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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 15:00:57 +0000 |
| parents | db456c398880 |
| children |
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<HTML><HEAD><TITLE>Motif 2</TITLE></HEAD> <H2>Information for 2-TGCCATCTCAAA (Motif 2)</H2> <svg width="305" height="50"> <g font-family="Arial" font-weight="bold" font-size="66.5"> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.100,2,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.100,0,44)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.100,0,39)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.700,1,34)">T</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.100,27,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.100,25,44)">C</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.100,26,39)">T</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.700,25,34)">G</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.100,52,49)">A</text> <text fill="#F9A500" x="0" y="0" 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fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.700,250,34)">C</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.100,275,49)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.100,275,44)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.100,276,39)">T</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.700,277,34)">A</text> </g> </svg> <BR> <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> </TD><TD> <svg width="355" height="50"> <g font-family="Arial" font-weight="bold" font-size="66.5"> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.25,2,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.25,0,36.5)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.25,0,24)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.25,1,11.5)">T</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.25,27,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.25,25,36.5)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.25,25,24)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.25,26,11.5)">T</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.100,52,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.100,50,44)">C</text> <text 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<H4>PB0098.1_Zfp410_1/Jaspar</H4> <TABLE><TR><TD> <TABLE> <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> </TD><TD> <svg width="430" height="50"> <g font-family="Arial" font-weight="bold" font-size="66.5"> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.25,2,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.25,0,36.5)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.25,0,24)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.25,1,11.5)">T</text> <text fill="#00BB00" x="0" y="0" transform="matrix(0.53,0,0,0.25,27,49)">A</text> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.25,25,36.5)">C</text> <text fill="#F9A500" x="0" y="0" 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