)<BR/><A target="_blank" HREF="homerResults/motif2.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif2.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif2.motif">motif file (matrix)</A></TD></TR>
<TR><TD>3
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</TD><TD>1e-1</TD><TD>-2.916e+00</TD><TD>100.00%</TD><TD>5.43%</TD><TD>0.0bp (65.4bp)</TD><TD>PH0015.1_Crx/Jaspar(0.629)<BR/><A target="_blank" HREF="homerResults/motif3.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif3.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif3.motif">motif file (matrix)</A></TD></TR>
<TR><TD>4
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,200,49)">C</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,227,49)">A</text>
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.700,225,34)">C</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,252,49)">A</text>
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  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.700,251,34)">T</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,277,49)">A</text>
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,275,44)">C</text>
  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,276,39)">T</text>
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</svg>
</TD><TD>1e-1</TD><TD>-2.912e+00</TD><TD>100.00%</TD><TD>5.44%</TD><TD>0.0bp (83.7bp)</TD><TD>RAV1(2)(AP2/EREBP)/Arabidopsis thaliana/AthaMap(0.661)<BR/><A target="_blank" HREF="homerResults/motif4.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif4.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif4.motif">motif file (matrix)</A></TD></TR>
<TR><TD>5
<FONT color="red">*</FONT></TD><TD><svg width="255" height="50">
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.700,2,34)">A</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,27,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,52,49)">A</text>
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,75,49)">C</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,177,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,202,49)">A</text>
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  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,201,39)">T</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.700,200,34)">G</text>
  
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,225,49)">C</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.100,225,44)">G</text>
  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,226,39)">T</text>
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</svg>
</TD><TD>1e-1</TD><TD>-2.907e+00</TD><TD>100.00%</TD><TD>5.48%</TD><TD>0.0bp (75.6bp)</TD><TD>SNRNP70K(RRM)/Drosophila_melanogaster-RNCMPT00143-PBM/HughesRNA(0.785)<BR/><A target="_blank" HREF="homerResults/motif5.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif5.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif5.motif">motif file (matrix)</A></TD></TR>
<TR><TD>6
<FONT color="red">*</FONT></TD><TD><svg width="255" height="50">
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,0,44)">C</text>
  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,1,39)">T</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.700,0,34)">G</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,27,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,52,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,77,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,102,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,127,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,152,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,177,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,202,49)">A</text>
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.700,200,34)">C</text>
  
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,225,49)">C</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.100,225,44)">G</text>
  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,226,39)">T</text>
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</svg>
</TD><TD>1e-1</TD><TD>-2.907e+00</TD><TD>100.00%</TD><TD>5.49%</TD><TD>0.0bp (83.3bp)</TD><TD>DEL1(E2FDP)/colamp-DEL1-DAP-Seq(GSE60143)/Homer(0.657)<BR/><A target="_blank" HREF="homerResults/motif6.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif6.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif6.motif">motif file (matrix)</A></TD></TR>
<TR><TD>7
<FONT color="red">*</FONT></TD><TD><svg width="205" height="50">
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  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,1,39)">T</text>
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.700,0,34)">C</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,27,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,52,49)">A</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,77,49)">A</text>
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,100,49)">C</text>
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  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,125,49)">C</text>
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  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,152,49)">A</text>
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  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.700,151,34)">T</text>
  
  <text fill="#00BB00" x="0" y="0"  transform="matrix(0.53,0,0,0.100,177,49)">A</text>
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,175,44)">C</text>
  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,176,39)">T</text>
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 </g>
</svg>
</TD><TD>1e-1</TD><TD>-2.898e+00</TD><TD>100.00%</TD><TD>5.53%</TD><TD>0.0bp (70.2bp)</TD><TD>HNRNPA1L2(RRM)/Homo_sapiens-RNCMPT00023-PBM/HughesRNA(0.812)<BR/><A target="_blank" HREF="homerResults/motif7.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif7.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif7.motif">motif file (matrix)</A></TD></TR>
<TR><TD>8
<FONT color="red">*</FONT></TD><TD><svg width="205" height="50">
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  <text fill="#DD0000" x="0" y="0"  transform="matrix(0.65,0,0,0.100,1,39)">T</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.700,0,34)">G</text>
  
  <text fill="#0000EE" x="0" y="0"  transform="matrix(0.59,0,0,0.100,25,49)">C</text>
  <text fill="#F9A500" x="0" y="0"  transform="matrix(0.55,0,0,0.100,25,44)">G</text>
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</TD><TD>1e-1</TD><TD>-2.889e+00</TD><TD>100.00%</TD><TD>5.58%</TD><TD>0.0bp (78.0bp)</TD><TD>AGL42/MA1201.1/Jaspar(0.903)<BR/><A target="_blank" HREF="homerResults/motif8.info.html">More Information</A> | <A target="blank" HREF="homerResults/motif8.similar.html">Similar Motifs Found</A></TD><TD><A target="_blank" HREF="homerResults/motif8.motif">motif file (matrix)</A></TD></TR>
</TABLE>
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