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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit 16a919905f336e34e237388c1921d0f4f8a368af
author iuc
date Thu, 06 Apr 2023 16:24:36 +0000
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<HTML><HEAD><TITLE>Motif 8</TITLE></HEAD>
<H2>Information for 5-GATGATGC (Motif 8)</H2>
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<TABLE border="1" cellpading="0" cellspacing="0">
<TR><TD>p-value:</TD><TD>1e-1</TD></TR>
<TR><TD>log p-value:</TD><TD>-2.889e+00</TD></TR>
<TR><TD>Information Content per bp:</TD><TD>1.530</TD></TR>
<TR><TD>Number of Target Sequences with motif</TD><TD>1.0</TD></TR>
<TR><TD>Percentage of Target Sequences with motif</TD><TD>100.00%</TD></TR>
<TR><TD>Number of Background Sequences with motif</TD><TD>223.5</TD></TR>
<TR><TD>Percentage of Background Sequences with motif</TD><TD>5.58%</TD></TR>
<TR><TD>Average Position of motif in Targets</TD><TD>117.0 +/- 0.0bp</TD></TR>
<TR><TD>Average Position of motif in Background</TD><TD>93.3 +/- 78.0bp</TD></TR>
<TR><TD>Strand Bias (log2 ratio + to - strand density)</TD><TD>10.0</TD></TR>
<TR><TD>Multiplicity (# of sites on avg that occur together)</TD><TD>1.00</TD></TR>
<TR><TD>Motif File:</TD><TD><A target="_blank" HREF="motif8.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif8RV.motif">reverse opposite</A></TD></TR>
<TR><TD>SVG Files for Logos:</TD><TD><A HREF="motif8.logo.svg">forward logo</A><BR/><A HREF="motif8RV.logo.svg">reverse opposite</A></TD></TR>
</TABLE>
<H3>Matches to Known Motifs</H3>
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<TR><TD>
<H4>AGL42/MA1201.1/Jaspar</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>1</TD></TR>
<TR><TD>Score:</TD><TD>0.90</TD</TR>
<TR><TD>Offset:</TD><TD>0</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC</FONT><BR><FONT face="courier">GATGATG-</FONT></TD></TR></TABLE>
</TD><TD>
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<TR><TD>
<H4>RBM47(RRM)/Gallus_gallus-RNCMPT00279-PBM/HughesRNA</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>2</TD></TR>
<TR><TD>Score:</TD><TD>0.83</TD</TR>
<TR><TD>Offset:</TD><TD>0</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC</FONT><BR><FONT face="courier">GATGATN-</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>RIN(RRM)/Drosophila_melanogaster-RNCMPT00138-PBM/HughesRNA</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>3</TD></TR>
<TR><TD>Score:</TD><TD>0.83</TD</TR>
<TR><TD>Offset:</TD><TD>-1</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">-GATGATGC</FONT><BR><FONT face="courier">AGATGATG-</FONT></TD></TR></TABLE>
</TD><TD>
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<TR><TD>
<H4>ZML2(C2C2gata)/col-ZML2-DAP-Seq(GSE60143)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>4</TD></TR>
<TR><TD>Score:</TD><TD>0.79</TD</TR>
<TR><TD>Offset:</TD><TD>-3</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">---GATGATGC</FONT><BR><FONT face="courier">GATGATGATG-</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>Rbm47(RRM)/Xenopus_tropicalis-RNCMPT00280-PBM/HughesRNA</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>5</TD></TR>
<TR><TD>Score:</TD><TD>0.78</TD</TR>
<TR><TD>Offset:</TD><TD>0</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC</FONT><BR><FONT face="courier">GATGATN-</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>RBP1-LIKE(RRM)/Drosophila_melanogaster-RNCMPT00127-PBM/HughesRNA</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>6</TD></TR>
<TR><TD>Score:</TD><TD>0.77</TD</TR>
<TR><TD>Offset:</TD><TD>-1</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">-GATGATGC</FONT><BR><FONT face="courier">CGTTGAT--</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>ATF4/MA0833.1/Jaspar</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>7</TD></TR>
<TR><TD>Score:</TD><TD>0.75</TD</TR>
<TR><TD>Offset:</TD><TD>-1</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">-GATGATGC----</FONT><BR><FONT face="courier">GGATGATGCAATA</FONT></TD></TR></TABLE>
</TD><TD>
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<TR><TD>
<H4>Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>8</TD></TR>
<TR><TD>Score:</TD><TD>0.74</TD</TR>
<TR><TD>Offset:</TD><TD>1</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC---</FONT><BR><FONT face="courier">-MTGATGCAAT</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>Chop(bZIP)/MEF-Chop-ChIP-Seq(GSE35681)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>9</TD></TR>
<TR><TD>Score:</TD><TD>0.73</TD</TR>
<TR><TD>Offset:</TD><TD>1</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC---</FONT><BR><FONT face="courier">-ATGATGCAAT</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>AARE(HLH)/mES-cMyc-ChIP-Seq/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>10</TD></TR>
<TR><TD>Score:</TD><TD>0.70</TD</TR>
<TR><TD>Offset:</TD><TD>2</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GATGATGC----</FONT><BR><FONT face="courier">--TGATGCAATC</FONT></TD></TR></TABLE>
</TD><TD>
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