diff test-data/motif_test1/homerResults/motif2.info.html @ 0:8ebb6520eef4 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit e49d856e0181edc6120220a1b819cba2466a4289"
author iuc
date Sun, 08 Aug 2021 11:04:17 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
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+<HTML><HEAD><TITLE>Motif 2</TITLE></HEAD>
+<H2>Information for 2-TGCCATCTCAAA (Motif 2)</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>-2.921e+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>216.2</TD></TR>
+<TR><TD>Percentage of Background Sequences with motif</TD><TD>5.39%</TD></TR>
+<TR><TD>Average Position of motif in Targets</TD><TD>146.0 +/- 0.0bp</TD></TR>
+<TR><TD>Average Position of motif in Background</TD><TD>105.7 +/- 83.1bp</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="motif2.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif2RV.motif">reverse opposite</A></TD></TR>
+<TR><TD>SVG Files for Logos:</TD><TD><A HREF="motif2.logo.svg">forward logo</A><BR/><A HREF="motif2RV.logo.svg">reverse opposite</A></TD></TR>
+</TABLE>
+<H3>Matches to Known Motifs</H3>
+<TABLE border="1" cellpading="0" cellspacing="0">
+<TR><TD>
+<H4>RFX1/RFX1_YPD/[](Harbison)/Yeast</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>1</TD></TR>
+<TR><TD>Score:</TD><TD>0.64</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">--TGCCATCTCAAA</FONT><BR><FONT face="courier">GTTGCCATGGCAA-</FONT></TD></TR></TABLE>
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+<H4>HIC1(Zf)/Treg-ZBTB29-ChIP-Seq(GSE99889)/Homer</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>2</TD></TR>
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+<TR><TD>Offset:</TD><TD>0</TD</TR>
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+<TR><TD>
+<H4>O2/MA1417.1/Jaspar</H4>
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+<TABLE>
+<TR><TD>Match Rank:</TD><TD>3</TD></TR>
+<TR><TD>Score:</TD><TD>0.63</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">-TGCCATCTCAAA</FONT><BR><FONT face="courier">GTGCCACGTCATC</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>Hic1/MA0739.1/Jaspar</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>4</TD></TR>
+<TR><TD>Score:</TD><TD>0.63</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">-TGCCATCTCAAA</FONT><BR><FONT face="courier">ATGCCAACC----</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>exd/dmmpmm(Noyes_hd)/fly</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>5</TD></TR>
+<TR><TD>Score:</TD><TD>0.62</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">TGCCATCTCAAA-</FONT><BR><FONT face="courier">---NTTGTCAAAN</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>PB0098.1_Zfp410_1/Jaspar</H4>
+<TABLE><TR><TD>
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+<TR><TD>Match Rank:</TD><TD>6</TD></TR>
+<TR><TD>Score:</TD><TD>0.61</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">--TGCCATCTCAAA---</FONT><BR><FONT face="courier">NNNTCCATCCCATAANN</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>7</TD></TR>
+<TR><TD>Score:</TD><TD>0.60</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">TGCCATCTCAAA</FONT><BR><FONT face="courier">TGTCANYT----</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>8</TD></TR>
+<TR><TD>Score:</TD><TD>0.60</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">TGCCATCTCAAA----</FONT><BR><FONT face="courier">TGCCAAAATAAACANN</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>PB0029.1_Hic1_1/Jaspar</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>9</TD></TR>
+<TR><TD>Score:</TD><TD>0.59</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">----TGCCATCTCAAA</FONT><BR><FONT face="courier">ACTATGCCAACCTACC</FONT></TD></TR></TABLE>
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+<TR><TD>
+<H4>RFX1(MacIsaac)/Yeast</H4>
+<TABLE><TR><TD>
+<TABLE>
+<TR><TD>Match Rank:</TD><TD>10</TD></TR>
+<TR><TD>Score:</TD><TD>0.59</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">--TGCCATCTCAAA</FONT><BR><FONT face="courier">GTTGCCATGGCAAC</FONT></TD></TR></TABLE>
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