Mercurial > repos > iuc > homer_scanmotifgenomewide

comparison test-data/motif_test1/homerResults/motif3.info.html @ 0:db456c398880 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/homer commit 186b72f369eb2a11d92f4d63cac2e8ebe386b9bd"
author iuc
date Mon, 13 Dec 2021 15:13:33 +0000
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1 <HTML><HEAD><TITLE>Motif 3</TITLE></HEAD>
2 <H2>Information for 3-CGAGGCTAACCC (Motif 3)</H2>
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67
68 <BR>
69 Reverse Opposite:<BR/><svg width="305" height="50">
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133 <BR>
134 <TABLE border="1" cellpading="0" cellspacing="0">
135 <TR><TD>p-value:</TD><TD>1e-1</TD></TR>
136 <TR><TD>log p-value:</TD><TD>-2.916e+00</TD></TR>
137 <TR><TD>Information Content per bp:</TD><TD>1.530</TD></TR>
138 <TR><TD>Number of Target Sequences with motif</TD><TD>1.0</TD></TR>
139 <TR><TD>Percentage of Target Sequences with motif</TD><TD>100.00%</TD></TR>
140 <TR><TD>Number of Background Sequences with motif</TD><TD>217.8</TD></TR>
141 <TR><TD>Percentage of Background Sequences with motif</TD><TD>5.43%</TD></TR>
142 <TR><TD>Average Position of motif in Targets</TD><TD>91.0 +/- 0.0bp</TD></TR>
143 <TR><TD>Average Position of motif in Background</TD><TD>101.8 +/- 65.4bp</TD></TR>
144 <TR><TD>Strand Bias (log2 ratio + to - strand density)</TD><TD>10.0</TD></TR>
145 <TR><TD>Multiplicity (# of sites on avg that occur together)</TD><TD>1.00</TD></TR>
146 <TR><TD>Motif File:</TD><TD><A target="_blank" HREF="motif3.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif3RV.motif">reverse opposite</A></TD></TR>
147 <TR><TD>SVG Files for Logos:</TD><TD><A HREF="motif3.logo.svg">forward logo</A><BR/><A HREF="motif3RV.logo.svg">reverse opposite</A></TD></TR>
148 </TABLE>
149 <H3>Matches to Known Motifs</H3>
150 <TABLE border="1" cellpading="0" cellspacing="0">
151 <TR><TD>
152 <H4>PH0015.1_Crx/Jaspar</H4>
153 <TABLE><TR><TD>
154 <TABLE>
155 <TR><TD>Match Rank:</TD><TD>1</TD></TR>
156 <TR><TD>Score:</TD><TD>0.63</TD</TR>
157 <TR><TD>Offset:</TD><TD>2</TD</TR>
158 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
159 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC------</FONT><BR><FONT face="courier">--AGGCTAATCCCCAANG</FONT></TD></TR></TABLE>
160 </TD><TD>
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353 </TD></TR>
354 <TR><TD>
355 <H4>CRX(Homeobox)/Retina-Crx-ChIP-Seq(GSE20012)/Homer</H4>
356 <TABLE><TR><TD>
357 <TABLE>
358 <TR><TD>Match Rank:</TD><TD>2</TD></TR>
359 <TR><TD>Score:</TD><TD>0.62</TD</TR>
360 <TR><TD>Offset:</TD><TD>4</TD</TR>
361 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
362 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC</FONT><BR><FONT face="courier">----GCTAATCC</FONT></TD></TR></TABLE>
363 </TD><TD>
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495 </TD></TR></TABLE>
496 </TD></TR>
497 <TR><TD>
498 <H4>ttk/dmmpmm(Noyes)/fly</H4>
499 <TABLE><TR><TD>
500 <TABLE>
501 <TR><TD>Match Rank:</TD><TD>3</TD></TR>
502 <TR><TD>Score:</TD><TD>0.61</TD</TR>
503 <TR><TD>Offset:</TD><TD>0</TD</TR>
504 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
505 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC--</FONT><BR><FONT face="courier">CAAGGATAATCNAA</FONT></TD></TR></TABLE>
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659 </TD></TR>
660 <TR><TD>
661 <H4>bcd/dmmpmm(Bergman)/fly</H4>
662 <TABLE><TR><TD>
663 <TABLE>
664 <TR><TD>Match Rank:</TD><TD>4</TD></TR>
665 <TR><TD>Score:</TD><TD>0.59</TD</TR>
666 <TR><TD>Offset:</TD><TD>2</TD</TR>
667 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
668 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC-</FONT><BR><FONT face="courier">--CCNCTAATCCN</FONT></TD></TR></TABLE>
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812 </TD></TR>
813 <TR><TD>
814 <H4>bcd/dmmpmm(Noyes_hd)/fly</H4>
815 <TABLE><TR><TD>
816 <TABLE>
817 <TR><TD>Match Rank:</TD><TD>5</TD></TR>
818 <TR><TD>Score:</TD><TD>0.59</TD</TR>
819 <TR><TD>Offset:</TD><TD>3</TD</TR>
820 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
821 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC-</FONT><BR><FONT face="courier">---GGTTAATCCN</FONT></TD></TR></TABLE>
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965 </TD></TR>
966 <TR><TD>
967 <H4>HOW(KH)/Drosophila_melanogaster-RNCMPT00118-PBM/HughesRNA</H4>
968 <TABLE><TR><TD>
969 <TABLE>
970 <TR><TD>Match Rank:</TD><TD>6</TD></TR>
971 <TR><TD>Score:</TD><TD>0.59</TD</TR>
972 <TR><TD>Offset:</TD><TD>4</TD</TR>
973 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
974 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC</FONT><BR><FONT face="courier">----ACTAACA-</FONT></TD></TR></TABLE>
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1108 </TD></TR>
1109 <TR><TD>
1110 <H4>GT-1/MA1020.1/Jaspar</H4>
1111 <TABLE><TR><TD>
1112 <TABLE>
1113 <TR><TD>Match Rank:</TD><TD>7</TD></TR>
1114 <TR><TD>Score:</TD><TD>0.59</TD</TR>
1115 <TR><TD>Offset:</TD><TD>4</TD</TR>
1116 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1117 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC</FONT><BR><FONT face="courier">----GTTAACCA</FONT></TD></TR></TABLE>
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1251 </TD></TR>
1252 <TR><TD>
1253 <H4>Kr/dmmpmm(Papatsenko)/fly</H4>
1254 <TABLE><TR><TD>
1255 <TABLE>
1256 <TR><TD>Match Rank:</TD><TD>8</TD></TR>
1257 <TR><TD>Score:</TD><TD>0.58</TD</TR>
1258 <TR><TD>Offset:</TD><TD>6</TD</TR>
1259 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1260 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC---</FONT><BR><FONT face="courier">------TAACCCTTT</FONT></TD></TR></TABLE>
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1424 </TD></TR>
1425 <TR><TD>
1426 <H4>HNRNPK(KH)/Homo_sapiens-RNCMPT00026-PBM/HughesRNA</H4>
1427 <TABLE><TR><TD>
1428 <TABLE>
1429 <TR><TD>Match Rank:</TD><TD>9</TD></TR>
1430 <TR><TD>Score:</TD><TD>0.58</TD</TR>
1431 <TR><TD>Offset:</TD><TD>5</TD</TR>
1432 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1433 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC</FONT><BR><FONT face="courier">-----CCAACCC</FONT></TD></TR></TABLE>
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1566 </TD></TR></TABLE>
1567 </TD></TR>
1568 <TR><TD>
1569 <H4>bcd/dmmpmm(Papatsenko)/fly</H4>
1570 <TABLE><TR><TD>
1571 <TABLE>
1572 <TR><TD>Match Rank:</TD><TD>10</TD></TR>
1573 <TR><TD>Score:</TD><TD>0.58</TD</TR>
1574 <TR><TD>Offset:</TD><TD>4</TD</TR>
1575 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1576 <TR><TD>Alignment:</TD><TD><FONT face="courier">CGAGGCTAACCC-</FONT><BR><FONT face="courier">----CCTAATCCC</FONT></TD></TR></TABLE>
1577 </TD><TD>
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