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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 16:23:06 +0000 |
| parents | 8ebb6520eef4 |
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<HTML><HEAD><TITLE>Motif 4</TITLE></HEAD> <H2>Information for 4-CTCCTGAGACTG (Motif 4)</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="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.100,0,44)">G</text> <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> <text fill="#0000EE" x="0" y="0" transform="matrix(0.59,0,0,0.100,25,44)">C</text> <text fill="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.100,25,39)">G</text> <text fill="#DD0000" x="0" y="0" transform="matrix(0.65,0,0,0.700,26,34)">T</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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0.0bp</TD></TR> <TR><TD>Average Position of motif in Background</TD><TD>95.7 +/- 83.7bp</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="motif4.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif4RV.motif">reverse opposite</A></TD></TR> <TR><TD>SVG Files for Logos:</TD><TD><A HREF="motif4.logo.svg">forward logo</A><BR/><A HREF="motif4RV.logo.svg">reverse opposite</A></TD></TR> </TABLE> <H3>Matches to Known Motifs</H3> <TABLE border="1" cellpading="0" cellspacing="0"> <TR><TD> <H4>RAV1(2)(AP2/EREBP)/Arabidopsis thaliana/AthaMap</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>-2</TD</TR> <TR><TD>Orientation:</TD><TD>forward strand</TD></TR> <TR><TD>Alignment:</TD><TD><FONT face="courier">--CTCCTGAGACTG</FONT><BR><FONT face="courier">ATCACCTGAGGC--</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="#F9A500" x="0" y="0" transform="matrix(0.55,0,0,0.100,50,44)">G</text> <text 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