https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?action=history&feed=atom&title=Lena%27s_Notes 2026-06-02T21:41:23Z Revision history for this page on the wiki MediaWiki 1.20.3 https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Lena%27s_Notes&diff=4062&oldid=prev 2013-10-24T17:15:45Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:15, 24 October 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 20:</td> <td colspan="2" class="diff-lineno">Line 20:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>:</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>:</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>java -jar xmlpipedb-match-1.1.1.jar &quot;VC_[0-9][0-9][0-9][0-9]&quot; &lt;uniprot-46.VC_cholerae_ATCC_39315.xml</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>java -jar xmlpipedb-match-1.1.1.jar &quot;VC_[0-9][0-9][0-9][0-9]&quot; &lt;uniprot-46.VC_cholerae_ATCC_39315.xml</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">:</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">select count (*) from genenametype where type = &#039;ordered locus&#039; and value ~ &#039;VC_(A|)[0-9][0-9][0-9][0-9]&#039;;</ins></div></td></tr> </table>

Lena https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Lena%27s_Notes&diff=4052&oldid=prev 2013-10-24T17:02:15Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 17:02, 24 October 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 15:</td> <td colspan="2" class="diff-lineno">Line 15:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:Commandline.PNG]]</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>[[Image:Commandline.PNG]]</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">vibrio cholerae id: VC_####</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">VC_[0-9][0-9][0-9][0-9]</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">:</ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">java -jar xmlpipedb-match-1.1.1.jar &quot;VC_[0-9][0-9][0-9][0-9]&quot; &lt;uniprot-46.VC_cholerae_ATCC_39315.xml</ins></div></td></tr> </table>

Lena https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Lena%27s_Notes&diff=4050&oldid=prev 2013-10-24T16:55:17Z

<p></p> <table class='diff diff-contentalign-left'> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr style='vertical-align: top;'> <td colspan='2' style="background-color: white; color:black;">← Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 16:55, 24 October 2013</td> </tr><tr><td colspan="2" class="diff-lineno">Line 13:</td> <td colspan="2" class="diff-lineno">Line 13:</td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>hairpin sequence is aaaaggt</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>hairpin sequence is aaaaggt</div></td></tr> <tr><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>you should see gcctttt, because t=u (mrna) and u binds with g</div></td><td class='diff-marker'>&#160;</td><td style="background: #eee; color:black; font-size: smaller;"><div>you should see gcctttt, because t=u (mrna) and u binds with g</div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;"></ins></div></td></tr> <tr><td colspan="2">&#160;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">[[Image:Commandline.PNG]]</ins></div></td></tr> </table>

Lena https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=Lena%27s_Notes&diff=1704&oldid=prev 2013-09-17T16:39:50Z

<p>added notes from 9/17/13</p> <p><b>New page</b></p><div>consenus sequence: codons that like code for somethin particular. <br /> <br /> brackets code for &quot;or&quot;<br /> <br /> consensus sequnce for -10 site: [ct]at[at]at<br /> <br /> -10 site could be...<br /> cataat<br /> tattat<br /> cattat<br /> tatat<br /> <br /> hairpin sequence is aaaaggt<br /> you should see gcctttt, because t=u (mrna) and u binds with g</div>

Lena