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comparison test-data/motif_test1/homerResults/motif2.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 2</TITLE></HEAD>
2 <H2>Information for 2-TGCCATCTCAAA (Motif 2)</H2>
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68 <BR>
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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>-2.921e+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>216.2</TD></TR>
141 <TR><TD>Percentage of Background Sequences with motif</TD><TD>5.39%</TD></TR>
142 <TR><TD>Average Position of motif in Targets</TD><TD>146.0 +/- 0.0bp</TD></TR>
143 <TR><TD>Average Position of motif in Background</TD><TD>105.7 +/- 83.1bp</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="motif2.motif">file (matrix)</A><BR/><A target="_blank" HREF="motif2RV.motif">reverse opposite</A></TD></TR>
147 <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>
148 </TABLE>
149 <H3>Matches to Known Motifs</H3>
150 <TABLE border="1" cellpading="0" cellspacing="0">
151 <TR><TD>
152 <H4>RFX1/RFX1_YPD/[](Harbison)/Yeast</H4>
153 <TABLE><TR><TD>
154 <TABLE>
155 <TR><TD>Match Rank:</TD><TD>1</TD></TR>
156 <TR><TD>Score:</TD><TD>0.64</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">--TGCCATCTCAAA</FONT><BR><FONT face="courier">GTTGCCATGGCAA-</FONT></TD></TR></TABLE>
160 </TD><TD>
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313 </TD></TR>
314 <TR><TD>
315 <H4>HIC1(Zf)/Treg-ZBTB29-ChIP-Seq(GSE99889)/Homer</H4>
316 <TABLE><TR><TD>
317 <TABLE>
318 <TR><TD>Match Rank:</TD><TD>2</TD></TR>
319 <TR><TD>Score:</TD><TD>0.64</TD</TR>
320 <TR><TD>Offset:</TD><TD>0</TD</TR>
321 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
322 <TR><TD>Alignment:</TD><TD><FONT face="courier">TGCCATCTCAAA</FONT><BR><FONT face="courier">TGCCAGCB----</FONT></TD></TR></TABLE>
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456 </TD></TR>
457 <TR><TD>
458 <H4>O2/MA1417.1/Jaspar</H4>
459 <TABLE><TR><TD>
460 <TABLE>
461 <TR><TD>Match Rank:</TD><TD>3</TD></TR>
462 <TR><TD>Score:</TD><TD>0.63</TD</TR>
463 <TR><TD>Offset:</TD><TD>-1</TD</TR>
464 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
465 <TR><TD>Alignment:</TD><TD><FONT face="courier">-TGCCATCTCAAA</FONT><BR><FONT face="courier">GTGCCACGTCATC</FONT></TD></TR></TABLE>
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609 </TD></TR>
610 <TR><TD>
611 <H4>Hic1/MA0739.1/Jaspar</H4>
612 <TABLE><TR><TD>
613 <TABLE>
614 <TR><TD>Match Rank:</TD><TD>4</TD></TR>
615 <TR><TD>Score:</TD><TD>0.63</TD</TR>
616 <TR><TD>Offset:</TD><TD>-1</TD</TR>
617 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
618 <TR><TD>Alignment:</TD><TD><FONT face="courier">-TGCCATCTCAAA</FONT><BR><FONT face="courier">ATGCCAACC----</FONT></TD></TR></TABLE>
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762 </TD></TR>
763 <TR><TD>
764 <H4>exd/dmmpmm(Noyes_hd)/fly</H4>
765 <TABLE><TR><TD>
766 <TABLE>
767 <TR><TD>Match Rank:</TD><TD>5</TD></TR>
768 <TR><TD>Score:</TD><TD>0.62</TD</TR>
769 <TR><TD>Offset:</TD><TD>3</TD</TR>
770 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
771 <TR><TD>Alignment:</TD><TD><FONT face="courier">TGCCATCTCAAA-</FONT><BR><FONT face="courier">---NTTGTCAAAN</FONT></TD></TR></TABLE>
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915 </TD></TR>
916 <TR><TD>
917 <H4>PB0098.1_Zfp410_1/Jaspar</H4>
918 <TABLE><TR><TD>
919 <TABLE>
920 <TR><TD>Match Rank:</TD><TD>6</TD></TR>
921 <TR><TD>Score:</TD><TD>0.61</TD</TR>
922 <TR><TD>Offset:</TD><TD>-2</TD</TR>
923 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
924 <TR><TD>Alignment:</TD><TD><FONT face="courier">--TGCCATCTCAAA---</FONT><BR><FONT face="courier">NNNTCCATCCCATAANN</FONT></TD></TR></TABLE>
925 </TD><TD>
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1108 </TD></TR>
1109 <TR><TD>
1110 <H4>Tgif2(Homeobox)/mES-Tgif2-ChIP-Seq(GSE55404)/Homer</H4>
1111 <TABLE><TR><TD>
1112 <TABLE>
1113 <TR><TD>Match Rank:</TD><TD>7</TD></TR>
1114 <TR><TD>Score:</TD><TD>0.60</TD</TR>
1115 <TR><TD>Offset:</TD><TD>0</TD</TR>
1116 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1117 <TR><TD>Alignment:</TD><TD><FONT face="courier">TGCCATCTCAAA</FONT><BR><FONT face="courier">TGTCANYT----</FONT></TD></TR></TABLE>
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1251 </TD></TR>
1252 <TR><TD>
1253 <H4>NF1:FOXA1(CTF,Forkhead)/LNCAP-FOXA1-ChIP-Seq(GSE27824)/Homer</H4>
1254 <TABLE><TR><TD>
1255 <TABLE>
1256 <TR><TD>Match Rank:</TD><TD>8</TD></TR>
1257 <TR><TD>Score:</TD><TD>0.60</TD</TR>
1258 <TR><TD>Offset:</TD><TD>0</TD</TR>
1259 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
1260 <TR><TD>Alignment:</TD><TD><FONT face="courier">TGCCATCTCAAA----</FONT><BR><FONT face="courier">TGCCAAAATAAACANN</FONT></TD></TR></TABLE>
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1434 </TD></TR>
1435 <TR><TD>
1436 <H4>PB0029.1_Hic1_1/Jaspar</H4>
1437 <TABLE><TR><TD>
1438 <TABLE>
1439 <TR><TD>Match Rank:</TD><TD>9</TD></TR>
1440 <TR><TD>Score:</TD><TD>0.59</TD</TR>
1441 <TR><TD>Offset:</TD><TD>-4</TD</TR>
1442 <TR><TD>Orientation:</TD><TD>forward strand</TD></TR>
1443 <TR><TD>Alignment:</TD><TD><FONT face="courier">----TGCCATCTCAAA</FONT><BR><FONT face="courier">ACTATGCCAACCTACC</FONT></TD></TR></TABLE>
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1617 </TD></TR>
1618 <TR><TD>
1619 <H4>RFX1(MacIsaac)/Yeast</H4>
1620 <TABLE><TR><TD>
1621 <TABLE>
1622 <TR><TD>Match Rank:</TD><TD>10</TD></TR>
1623 <TR><TD>Score:</TD><TD>0.59</TD</TR>
1624 <TR><TD>Offset:</TD><TD>-2</TD</TR>
1625 <TR><TD>Orientation:</TD><TD>reverse strand</TD></TR>
1626 <TR><TD>Alignment:</TD><TD><FONT face="courier">--TGCCATCTCAAA</FONT><BR><FONT face="courier">GTTGCCATGGCAAC</FONT></TD></TR></TABLE>
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