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author Jan Kanis <jan.code@jankanis.nl>
date Mon, 07 Jul 2014 11:50:50 +0200
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<!DOCTYPE html>
<html>
  <head>
    <meta charset="UTF-8">
    <meta name=generator content="blast2html; see https://github.com/thehyve/blast2html/">
    
    <title>Blast output</title>
    
    <style>
      body {
      color: #333333;
      font-family: Arial,Sans-Serif;
      }

      :link {
      color: #336699;
      }

      .right {
      float: right;
      }

      /* Galaxy with html sanitization enabled strips the header of this html page. If so, show the user a warning.*/
      #strip_html_warning {
      display: none;
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      #content {
      margin: 0 2em;
      padding: 0.5em;
      border: 1px solid #888888;
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      font-family: arial,verdana,sans-serif;
      letter-spacing: -1px;
      margin: 1.2em 0 0.3em;
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      font-size: 150%;
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      h2 {
      font-size: 120%;
      font-weight: bold;
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      .index {
      margin-bottom: 3em;
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      margin: 1.2em 1.6em;
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      .white {
      background-color: white;
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      padding: 1.5em 2%;
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      .graphicrow {
      clear: left;
      width: 100%;
      }

      .graphicitem {
      float: left;
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      .graphics .grey {
      text-align: center;
      }

      .graphic {
      background-color: white;
      border: 2px solid black;
      padding: 1.5em;
      margin: auto;
      }

      .centered, .defline, div.legend, div.tablewrapper {
      margin-left: auto;
      margin-right: auto;
      }

      .defline {
      background-color: white;
      border: 1px solid black;
      margin: .5em auto;
      padding-left: .2em;
      padding-right: .2em;
      max-width: 50em;
      text-align: left;
      height: 2.8em;
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      width: 100%;
      color: white;
      font-weight: bold;
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      pre.alignmentgraphic {
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      color: #cccccc;
      font-size: 70%;
      margin-top: 1em;
      }
      footer :link {
      color: #5588cc;
      }
      
    </style>

    <script type="text/javascript">
      function toggle_visibility(id) {
          var e = document.getElementById(id);
          if(e.style.display != 'block')
              e.style.display = 'block';
          else
              e.style.display = 'none';
      }
    </script>

  </head>

  
  <body>
    
    <div id="strip_html_warning">
      <!-- This div should be hidden by the header css block. Galaxy
      strips all css, breaking this page but making this warning
      visible. This warning contains some ugly old skool tabular html
      layout that is not stripped. -->
      <table bgcolor="#FFE5C9"><tr><td><font color="red"><b>
                <font size=5><center>This html page seems to have been stripped by Galaxy.</center></font>
                Disable Galaxy's html sanitization feature to view the full page (see <font face=monospace>sanitize_all_html</font> in your galaxy's universe_wsgi.ini), or download this page instead of viewing it in Galaxy.
      </b></font></td></tr></table>
    </div>
    
    <div id=content>


      <section class=index>
        <h1>Queries</h1>

        <div class=indexentry><a href="#match1">
            Query_1: Forward_Primer|NOST-Spec_(Genetic_ID)
            (20 letters, 2 hits)
        </a></div>
        <div class=indexentry><a href="#match2">
            Query_2: Reverse_Primer|NOST-Spec_(Genetic_ID)
            (20 letters, 0 hits)
        </a></div>
        <div class=indexentry><a href="#match3">
            Query_3: Probe|NOST-Spec_(Genetic_ID)
            (20 letters, 3 hits)
        </a></div>
        <div class=indexentry><a href="#match4">
            Query_4: Forward_Primer|QL-ELE-Bt-F1(mod)/Bt-R
            (24 letters, 0 hits)
        </a></div>
        <div class=indexentry><a href="#match5">
            Query_5: Reverse_Primer|QL-ELE-Bt-F1(mod)/Bt-R
            (20 letters, 0 hits)
        </a></div>
        <div class=indexentry><a href="#match6">
            Query_6: Probe|QL-ELE-Bt-F1(mod)/Bt-R
            (25 letters, 2 hits)
        </a></div>
        <div class=indexentry><a href="#match7">
            Query_7: Amplicon|QL-ELE-Bt-F1(mod)/Bt-R
            (74 letters, 2 hits)
        </a></div>

      </section>

      
      <section class=match id=match1>
      
        <h1>Nucleotide Sequence (20 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>


        <section class=graphics>
          <h2>Graphic Summary</h2>

          <div class=grey>
            <h3 class=centered>Distribution of 7 Blast Hits on the Query Sequence</h3>

            <div class=defline id=defline1>
              Mouse-over to show defline and scores, click to show alignments
            </div>

            <div class=graphic>
              <h4 class=darkHeader>Color key for alignment scores</h4>
              <div class=legend><div class=graphicrow>
                  <div class=graphicitem style="background-color: black">&lt;40</div>
                  <div class=graphicitem style="background-color: blue">40–50</div>
                  <div class=graphicitem style="background-color: green">50–80</div>
                  <div class=graphicitem style="background-color: magenta">80–200</div>
                  <div class=graphicitem style="background-color: red">200≤</div>
              </div></div>
              <div style="clear: left"></div>

              <div class=tablewrapper>

                <div class=scale>
                  <div>query:</div>
                  <div class=graphicrow>
                    <div>
                      <div class=graphicitem style="width: 10%">
                        <div>2</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>4</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>6</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>8</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>10</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>12</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>14</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>16</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>18</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>20</div>
                      </div>
                    </div>
                  </div>
                  <div style="clear: left"></div>
                </div>

                <a class=matchresult
                   href="#hit1-1"
                   onmouseover='document.getElementById("defline1").innerHTML="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000"'
                   onmouseout='document.getElementById("defline1").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 100%"></div>
                  </div>
                </a>

                <a class=matchresult
                   href="#hit1-2"
                   onmouseover='document.getElementById("defline1").innerHTML="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000"'
                   onmouseout='document.getElementById("defline1").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 100%"></div>
                  </div>
                </a>

              </div>
            </div>
          </div>
        </section>



        <section class=descriptions>
          <h2>Descriptions</h2>

          <div class=grey><div class=white>
              <h4 class=darkHeader>Sequences producing significant alignments:</h4>

              <table class=descriptiontable>
                <col/><col/><col/><col/><col/><col/><col/>
                <tr>
                  <th>Description</th>
                  <th>Max score</th>
                  <th>Total score</th>
                  <th>Query cover</th>
                  <th>E value</th>
                  <th>Ident</th>
                  <th>Accession</th>
                </tr>
                <tr>
                  <td><div><a href="#hit1-1"
                              title="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000"
                              id="description1-1">
                        AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000
                  </a></div></td>
                  <td>40.1</td>
                  <td>40.1</td>
                  <td>100%</td>
                  <td>1.513e-07</td>
                  <td>100%</td>
                  <td><a href="http://example.com/example-genebank/AB209952.1/">5</a></td>
                </tr>
                <tr>
                  <td><div><a href="#hit1-2"
                              title="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000"
                              id="description1-2">
                        DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000
                  </a></div></td>
                  <td>40.1</td>
                  <td>40.1</td>
                  <td>100%</td>
                  <td>1.513e-07</td>
                  <td>100%</td>
                  <td><a href="http://example.com/example-genebank/DJ437711/">2</a></td>
                </tr>
              </table>

          </div></div>
        </section>



        <section class=alignments>
          <h2>Alignments</h2>

          <div class=grey><div class=white>
              <div class=alignment id=hit1-1>

                <div class=linkheader>
                  <div class=right><a href="#description1-1">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/AB209952.1/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/AB209952.1/">gnl|BL_ORD_ID|5</a>
                    <span class=b>Length:</span> 2457
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot1-1-1>
                  <p class=range>
                    <span class=range>Range 1: 2119 to 2138</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>40.1 bits(20)</td>
                      <td>0.0</td>
                      <td>20/20(100%)</td>
                      <td>0/20(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  AGCGCGCAAACTAGGATAAA  20
                ||||||||||||||||||||
Subject   2119  AGCGCGCAAACTAGGATAAA  2138</pre>
                </div>

              </div>

              <div class=alignment id=hit1-2>

                <div class=linkheader>
                  <div class=right><a href="#description1-2">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/DJ437711/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/DJ437711/">gnl|BL_ORD_ID|2</a>
                    <span class=b>Length:</span> 323
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot1-2-1>
                  <p class=range>
                    <span class=range>Range 1: 200 to 219</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>40.1 bits(20)</td>
                      <td>0.0</td>
                      <td>20/20(100%)</td>
                      <td>0/20(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  AGCGCGCAAACTAGGATAAA  20
                ||||||||||||||||||||
Subject    200  AGCGCGCAAACTAGGATAAA  219</pre>
                </div>

              </div>

          </div></div>
        </section>
      </section>
      
      <section class=match id=match2>
      
        <h1>Nucleotide Sequence (20 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>

        <section>
          <h2>No Hits</h2>
          <div class=grey>
            <table class=headerdata>
              <tr><td class=param>Message:</td><td>No hits found</td></tr>
            </table>
          </div>
        </section>
      </section>
      
      <section class=match id=match3>
      
        <h1>Nucleotide Sequence (20 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>


        <section class=graphics>
          <h2>Graphic Summary</h2>

          <div class=grey>
            <h3 class=centered>Distribution of 7 Blast Hits on the Query Sequence</h3>

            <div class=defline id=defline3>
              Mouse-over to show defline and scores, click to show alignments
            </div>

            <div class=graphic>
              <h4 class=darkHeader>Color key for alignment scores</h4>
              <div class=legend><div class=graphicrow>
                  <div class=graphicitem style="background-color: black">&lt;40</div>
                  <div class=graphicitem style="background-color: blue">40–50</div>
                  <div class=graphicitem style="background-color: green">50–80</div>
                  <div class=graphicitem style="background-color: magenta">80–200</div>
                  <div class=graphicitem style="background-color: red">200≤</div>
              </div></div>
              <div style="clear: left"></div>

              <div class=tablewrapper>

                <div class=scale>
                  <div>query:</div>
                  <div class=graphicrow>
                    <div>
                      <div class=graphicitem style="width: 10%">
                        <div>2</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>4</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>6</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>8</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>10</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>12</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>14</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>16</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>18</div>
                      </div>
                      <div class=graphicitem style="width: 10%">
                        <div>20</div>
                      </div>
                    </div>
                  </div>
                  <div style="clear: left"></div>
                </div>

                <a class=matchresult
                   href="#hit3-1"
                   onmouseover='document.getElementById("defline3").innerHTML="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000"'
                   onmouseout='document.getElementById("defline3").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 100%"></div>
                  </div>
                </a>

                <a class=matchresult
                   href="#hit3-2"
                   onmouseover='document.getElementById("defline3").innerHTML="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000"'
                   onmouseout='document.getElementById("defline3").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 100%"></div>
                  </div>
                </a>

                <a class=matchresult
                   href="#hit3-3"
                   onmouseover='document.getElementById("defline3").innerHTML="AJ308515.1|GenBank|insert_GTS-40-3-2|Synthetic_construct_for_NOS_3\u0027UTR/plant_junction_region.|-9105899556052450000"'
                   onmouseout='document.getElementById("defline3").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="AJ308515.1|GenBank|insert_GTS-40-3-2|Synthetic_construct_for_NOS_3&#39;UTR/plant_junction_region.|-9105899556052450000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: transparent; width: 15%"></div>
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 85%"></div>
                  </div>
                </a>

              </div>
            </div>
          </div>
        </section>



        <section class=descriptions>
          <h2>Descriptions</h2>

          <div class=grey><div class=white>
              <h4 class=darkHeader>Sequences producing significant alignments:</h4>

              <table class=descriptiontable>
                <col/><col/><col/><col/><col/><col/><col/>
                <tr>
                  <th>Description</th>
                  <th>Max score</th>
                  <th>Total score</th>
                  <th>Query cover</th>
                  <th>E value</th>
                  <th>Ident</th>
                  <th>Accession</th>
                </tr>
                <tr>
                  <td><div><a href="#hit3-1"
                              title="AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000"
                              id="description3-1">
                        AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000
                  </a></div></td>
                  <td>40.1</td>
                  <td>40.1</td>
                  <td>100%</td>
                  <td>1.513e-07</td>
                  <td>100%</td>
                  <td><a href="http://example.com/example-genebank/AB209952.1/">5</a></td>
                </tr>
                <tr>
                  <td><div><a href="#hit3-2"
                              title="DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000"
                              id="description3-2">
                        DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000
                  </a></div></td>
                  <td>40.1</td>
                  <td>40.1</td>
                  <td>100%</td>
                  <td>1.513e-07</td>
                  <td>100%</td>
                  <td><a href="http://example.com/example-genebank/DJ437711/">2</a></td>
                </tr>
                <tr>
                  <td><div><a href="#hit3-3"
                              title="AJ308515.1|GenBank|insert_GTS-40-3-2|Synthetic_construct_for_NOS_3&#39;UTR/plant_junction_region.|-9105899556052450000"
                              id="description3-3">
                        AJ308515.1|GenBank|insert_GTS-40-3-2|Synthetic_construct_for_NOS_3&#39;UTR/plant_junction_region.|-9105899556052450000
                  </a></div></td>
                  <td>34.2</td>
                  <td>34.2</td>
                  <td>85%</td>
                  <td>9.334e-06</td>
                  <td>100%</td>
                  <td><a href="http://example.com/example-genebank/AJ308515.1/">1</a></td>
                </tr>
              </table>

          </div></div>
        </section>



        <section class=alignments>
          <h2>Alignments</h2>

          <div class=grey><div class=white>
              <div class=alignment id=hit3-1>

                <div class=linkheader>
                  <div class=right><a href="#description3-1">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/AB209952.1/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>AB209952.1|GenBank|insert_GTS-40-3-2|Glycine_max_transgenic_cp4epsps_gene_for_5-enol-pyruvylshikimate-3-phospate_synthase_class_2_precursor,_complete_cds|-9105899556052450000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/AB209952.1/">gnl|BL_ORD_ID|5</a>
                    <span class=b>Length:</span> 2457
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot3-1-1>
                  <p class=range>
                    <span class=range>Range 1: 2143 to 2162</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>40.1 bits(20)</td>
                      <td>0.0</td>
                      <td>20/20(100%)</td>
                      <td>0/20(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  CGCGCGCGGTGTCATCTATG  20
                ||||||||||||||||||||
Subject   2143  CGCGCGCGGTGTCATCTATG  2162</pre>
                </div>

              </div>

              <div class=alignment id=hit3-2>

                <div class=linkheader>
                  <div class=right><a href="#description3-2">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/DJ437711/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>DJ437711|GenBank|insert_MIR604|Corn_Event_MIR604,_Left_Border_region|-5751164067366620000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/DJ437711/">gnl|BL_ORD_ID|2</a>
                    <span class=b>Length:</span> 323
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot3-2-1>
                  <p class=range>
                    <span class=range>Range 1: 224 to 243</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>40.1 bits(20)</td>
                      <td>0.0</td>
                      <td>20/20(100%)</td>
                      <td>0/20(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  CGCGCGCGGTGTCATCTATG  20
                ||||||||||||||||||||
Subject    224  CGCGCGCGGTGTCATCTATG  243</pre>
                </div>

              </div>

              <div class=alignment id=hit3-3>

                <div class=linkheader>
                  <div class=right><a href="#description3-3">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/AJ308515.1/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>AJ308515.1|GenBank|insert_GTS-40-3-2|Synthetic_construct_for_NOS_3&#39;UTR/plant_junction_region.|-9105899556052450000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/AJ308515.1/">gnl|BL_ORD_ID|1</a>
                    <span class=b>Length:</span> 1045
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot3-3-1>
                  <p class=range>
                    <span class=range>Range 1: 2 to 18</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>34.2 bits(17)</td>
                      <td>0.0</td>
                      <td>17/17(100%)</td>
                      <td>0/17(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        4  GCGCGGTGTCATCTATG  20
                |||||||||||||||||
Subject      2  GCGCGGTGTCATCTATG  18</pre>
                </div>

              </div>

          </div></div>
        </section>
      </section>
      
      <section class=match id=match4>
      
        <h1>Nucleotide Sequence (24 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>

        <section>
          <h2>No Hits</h2>
          <div class=grey>
            <table class=headerdata>
              <tr><td class=param>Message:</td><td>No hits found</td></tr>
            </table>
          </div>
        </section>
      </section>
      
      <section class=match id=match5>
      
        <h1>Nucleotide Sequence (20 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>

        <section>
          <h2>No Hits</h2>
          <div class=grey>
            <table class=headerdata>
              <tr><td class=param>Message:</td><td>No hits found</td></tr>
            </table>
          </div>
        </section>
      </section>
      
      <section class=match id=match6>
      
        <h1>Nucleotide Sequence (25 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>


        <section class=graphics>
          <h2>Graphic Summary</h2>

          <div class=grey>
            <h3 class=centered>Distribution of 7 Blast Hits on the Query Sequence</h3>

            <div class=defline id=defline6>
              Mouse-over to show defline and scores, click to show alignments
            </div>

            <div class=graphic>
              <h4 class=darkHeader>Color key for alignment scores</h4>
              <div class=legend><div class=graphicrow>
                  <div class=graphicitem style="background-color: black">&lt;40</div>
                  <div class=graphicitem style="background-color: blue">40–50</div>
                  <div class=graphicitem style="background-color: green">50–80</div>
                  <div class=graphicitem style="background-color: magenta">80–200</div>
                  <div class=graphicitem style="background-color: red">200≤</div>
              </div></div>
              <div style="clear: left"></div>

              <div class=tablewrapper>

                <div class=scale>
                  <div>query:</div>
                  <div class=graphicrow>
                    <div>
                      <div class=graphicitem style="width: 12%">
                        <div>3</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>6</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>9</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>12</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>15</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>18</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>21</div>
                      </div>
                      <div class=graphicitem style="width: 12%">
                        <div>24</div>
                      </div>
                      <div class=graphicitem style="width: 4%">
                        <div>25</div>
                      </div>
                    </div>
                  </div>
                  <div style="clear: left"></div>
                </div>

                <a class=matchresult
                   href="#hit6-1"
                   onmouseover='document.getElementById("defline6").innerHTML="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000"'
                   onmouseout='document.getElementById("defline6").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 88%"></div>
                    <div class="matchitem graphicitem"
                         style="background-color: transparent; width: 12%"></div>
                  </div>
                </a>

                <a class=matchresult
                   href="#hit6-2"
                   onmouseover='document.getElementById("defline6").innerHTML="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000"'
                   onmouseout='document.getElementById("defline6").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: black; width: 88%"></div>
                    <div class="matchitem graphicitem"
                         style="background-color: transparent; width: 12%"></div>
                  </div>
                </a>

              </div>
            </div>
          </div>
        </section>



        <section class=descriptions>
          <h2>Descriptions</h2>

          <div class=grey><div class=white>
              <h4 class=darkHeader>Sequences producing significant alignments:</h4>

              <table class=descriptiontable>
                <col/><col/><col/><col/><col/><col/><col/>
                <tr>
                  <th>Description</th>
                  <th>Max score</th>
                  <th>Total score</th>
                  <th>Query cover</th>
                  <th>E value</th>
                  <th>Ident</th>
                  <th>Accession</th>
                </tr>
                <tr>
                  <td><div><a href="#hit6-1"
                              title="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000"
                              id="description6-1">
                        EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000
                  </a></div></td>
                  <td>36.2</td>
                  <td>36.2</td>
                  <td>88%</td>
                  <td>3.148e-06</td>
                  <td>95%</td>
                  <td><a href="http://example.com/example-genebank/EUG/">7</a></td>
                </tr>
                <tr>
                  <td><div><a href="#hit6-2"
                              title="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000"
                              id="description6-2">
                        AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000
                  </a></div></td>
                  <td>36.2</td>
                  <td>36.2</td>
                  <td>88%</td>
                  <td>3.148e-06</td>
                  <td>95%</td>
                  <td><a href="http://example.com/example-genebank/AY326434/">6</a></td>
                </tr>
              </table>

          </div></div>
        </section>



        <section class=alignments>
          <h2>Alignments</h2>

          <div class=grey><div class=white>
              <div class=alignment id=hit6-1>

                <div class=linkheader>
                  <div class=right><a href="#description6-1">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/EUG/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/EUG/">gnl|BL_ORD_ID|7</a>
                    <span class=b>Length:</span> 4983
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot6-1-1>
                  <p class=range>
                    <span class=range>Range 1: 2344 to 2365</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>36.2 bits(18)</td>
                      <td>0.0</td>
                      <td>21/22(95%)</td>
                      <td>0/22(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  ACATGAACAGCGCCTTGACCAC  22
                |||||||||||||| |||||||
Subject   2344  ACATGAACAGCGCCCTGACCAC  2365</pre>
                </div>

              </div>

              <div class=alignment id=hit6-2>

                <div class=linkheader>
                  <div class=right><a href="#description6-2">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/AY326434/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/AY326434/">gnl|BL_ORD_ID|6</a>
                    <span class=b>Length:</span> 4180
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot6-2-1>
                  <p class=range>
                    <span class=range>Range 1: 1541 to 1562</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>36.2 bits(18)</td>
                      <td>0.0</td>
                      <td>21/22(95%)</td>
                      <td>0/22(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  ACATGAACAGCGCCTTGACCAC  22
                |||||||||||||| |||||||
Subject   1541  ACATGAACAGCGCCCTGACCAC  1562</pre>
                </div>

              </div>

          </div></div>
        </section>
      </section>
      
      <section class=match id=match7>
      
        <h1>Nucleotide Sequence (74 letters)</h1>

        <section class=header>

          <table class=headerdata>
            <tr><td class=param>Query ID:</td><td>Query_1</td></tr>
            <tr><td class=param>Query definition:</td><td>Forward_Primer|NOST-Spec_(Genetic_ID)</td></tr>
            <tr><td class=param>Query length:</td><td>20</td></tr>
            <tr><td class=param>Program:</td><td>BLASTN 2.2.29+</td></tr>
            <tr><td class=param>Database:</td><td>/opt/galaxy/blastdbs/EUginius_plasmid_insert</td></tr>
          </table>

        </section>


        <section class=graphics>
          <h2>Graphic Summary</h2>

          <div class=grey>
            <h3 class=centered>Distribution of 7 Blast Hits on the Query Sequence</h3>

            <div class=defline id=defline7>
              Mouse-over to show defline and scores, click to show alignments
            </div>

            <div class=graphic>
              <h4 class=darkHeader>Color key for alignment scores</h4>
              <div class=legend><div class=graphicrow>
                  <div class=graphicitem style="background-color: black">&lt;40</div>
                  <div class=graphicitem style="background-color: blue">40–50</div>
                  <div class=graphicitem style="background-color: green">50–80</div>
                  <div class=graphicitem style="background-color: magenta">80–200</div>
                  <div class=graphicitem style="background-color: red">200≤</div>
              </div></div>
              <div style="clear: left"></div>

              <div class=tablewrapper>

                <div class=scale>
                  <div>query:</div>
                  <div class=graphicrow>
                    <div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>8</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>16</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>24</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>32</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>40</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>48</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>56</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>64</div>
                      </div>
                      <div class=graphicitem style="width: 10.8108108108%">
                        <div>72</div>
                      </div>
                      <div class=graphicitem style="width: 2.7027027027%">
                        <div>&nbsp;</div>
                        <div class=lastlabel>74</div>
                      </div>
                    </div>
                  </div>
                  <div style="clear: left"></div>
                </div>

                <a class=matchresult
                   href="#hit7-1"
                   onmouseover='document.getElementById("defline7").innerHTML="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000"'
                   onmouseout='document.getElementById("defline7").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: green; width: 100%"></div>
                  </div>
                </a>

                <a class=matchresult
                   href="#hit7-2"
                   onmouseover='document.getElementById("defline7").innerHTML="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000"'
                   onmouseout='document.getElementById("defline7").innerHTML="Mouse-over to show defline and scores, click to show alignments"'
                   title="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000">
                  <div class="matchrow graphicrow">
                    <div class="matchitem graphicitem"
                         style="background-color: green; width: 100%"></div>
                  </div>
                </a>

              </div>
            </div>
          </div>
        </section>



        <section class=descriptions>
          <h2>Descriptions</h2>

          <div class=grey><div class=white>
              <h4 class=darkHeader>Sequences producing significant alignments:</h4>

              <table class=descriptiontable>
                <col/><col/><col/><col/><col/><col/><col/>
                <tr>
                  <th>Description</th>
                  <th>Max score</th>
                  <th>Total score</th>
                  <th>Query cover</th>
                  <th>E value</th>
                  <th>Ident</th>
                  <th>Accession</th>
                </tr>
                <tr>
                  <td><div><a href="#hit7-1"
                              title="EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000"
                              id="description7-1">
                        EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000
                  </a></div></td>
                  <td>67.9</td>
                  <td>67.9</td>
                  <td>100%</td>
                  <td>3.564e-15</td>
                  <td>86%</td>
                  <td><a href="http://example.com/example-genebank/EUG/">7</a></td>
                </tr>
                <tr>
                  <td><div><a href="#hit7-2"
                              title="AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000"
                              id="description7-2">
                        AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000
                  </a></div></td>
                  <td>67.9</td>
                  <td>67.9</td>
                  <td>100%</td>
                  <td>3.564e-15</td>
                  <td>86%</td>
                  <td><a href="http://example.com/example-genebank/AY326434/">6</a></td>
                </tr>
              </table>

          </div></div>
        </section>



        <section class=alignments>
          <h2>Alignments</h2>

          <div class=grey><div class=white>
              <div class=alignment id=hit7-1>

                <div class=linkheader>
                  <div class=right><a href="#description7-1">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/EUG/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>EUG|RIKILT|plasmid_pV-ZMBK07|plasmid_pV-ZMBK07|-2635190737607180000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/EUG/">gnl|BL_ORD_ID|7</a>
                    <span class=b>Length:</span> 4983
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot7-1-1>
                  <p class=range>
                    <span class=range>Range 1: 2319 to 2392</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>67.9 bits(34)</td>
                      <td>0.0</td>
                      <td>64/74(86%)</td>
                      <td>0/74(0%)</td>
                      <td>Plus/Plus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  GAGGAAATGCGTATTCAATTCAACGACATGAACAGCGCCTTGACCACAGCTATCCCATTG  60
                ||||| ||||| || || ||||||||||||||||||||| ||||||| || |||||| | 
Subject   2319  GAGGAGATGCGCATCCAGTTCAACGACATGAACAGCGCCCTGACCACCGCCATCCCACTC  2378</pre>
                  <pre class=alignmentgraphic>Query       61  TTCGCAGTCCAGAA  74
                ||||| ||||||||
Subject   2379  TTCGCCGTCCAGAA  2392</pre>
                </div>

              </div>

              <div class=alignment id=hit7-2>

                <div class=linkheader>
                  <div class=right><a href="#description7-2">Descriptions</a></div>
                  <a class="linkheader" href="http://example.com/example-genebank/AY326434/">Gene Bank</a>
                </div>

                <div class=title>
                  <p class=hittitle>AY326434|GenBank|insert_MON810|Synthetic_construct_truncated_CRYIA(b)_(cryIA(b))_gene,_partial_CDS|-2635190737607180000</p>
                  <p class=titleinfo>
                    <span class=b>Sequence ID:</span> <a href="http://example.com/example-genebank/AY326434/">gnl|BL_ORD_ID|6</a>
                    <span class=b>Length:</span> 4180
                    <span class=b>Number of Matches:</span> 1
                  </p>
                </div>


                <div class=hotspot id=hotspot7-2-1>
                  <p class=range>
                    <span class=range>Range 1: 1589 to 1516</span>
                  </p>

                  <table class=hotspotstable>
                    <tr>
                      <th>Score</th><th>Expect</th><th>Identities</th><th>Gaps</th><th>Strand</th>
                    </tr>
                    <tr>
                      <td>67.9 bits(34)</td>
                      <td>0.0</td>
                      <td>64/74(86%)</td>
                      <td>0/74(0%)</td>
                      <td>Plus/Minus</td>
                    </tr>
                  </table>

                  <pre class=alignmentgraphic>Query        1  GAGGAAATGCGTATTCAATTCAACGACATGAACAGCGCCTTGACCACAGCTATCCCATTG  60
                ||||| ||||| || || ||||||||||||||||||||| ||||||| || |||||| | 
Subject   1589  GAGGAGATGCGCATCCAGTTCAACGACATGAACAGCGCCCTGACCACCGCCATCCCACTC  1530</pre>
                  <pre class=alignmentgraphic>Query       61  TTCGCAGTCCAGAA  74
                ||||| ||||||||
Subject   1529  TTCGCCGTCCAGAA  1516</pre>
                </div>

              </div>

          </div></div>
        </section>
      </section>

    </div>

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