view test-data/motif_test1/homerResults/motif6.info.html @ 2:35dc2f57d755 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit 186b72f369eb2a11d92f4d63cac2e8ebe386b9bd"
author iuc
date Mon, 13 Dec 2021 15:16:02 +0000
parents adab852c8216
children
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<HTML><HEAD><TITLE>Motif 6</TITLE></HEAD>
<H2>Information for 3-GTTGCTGCCA (Motif 6)</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>-2.907e+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>219.9</TD></TR>
<TR><TD>Percentage of Background Sequences with motif</TD><TD>5.49%</TD></TR>
<TR><TD>Average Position of motif in Targets</TD><TD>140.0 +/- 0.0bp</TD></TR>
<TR><TD>Average Position of motif in Background</TD><TD>103.4 +/- 83.3bp</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="motif6.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif6RV.motif">reverse opposite</A></TD></TR>
<TR><TD>SVG Files for Logos:</TD><TD><A HREF="motif6.logo.svg">forward logo</A><BR/><A HREF="motif6RV.logo.svg">reverse opposite</A></TD></TR>
</TABLE>
<H3>Matches to Known Motifs</H3>
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<TR><TD>
<H4>DEL1(E2FDP)/colamp-DEL1-DAP-Seq(GSE60143)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>1</TD></TR>
<TR><TD>Score:</TD><TD>0.66</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">GTTGCTGCCA-</FONT><BR><FONT face="courier">-TTCCCGCCAA</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>2</TD></TR>
<TR><TD>Score:</TD><TD>0.65</TD</TR>
<TR><TD>Offset:</TD><TD>4</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GTTGCTGCCA--</FONT><BR><FONT face="courier">----TTGCCAAG</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>HIC1(Zf)/Treg-ZBTB29-ChIP-Seq(GSE99889)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>3</TD></TR>
<TR><TD>Score:</TD><TD>0.65</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">GTTGCTGCCA</FONT><BR><FONT face="courier">--VGCTGGCA</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>4</TD></TR>
<TR><TD>Score:</TD><TD>0.65</TD</TR>
<TR><TD>Offset:</TD><TD>-4</TD</TR>
<TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">----GTTGCTGCCA-</FONT><BR><FONT face="courier">AGATGCTRCTRCCHT</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR>
<TR><TD>
<H4>NFIX/MA0671.1/Jaspar</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>5</TD></TR>
<TR><TD>Score:</TD><TD>0.64</TD</TR>
<TR><TD>Offset:</TD><TD>3</TD</TR>
<TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
<TR><TD>Alignment:</TD><TD><FONT face="courier">GTTGCTGCCA--</FONT><BR><FONT face="courier">---CGTGCCAAG</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>Aef1/dmmpmm(Pollard)/fly</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>6</TD></TR>
<TR><TD>Score:</TD><TD>0.63</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">-GTTGCTGCCA</FONT><BR><FONT face="courier">TGTTGTTG---</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>SUM1(MacIsaac)/Yeast</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>7</TD></TR>
<TR><TD>Score:</TD><TD>0.63</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">-GTTGCTGCCA---</FONT><BR><FONT face="courier">ATTTACTGACGCNT</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>8</TD></TR>
<TR><TD>Score:</TD><TD>0.63</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">GTTGCTGCCA--</FONT><BR><FONT face="courier">GGTGYTGACAGS</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>Unknown3/Drosophila-Promoters/Homer</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>9</TD></TR>
<TR><TD>Score:</TD><TD>0.63</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">GTTGCTGCCA------</FONT><BR><FONT face="courier">-GCGCTGCCAGMTBGT</FONT></TD></TR></TABLE>
</TD><TD>
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</TD></TR></TABLE>
</TD></TR>
<TR><TD>
<H4>CRZ1(MacIsaac)/Yeast</H4>
<TABLE><TR><TD>
<TABLE>
<TR><TD>Match Rank:</TD><TD>10</TD></TR>
<TR><TD>Score:</TD><TD>0.63</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">GTTGCTGCCA</FONT><BR><FONT face="courier">GAGGCTG---</FONT></TD></TR></TABLE>
</TD><TD>
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