Mercurial > repos > iuc > homer_gtf_to_annotations
comparison 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 |
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date | Sun, 08 Aug 2021 11:04:17 +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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132 </svg> | |
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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312 </TD></TR></TABLE> | |
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> | |
323 </TD><TD> | |
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455 </TD></TR></TABLE> | |
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> | |
466 </TD><TD> | |
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608 </TD></TR></TABLE> | |
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> | |
619 </TD><TD> | |
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761 </TD></TR></TABLE> | |
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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914 </TD></TR></TABLE> | |
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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1107 </TD></TR></TABLE> | |
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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1250 </TD></TR></TABLE> | |
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> | |
1261 </TD><TD> | |
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1433 </TD></TR></TABLE> | |
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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1615 | |
1616 </TD></TR></TABLE> | |
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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