commit/galaxy-central: fubar: Fixes for the new horrible FastQC html layout. Now wastes a whole lot of space on the left
1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/a87d7b85c577/ changeset: a87d7b85c577 user: fubar date: 2011-11-15 21:34:51 summary: Fixes for the new horrible FastQC html layout. Now wastes a whole lot of space on the left with a fancy TOC - ugh. Test updated also. affected #: 3 files
diff -r e637518dada717ac2e1cde85c28d2de0f106fe8a -r a87d7b85c5771372550bd786bd15606f8e29cf41 test-data/fastqc_report.html --- a/test-data/fastqc_report.html +++ b/test-data/fastqc_report.html @@ -1,117 +1,224 @@ <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Strict//EN"><html> -<head><title>1000gsample.fastq FastQC Report</title> +<head><title>dataset_1.dat FastQC Report</title><style type="text/css">
- body { - font-family: sans-serif; - color: #000000; - background-color: #FFFFFF; - border: 0; - margin: 0; - padding: 0; - } + @media screen { + div.summary { + width: 18em; + position:fixed; + top: 3em; + margin:1em 0 0 1em; + } + + div.main { + display:block; + position:absolute; + overflow:auto; + height:auto; + width:auto; + top:4.5em; + bottom:2.3em; + left:18em; + right:0; + border-left: 1px solid #CCC; + padding:0 0 0 1em; + background-color: white; + z-index:1; + } + + div.header { + background-color: #EEE; + border:0; + margin:0; + padding: 0.5em; + font-size: 200%; + font-weight: bold; + position:fixed; + width:100%; + top:0; + left:0; + z-index:2; + } + + div.footer { + background-color: #EEE; + border:0; + margin:0; + padding:0.5em; + height: 1.3em; + overflow:hidden; + font-size: 100%; + font-weight: bold; + position:fixed; + bottom:0; + width:100%; + z-index:2; + } + + img.indented { + margin-left: 3em; + } + } + + @media print { + img { + max-width:100% !important; + page-break-inside: avoid; + } + h2, h3 { + page-break-after: avoid; + } + div.header { + background-color: #FFF; + } + + } + + body { + font-family: sans-serif; + color: #000; + background-color: #FFF; + border: 0; + margin: 0; + padding: 0; + } + + div.header { + border:0; + margin:0; + padding: 0.5em; + font-size: 200%; + font-weight: bold; + width:100%; + } + + #header_title { + display:inline-block; + float:left; + clear:left; + } + #header_filename { + display:inline-block; + float:right; + clear:right; + font-size: 50%; + margin-right:2em; + text-align: right; + } + + div.header h3 { + font-size: 50%; + margin-bottom: 0; + } + + div.summary ul { + padding-left:0; + list-style-type:none; + } + + div.summary ul li img { + margin-bottom:-0.5em; + margin-top:0.5em; + } + + div.main { + background-color: white; + }
- div.header { - background-color: #EEEEEE; - border:0; - margin:0; - padding: 0.5em; - font-size: 200%; - font-weight: bold; - } + div.module { + padding-bottom:1.5em; + padding-top:1.5em; + } + + div.footer { + background-color: #EEE; + border:0; + margin:0; + padding: 0.5em; + font-size: 100%; + font-weight: bold; + width:100%; + }
- div.footer { - background-color: #EEEEEE; - border:0; - margin:0; - padding: 0.5em; - font-size: 100%; - font-weight: bold; - }
- div.main { - margin-left: 2em; - margin-right: 2em; - } + a { + color: #000080; + } + + a:hover { + color: #800000; + }
- div.module { - padding-bottom:1.5em; - padding-top:1.5em; - } + h2 { + color: #800000; + padding-bottom: 0; + margin-bottom: 0; + clear:left; + }
- a { - color: #000080; - } + table { + margin-left: 3em; + text-align: center; + } + + th { + text-align: center; + background-color: #000080; + color: #FFF; + padding: 0.4em; + } + + td { + font-family: monospace; + text-align: left; + background-color: #EEE; + color: #000; + padding: 0.4em; + }
- a:hover { - color: #800000; - } - - h2 { - color: #800000; - padding-bottom: 0; - margin-bottom: 0; - } + img { + padding-top: 0; + margin-top: 0; + border-top: 0; + }
- table { - margin-left: 3em; - text-align: center; - } - - th { - text-align: center; - background-color: #000080; - color: #FFFFFF; - padding: 0.4em; - } - - td { - font-family: monospace; - text-align: left; - background-color: #EEEEEE; - color: #000000; - padding: 0.4em; - } - - img { - padding-top: 0; - margin-top: 0; - border-top: 0; - } - - img.indented { - margin-left: 3em; - } - - p { - padding-top: 0; - margin-top: 0; - } + + p { + padding-top: 0; + margin-top: 0; + } + </style></head><body> -<div class="header"><img src="Icons/fastqc_icon.png">FastQC Report</div> +<div class="header"> +<div id="header_title"><img src="fastqc_icon.png" alt="FastQC">FastQC Report</div> +<div id="header_filename"> +Wed 16 Nov 2011<br /> +dataset_1.dat +</div> +</div> +<div class="summary"> +<h2>Summary</h2> +<ul> +<li><img src="tick.png" alt="[PASS]"><a href="#M0">Basic Statistics</a></li> +<li><img src="warning.png" alt="[WARNING]"><a href="#M1">Per base sequence quality</a></li> +<li><img src="warning.png" alt="[WARNING]"><a href="#M2">Per sequence quality scores</a></li> +<li><img src="warning.png" alt="[WARNING]"><a href="#M3">Per base sequence content</a></li> +<li><img src="tick.png" alt="[PASS]"><a href="#M4">Per base GC content</a></li> +<li><img src="warning.png" alt="[WARNING]"><a href="#M5">Per sequence GC content</a></li> +<li><img src="tick.png" alt="[PASS]"><a href="#M6">Per base N content</a></li> +<li><img src="tick.png" alt="[PASS]"><a href="#M7">Sequence Length Distribution</a></li> +<li><img src="tick.png" alt="[PASS]"><a href="#M8">Sequence Duplication Levels</a></li> +<li><img src="warning.png" alt="[WARNING]"><a href="#M9">Overrepresented sequences</a></li> +<li><img src="error.png" alt="[FAIL]"><a href="#M10">Kmer Content</a></li> +</ul> +</div><div class="main"> -<h3>Wed 27 Apr 2011</h3> -<h3>1000gsample.fastq</h3> -<h2 id="summary">Summary</h2> -<ul> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M0">Basic Statistics</a></li> -<li><img src="Icons/warning.png" alt="[WARNING]"><a href="#M1">Per base sequence quality</a></li> -<li><img src="Icons/warning.png" alt="[WARNING]"><a href="#M2">Per sequence quality scores</a></li> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M3">Per base sequence content</a></li> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M4">Per base GC content</a></li> -<li><img src="Icons/warning.png" alt="[WARNING]"><a href="#M5">Per sequence GC content</a></li> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M6">Per base N content</a></li> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M7">Sequence Length Distribution</a></li> -<li><img src="Icons/tick.png" alt="[PASS]"><a href="#M8">Sequence Duplication Levels</a></li> -<li><img src="Icons/warning.png" alt="[WARNING]"><a href="#M9">Overrepresented sequences</a></li> -<li><img src="Icons/error.png" alt="[FAIL]"><a href="#M10">Kmer Content</a></li> -</ul> -<div class="module"><h2 id="M0"><img src="Icons/tick.png" alt="[FAIL]"> Basic Statistics</h2> +<div class="module"><h2 id="M0"><img src="tick.png" alt="[OK]"> Basic Statistics</h2><table><tr><th>Measure</th> @@ -119,7 +226,7 @@ </tr><tr><td>Filename</td> -<td>1000gsample.fastq</td> +<td>dataset_1.dat</td></tr><tr><td>File type</td> @@ -134,6 +241,10 @@ <td>5000</td></tr><tr> +<td>Filtered Sequences</td> +<td>0</td> +</tr> +<tr><td>Sequence length</td><td>54</td></tr> @@ -142,32 +253,32 @@ <td>43</td></tr></table> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M1"><img src="Icons/warning.png" alt="[FAIL]"> Per base sequence quality</h2> -<p><img class="indented" src="Images/per_base_quality.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M2"><img src="Icons/warning.png" alt="[FAIL]"> Per sequence quality scores</h2> -<p><img class="indented" src="Images/per_sequence_quality.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M3"><img src="Icons/tick.png" alt="[FAIL]"> Per base sequence content</h2> -<p><img class="indented" src="Images/per_base_sequence_content.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M4"><img src="Icons/tick.png" alt="[FAIL]"> Per base GC content</h2> -<p><img class="indented" src="Images/per_base_gc_content.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M5"><img src="Icons/warning.png" alt="[FAIL]"> Per sequence GC content</h2> -<p><img class="indented" src="Images/per_sequence_gc_content.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M6"><img src="Icons/tick.png" alt="[FAIL]"> Per base N content</h2> -<p><img class="indented" src="Images/per_base_n_content.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M7"><img src="Icons/tick.png" alt="[FAIL]"> Sequence Length Distribution</h2> -<p><img class="indented" src="Images/sequence_length_distribution.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M8"><img src="Icons/tick.png" alt="[FAIL]"> Sequence Duplication Levels</h2> -<p><img class="indented" src="Images/duplication_levels.png"></p> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M9"><img src="Icons/warning.png" alt="[FAIL]"> Overrepresented sequences</h2> +</div> +<div class="module"><h2 id="M1"><img src="warning.png" alt="[WARN]"> Per base sequence quality</h2> +<p><img class="indented" src="per_base_quality.png" alt="Per base quality graph"></p> +</div> +<div class="module"><h2 id="M2"><img src="warning.png" alt="[WARN]"> Per sequence quality scores</h2> +<p><img class="indented" src="per_sequence_quality.png" alt="Per Sequence quality graph"></p> +</div> +<div class="module"><h2 id="M3"><img src="warning.png" alt="[WARN]"> Per base sequence content</h2> +<p><img class="indented" src="per_base_sequence_content.png" alt="Per base sequence content"></p> +</div> +<div class="module"><h2 id="M4"><img src="tick.png" alt="[OK]"> Per base GC content</h2> +<p><img class="indented" src="per_base_gc_content.png" alt="Per base GC content graph"></p> +</div> +<div class="module"><h2 id="M5"><img src="warning.png" alt="[WARN]"> Per sequence GC content</h2> +<p><img class="indented" src="per_sequence_gc_content.png" alt="Per sequence GC content graph"></p> +</div> +<div class="module"><h2 id="M6"><img src="tick.png" alt="[OK]"> Per base N content</h2> +<p><img class="indented" src="per_base_n_content.png" alt="N content graph"></p> +</div> +<div class="module"><h2 id="M7"><img src="tick.png" alt="[OK]"> Sequence Length Distribution</h2> +<p><img class="indented" src="sequence_length_distribution.png" alt="Sequence length distribution"></p> +</div> +<div class="module"><h2 id="M8"><img src="tick.png" alt="[OK]"> Sequence Duplication Levels</h2> +<p><img class="indented" src="duplication_levels.png" alt="Duplication level graph"></p> +</div> +<div class="module"><h2 id="M9"><img src="warning.png" alt="[WARN]"> Overrepresented sequences</h2><table><tr><th>Sequence</th> @@ -188,9 +299,9 @@ <td>Illumina Paired End PCR Primer 2 (100% over 35bp)</td></tr></table> -<p><a href="#summary">Back to summary</a></div> -<div class="module"><h2 id="M10"><img src="Icons/error.png" alt="[FAIL]"> Kmer Content</h2> -<p><img class="indented" src="Images/kmer_profiles.png"></p> +</div> +<div class="module"><h2 id="M10"><img src="error.png" alt="[FAIL]"> Kmer Content</h2> +<p><img class="indented" src="kmer_profiles.png" alt="Kmer graph"></p><table><tr><th>Sequence</th> @@ -201,1132 +312,1498 @@ </tr><tr><td>CCCCC</td> -<td>1110</td> -<td>9.557241</td> -<td>23.193876</td> -<td>44</td> +<td>1180</td> +<td>9.957459</td> +<td>29.638031</td> +<td>50</td></tr><tr><td>AAAAA</td> -<td>2130</td> -<td>4.1300144</td> -<td>5.698024</td> -<td>7</td> +<td>2175</td> +<td>4.133217</td> +<td>7.129659</td> +<td>47</td></tr><tr><td>CTCCC</td> -<td>530</td> -<td>3.5749238</td> +<td>555</td> +<td>3.668942</td><td>11.56272</td><td>11</td></tr><tr><td>CCTCC</td> -<td>510</td> -<td>3.440021</td> +<td>525</td> +<td>3.4706206</td><td>11.56272</td><td>14</td></tr><tr><td>CTGGG</td><td>465</td> -<td>3.1575248</td> -<td>8.314476</td> -<td>45</td> +<td>3.0945942</td> +<td>8.331139</td> +<td>39</td> +</tr> +<tr> +<td>GGGGG</td> +<td>350</td> +<td>2.9865708</td> +<td>12.818572</td> +<td>41</td></tr><tr><td>TGGAA</td> -<td>785</td> -<td>2.929684</td> +<td>800</td> +<td>2.9261596</td><td>6.397646</td><td>17</td></tr><tr> -<td>GGGGG</td> -<td>335</td> -<td>2.9167063</td> -<td>10.660779</td> -<td>6</td> +<td>CCCAG</td> +<td>455</td> +<td>2.855999</td> +<td>9.429343</td> +<td>40</td></tr><tr><td>GAATG</td><td>775</td> -<td>2.8923633</td> +<td>2.8347175</td><td>10.053445</td><td>20</td></tr><tr> -<td>CCCAG</td> -<td>450</td> -<td>2.8820548</td> -<td>7.8420706</td> -<td>22</td> +<td>GTGTG</td> +<td>530</td> +<td>2.763172</td> +<td>7.8240557</td> +<td>33</td></tr><tr> -<td>GTGTG</td> -<td>520</td> -<td>2.7661672</td> -<td>6.513526</td> -<td>23</td> +<td>GGGAG</td> +<td>435</td> +<td>2.7487729</td> +<td>6.3220544</td> +<td>43</td></tr><tr><td>TGTGT</td> -<td>660</td> -<td>2.744307</td> +<td>670</td> +<td>2.7303638</td><td>6.109576</td><td>27</td></tr><tr> -<td>GGGAG</td> -<td>425</td> -<td>2.7401958</td> -<td>6.315732</td> -<td>6</td> -</tr> -<tr><td>ATGGA</td> -<td>730</td> -<td>2.7244196</td> +<td>735</td> +<td>2.688409</td><td>6.397646</td><td>20</td></tr><tr> -<td>GCTGG</td> -<td>395</td> -<td>2.6821985</td> -<td>6.651581</td> -<td>16</td> -</tr> -<tr> -<td>GGAGG</td> -<td>410</td> -<td>2.643483</td> -<td>7.894665</td> -<td>7</td> -</tr> -<tr><td>GGAAT</td> -<td>700</td> -<td>2.612457</td> +<td>730</td> +<td>2.6701207</td><td>7.3115954</td><td>19</td></tr><tr> +<td>GCTGG</td> +<td>400</td> +<td>2.6620166</td> +<td>8.322799</td> +<td>31</td> +</tr> +<tr> +<td>GGAGG</td> +<td>420</td> +<td>2.6539874</td> +<td>7.9104857</td> +<td>40</td> +</tr> +<tr><td>GCAGG</td> -<td>400</td> -<td>2.5732677</td> +<td>405</td> +<td>2.5535064</td><td>14.17877</td><td>16</td></tr><tr><td>CCTGG</td> -<td>370</td> -<td>2.5068476</td> +<td>375</td> +<td>2.4900866</td><td>6.6367774</td><td>7</td></tr><tr><td>CAGCC</td> -<td>380</td> -<td>2.4337354</td> -<td>6.273657</td> -<td>4</td> +<td>390</td> +<td>2.4479992</td> +<td>6.279937</td> +<td>38</td> +</tr> +<tr> +<td>GGCTG</td> +<td>365</td> +<td>2.4290898</td> +<td>9.97737</td> +<td>24</td></tr><tr><td>TGGGA</td> -<td>480</td> -<td>2.419065</td> +<td>490</td> +<td>2.4202447</td><td>7.40506</td><td>20</td></tr><tr> +<td>CCAGC</td> +<td>385</td> +<td>2.4166145</td> +<td>6.286229</td> +<td>41</td> +</tr> +<tr><td>AATGG</td> -<td>645</td> -<td>2.4071925</td> +<td>660</td> +<td>2.4140818</td><td>5.4836965</td><td>18</td></tr><tr> +<td>GCCTG</td> +<td>360</td> +<td>2.3904827</td> +<td>8.295971</td> +<td>5</td> +</tr> +<tr><td>GCCTC</td> -<td>355</td> -<td>2.3998654</td> -<td>6.622006</td> -<td>2</td> +<td>360</td> +<td>2.3851626</td> +<td>6.6286345</td> +<td>31</td></tr><tr><td>CCCTC</td> -<td>355</td> -<td>2.394524</td> -<td>8.259085</td> -<td>13</td> +<td>360</td> +<td>2.379854</td> +<td>8.267352</td> +<td>34</td></tr><tr> -<td>CCAGC</td> -<td>370</td> -<td>2.3696895</td> -<td>6.2736564</td> -<td>14</td> +<td>CTGTG</td> +<td>450</td> +<td>2.3408678</td> +<td>9.09864</td> +<td>44</td></tr><tr><td>GGAAG</td> -<td>495</td> -<td>2.3634295</td> +<td>500</td> +<td>2.3397229</td><td>14.031037</td><td>2</td></tr><tr> -<td>GGCTG</td> -<td>345</td> -<td>2.3426795</td> -<td>9.97737</td> -<td>24</td> +<td>CAGCA</td> +<td>500</td> +<td>2.32932</td> +<td>10.47649</td> +<td>14</td></tr><tr><td>CAGGA</td> -<td>490</td> -<td>2.3343499</td> +<td>495</td> +<td>2.3111706</td><td>13.99981</td><td>17</td></tr><tr> -<td>CCAGG</td> -<td>360</td> -<td>2.3107867</td> -<td>6.2876506</td> -<td>11</td> -</tr> -<tr> -<td>CTGTG</td> -<td>435</td> -<td>2.3088553</td> -<td>9.09864</td> -<td>44</td> -</tr> -<tr> -<td>GCCTG</td> -<td>340</td> -<td>2.3035896</td> -<td>8.295971</td> -<td>5</td> -</tr> -<tr><td>TCCCA</td> -<td>460</td> -<td>2.3028264</td> -<td>6.1297736</td> -<td>9</td> +<td>470</td> +<td>2.305994</td> +<td>7.370469</td> +<td>39</td></tr><tr><td>CTGCC</td> -<td>340</td> -<td>2.2984629</td> +<td>345</td> +<td>2.285781</td><td>8.277508</td><td>10</td></tr><tr> -<td>CAGCA</td> -<td>480</td> -<td>2.2816207</td> -<td>10.47649</td> -<td>14</td> +<td>GGTGG</td> +<td>340</td> +<td>2.2677608</td> +<td>5.009832</td> +<td>42</td> +</tr> +<tr> +<td>CCAGG</td> +<td>360</td> +<td>2.264732</td> +<td>6.300251</td> +<td>41</td></tr><tr><td>TTCCT</td> -<td>545</td> -<td>2.256056</td> +<td>555</td> +<td>2.2516627</td><td>7.0961456</td><td>1</td></tr><tr> +<td>TCCCC</td> +<td>335</td> +<td>2.2145865</td> +<td>8.267353</td> +<td>29</td> +</tr> +<tr> +<td>CAGGC</td> +<td>350</td> +<td>2.2018228</td> +<td>6.300251</td> +<td>42</td> +</tr> +<tr><td>CTCCT</td> -<td>415</td> -<td>2.1929073</td> +<td>425</td> +<td>2.2009897</td><td>6.4701333</td><td>15</td></tr><tr> -<td>TCCCC</td> -<td>325</td> -<td>2.1921701</td> -<td>6.6072683</td> -<td>28</td> -</tr> -<tr> -<td>CAGGC</td> -<td>335</td> -<td>2.1503155</td> -<td>6.2876506</td> -<td>14</td> +<td>GGCAG</td> +<td>340</td> +<td>2.1436844</td> +<td>6.301676</td> +<td>16</td></tr><tr><td>CCCCA</td> -<td>335</td> -<td>2.1407545</td> -<td>6.259694</td> -<td>20</td> +<td>340</td> +<td>2.129403</td> +<td>6.26596</td> +<td>31</td> +</tr> +<tr> +<td>CTCTG</td> +<td>410</td> +<td>2.1280441</td> +<td>5.1928453</td> +<td>48</td></tr><tr><td>TGGTG</td> -<td>400</td> -<td>2.127821</td> -<td>6.513526</td> -<td>9</td> +<td>405</td> +<td>2.1114805</td> +<td>6.520046</td> +<td>33</td> +</tr> +<tr> +<td>TTCCA</td> +<td>545</td> +<td>2.094778</td> +<td>6.7295837</td> +<td>33</td></tr><tr><td>CCCCT</td><td>315</td> -<td>2.1247187</td> +<td>2.0823722</td><td>6.607268</td><td>12</td></tr><tr> -<td>GGCAG</td> -<td>330</td> -<td>2.122946</td> -<td>6.301676</td> -<td>16</td> +<td>CTCAG</td> +<td>420</td> +<td>2.0652719</td> +<td>6.149596</td> +<td>46</td></tr><tr> -<td>CTCTG</td> -<td>400</td> -<td>2.1183603</td> -<td>5.187652</td> -<td>16</td> -</tr> -<tr> -<td>TTCCA</td> -<td>540</td> -<td>2.1177678</td> -<td>6.7228537</td> -<td>28</td> +<td>AGGGA</td> +<td>440</td> +<td>2.0589561</td> +<td>7.0225415</td> +<td>31</td></tr><tr><td>CAGAG</td><td>440</td> -<td>2.0961509</td> -<td>5.833255</td> -<td>28</td> +<td>2.054374</td> +<td>5.8390937</td> +<td>38</td> +</tr> +<tr> +<td>AGCAG</td> +<td>440</td> +<td>2.0543735</td> +<td>10.499857</td> +<td>15</td></tr><tr><td>CCCTG</td><td>310</td> -<td>2.095657</td> +<td>2.05389</td><td>6.622006</td><td>24</td></tr><tr> -<td>AGGGA</td> -<td>435</td> -<td>2.0769534</td> -<td>5.846266</td> -<td>1</td> -</tr> -<tr> -<td>CTCAG</td> -<td>410</td> -<td>2.0570977</td> -<td>6.143447</td> -<td>24</td> -</tr> -<tr><td>CTTCC</td> -<td>385</td> -<td>2.034384</td> +<td>390</td> +<td>2.0197318</td><td>6.4701333</td><td>17</td></tr><tr> -<td>AGCAG</td> -<td>425</td> -<td>2.0246909</td> -<td>10.499857</td> -<td>15</td> -</tr> -<tr><td>AGGAA</td> -<td>570</td> -<td>2.015381</td> +<td>580</td> +<td>2.0098667</td><td>10.390455</td><td>18</td></tr><tr> +<td>AGAGC</td> +<td>430</td> +<td>2.0076835</td> +<td>10.499858</td> +<td>5</td> +</tr> +<tr> +<td>TCTCC</td> +<td>385</td> +<td>1.9938378</td> +<td>5.181288</td> +<td>29</td> +</tr> +<tr><td>TCCTC</td> -<td>380</td> -<td>2.0079634</td> -<td>5.1761065</td> -<td>1</td> +<td>385</td> +<td>1.9938378</td> +<td>5.181288</td> +<td>48</td></tr><tr><td>TCAGC</td> -<td>400</td> -<td>2.0069244</td> +<td>405</td> +<td>1.9915122</td><td>12.286894</td><td>44</td></tr><tr> -<td>AGAGC</td> -<td>420</td> -<td>2.0008712</td> -<td>10.499858</td> -<td>5</td> +<td>TGCTG</td> +<td>380</td> +<td>1.9767327</td> +<td>6.5055346</td> +<td>47</td> +</tr> +<tr> +<td>CACCC</td> +<td>315</td> +<td>1.9728295</td> +<td>6.259694</td> +<td>9</td></tr><tr><td>TCCTG</td> -<td>375</td> -<td>1.9859626</td> +<td>380</td> +<td>1.9723336</td><td>6.4845653</td><td>8</td></tr><tr> -<td>TCTCC</td> -<td>375</td> -<td>1.9815428</td> -<td>5.1761065</td> -<td>8</td> -</tr> -<tr> -<td>CACCC</td> +<td>CAGGG</td><td>310</td> -<td>1.9809967</td> -<td>6.259694</td> -<td>9</td> -</tr> -<tr> -<td>TGTGG</td> -<td>370</td> -<td>1.9682345</td> -<td>5.210821</td> -<td>4</td> +<td>1.954536</td> +<td>6.3016763</td> +<td>21</td></tr><tr><td>GATGG</td> -<td>390</td> -<td>1.9654902</td> +<td>395</td> +<td>1.9510134</td><td>6.1708827</td><td>1</td></tr><tr><td>TGGCT</td> -<td>370</td> -<td>1.9638538</td> +<td>375</td> +<td>1.9507233</td><td>9.098641</td><td>45</td></tr><tr> -<td>TCCCT</td> -<td>370</td> -<td>1.9551222</td> -<td>5.1761065</td> -<td>37</td> -</tr> -<tr> -<td>CAGGG</td> -<td>300</td> -<td>1.9299511</td> -<td>6.3016763</td> -<td>21</td> -</tr> -<tr><td>AAGAG</td> -<td>545</td> -<td>1.9269869</td> +<td>560</td> +<td>1.9405607</td><td>9.524584</td><td>4</td></tr><tr> +<td>TGTGG</td> +<td>370</td> +<td>1.929007</td> +<td>6.5200467</td> +<td>30</td> +</tr> +<tr> +<td>CTGAG</td> +<td>390</td> +<td>1.9220302</td> +<td>6.163313</td> +<td>35</td> +</tr> +<tr> +<td>CCTGT</td> +<td>370</td> +<td>1.9204301</td> +<td>6.4845653</td> +<td>6</td> +</tr> +<tr><td>CAGAA</td> -<td>545</td> -<td>1.9226985</td> +<td>555</td> +<td>1.9189543</td><td>6.0476103</td><td>6</td></tr><tr> -<td>CTGAG</td> +<td>TCCCT</td> +<td>370</td> +<td>1.9161558</td> +<td>6.4766097</td> +<td>33</td> +</tr> +<tr> +<td>CCCAC</td> +<td>305</td> +<td>1.9101999</td> +<td>6.259694</td> +<td>4</td> +</tr> +<tr> +<td>CACCA</td> +<td>405</td> +<td>1.8825499</td> +<td>6.9757566</td> +<td>33</td> +</tr> +<tr> +<td>AAAGA</td> +<td>730</td> +<td>1.8732982</td> +<td>5.1399345</td> +<td>42</td> +</tr> +<tr> +<td>CAGTG</td><td>380</td> -<td>1.9108309</td> -<td>6.15715</td> -<td>11</td> +<td>1.8727474</td> +<td>6.163313</td> +<td>30</td> +</tr> +<tr> +<td>GAAGA</td> +<td>540</td> +<td>1.8712552</td> +<td>7.792842</td> +<td>26</td></tr><tr><td>TCTCT</td><td>460</td> -<td>1.9041945</td> +<td>1.8662432</td><td>5.068676</td><td>8</td></tr><tr> +<td>TTTCC</td> +<td>460</td> +<td>1.8662429</td> +<td>5.073749</td> +<td>38</td> +</tr> +<tr><td>GAGGC</td><td>295</td> -<td>1.897785</td> +<td>1.8599615</td><td>6.301676</td><td>22</td></tr><tr> -<td>CCCAC</td> -<td>295</td> -<td>1.885142</td> -<td>6.259694</td> -<td>4</td> +<td>TCTGT</td> +<td>455</td> +<td>1.8500755</td> +<td>5.0850673</td> +<td>49</td></tr><tr><td>CCTGC</td><td>275</td> -<td>1.8590509</td> +<td>1.8219992</td><td>9.93301</td><td>6</td></tr><tr> -<td>CCTGT</td> +<td>CCTCT</td><td>350</td> -<td>1.8535651</td> -<td>6.4845653</td> -<td>6</td> -</tr> -<tr> -<td>TTTCC</td> -<td>445</td> -<td>1.8421009</td> -<td>5.0686755</td> -<td>14</td> +<td>1.8125799</td> +<td>7.7641597</td> +<td>2</td></tr><tr><td>TGCCT</td><td>345</td> -<td>1.8270856</td> +<td>1.7906713</td><td>5.187652</td><td>12</td></tr><tr> -<td>CACAC</td> -<td>380</td> -<td>1.8022629</td> -<td>5.8073177</td> -<td>17</td> -</tr> -<tr> -<td>CCTCT</td> -<td>340</td> -<td>1.7965988</td> -<td>7.7641597</td> -<td>2</td> -</tr> -<tr><td>TTCCC</td> -<td>340</td> -<td>1.7965986</td> +<td>345</td> +<td>1.7866857</td><td>6.470133</td><td>18</td></tr><tr> -<td>GAAGA</td> -<td>500</td> -<td>1.767878</td> -<td>7.792842</td> -<td>26</td> +<td>GAGGG</td> +<td>280</td> +<td>1.769325</td> +<td>6.3283887</td> +<td>41</td> +</tr> +<tr> +<td>CACAC</td> +<td>380</td> +<td>1.7663432</td> +<td>5.813131</td> +<td>33</td> +</tr> +<tr> +<td>TCTGC</td> +<td>340</td> +<td>1.7647195</td> +<td>5.1980486</td> +<td>42</td></tr><tr><td>CTGGC</td> -<td>260</td> -<td>1.7615684</td> -<td>6.636777</td> -<td>8</td> +<td>265</td> +<td>1.7596608</td> +<td>6.6434207</td> +<td>43</td></tr><tr><td>TTCAG</td> -<td>440</td> -<td>1.7294377</td> +<td>455</td> +<td>1.7527524</td><td>9.6255</td><td>12</td></tr><tr> +<td>AGCCA</td> +<td>375</td> +<td>1.74699</td> +<td>5.8319354</td> +<td>39</td> +</tr> +<tr><td>CTCTC</td> -<td>325</td> -<td>1.717337</td> +<td>335</td> +<td>1.7348979</td><td>5.1761065</td><td>3</td></tr><tr> -<td>GTGGT</td> -<td>320</td> -<td>1.7022567</td> -<td>5.2108207</td> -<td>24</td> -</tr> -<tr><td>GGGTG</td> -<td>250</td> -<td>1.7013805</td> +<td>260</td> +<td>1.7341703</td><td>8.333022</td><td>28</td></tr><tr> -<td>TGCTT</td> -<td>410</td> -<td>1.7010024</td> -<td>5.0799813</td> -<td>4</td> +<td>TGGGG</td> +<td>260</td> +<td>1.7341703</td> +<td>8.349721</td> +<td>39</td> +</tr> +<tr> +<td>GTGGG</td> +<td>255</td> +<td>1.7008208</td> +<td>6.6730905</td> +<td>31</td> +</tr> +<tr> +<td>GGCCA</td> +<td>270</td> +<td>1.698549</td> +<td>6.293945</td> +<td>43</td> +</tr> +<tr> +<td>GCCCC</td> +<td>200</td> +<td>1.6914694</td> +<td>6.3460584</td> +<td>32</td></tr><tr><td>CTTTG</td> -<td>405</td> -<td>1.6802584</td> +<td>415</td> +<td>1.6874313</td><td>5.0799813</td><td>2</td></tr><tr> +<td>ACACA</td> +<td>485</td> +<td>1.6731915</td> +<td>5.1721287</td> +<td>14</td> +</tr> +<tr> +<td>GTGGT</td> +<td>320</td> +<td>1.6683302</td> +<td>5.216037</td> +<td>31</td> +</tr> +<tr> +<td>CTCAC</td> +<td>340</td> +<td>1.6681659</td> +<td>7.363092</td> +<td>31</td> +</tr> +<tr> +<td>TGCTT</td> +<td>410</td> +<td>1.6671008</td> +<td>5.090162</td> +<td>40</td> +</tr> +<tr> +<td>GGGGC</td> +<td>195</td> +<td>1.6602434</td> +<td>8.526694</td> +<td>40</td> +</tr> +<tr> +<td>AGTGG</td> +<td>335</td> +<td>1.654657</td> +<td>6.1708827</td> +<td>3</td> +</tr> +<tr> +<td>TTCTG</td> +<td>405</td> +<td>1.6467704</td> +<td>5.0850663</td> +<td>49</td> +</tr> +<tr><td>AGAAG</td><td>475</td> -<td>1.6794841</td> +<td>1.6460115</td><td>5.1952276</td><td>22</td></tr><tr><td>ACTCC</td> -<td>330</td> -<td>1.6520276</td> +<td>335</td> +<td>1.6436341</td><td>6.1297736</td><td>10</td></tr><tr> +<td>GGCTC</td> +<td>245</td> +<td>1.6268562</td> +<td>8.304275</td> +<td>46</td> +</tr> +<tr> +<td>TGGCA</td> +<td>330</td> +<td>1.6263331</td> +<td>8.637284</td> +<td>40</td> +</tr> +<tr> +<td>TCCTT</td> +<td>400</td> +<td>1.6228201</td> +<td>6.0946</td> +<td>40</td> +</tr> +<tr> +<td>TCTGG</td> +<td>310</td> +<td>1.612598</td> +<td>5.204428</td> +<td>43</td> +</tr> +<tr> +<td>GGGGA</td> +<td>255</td> +<td>1.6113497</td> +<td>6.3157325</td> +<td>7</td> +</tr> +<tr><td>CTGCT</td><td>310</td> -<td>1.6417291</td> +<td>1.609009</td><td>6.4845653</td><td>3</td></tr><tr> -<td>GCCCC</td> -<td>190</td> -<td>1.6395733</td> -<td>6.339712</td> -<td>37</td> +<td>CCCAA</td> +<td>345</td> +<td>1.6036536</td> +<td>5.8073177</td> +<td>10</td></tr><tr> -<td>AGTGG</td> -<td>325</td> -<td>1.6379085</td> -<td>6.1708827</td> -<td>3</td> +<td>TGGCC</td> +<td>240</td> +<td>1.5936551</td> +<td>6.6434207</td> +<td>49</td></tr><tr> -<td>TGGCA</td> -<td>325</td> -<td>1.6342632</td> -<td>6.1571493</td> -<td>16</td> -</tr> -<tr> -<td>GGCTC</td> -<td>240</td> -<td>1.626063</td> -<td>6.636776</td> -<td>25</td> -</tr> -<tr> -<td>ACACA</td> -<td>460</td> -<td>1.6192161</td> -<td>5.1721287</td> -<td>14</td> +<td>GTGCT</td> +<td>305</td> +<td>1.5865883</td> +<td>5.220104</td> +<td>50</td></tr><tr><td>GCTTT</td><td>390</td> -<td>1.6180266</td> -<td>5.0799813</td> -<td>5</td> +<td>1.5857788</td> +<td>6.1081944</td> +<td>41</td></tr><tr> -<td>TTCTG</td> -<td>390</td> -<td>1.6180266</td> -<td>5.0799813</td> -<td>3</td> +<td>CCACA</td> +<td>335</td> +<td>1.5571709</td> +<td>5.813131</td> +<td>30</td></tr><tr> -<td>TCCTT</td> -<td>390</td> -<td>1.6144258</td> -<td>6.0824113</td> -<td>16</td> +<td>CCTTC</td> +<td>300</td> +<td>1.5536399</td> +<td>6.4701333</td> +<td>17</td></tr><tr> -<td>CCCAA</td> -<td>335</td> -<td>1.588837</td> -<td>5.8073177</td> -<td>10</td> +<td>CCACT</td> +<td>315</td> +<td>1.5455065</td> +<td>6.135909</td> +<td>32</td> +</tr> +<tr> +<td>TCTTC</td> +<td>380</td> +<td>1.5416791</td> +<td>5.0737495</td> +<td>49</td> +</tr> +<tr> +<td>GTTCA</td> +<td>400</td> +<td>1.5408814</td> +<td>7.700401</td> +<td>11</td> +</tr> +<tr> +<td>AGGCA</td> +<td>330</td> +<td>1.5407803</td> +<td>5.8332543</td> +<td>6</td> +</tr> +<tr> +<td>AAAAG</td> +<td>600</td> +<td>1.5396972</td> +<td>5.782427</td> +<td>41</td></tr><tr><td>GCACA</td><td>330</td> -<td>1.5686142</td> +<td>1.5373511</td><td>5.8202715</td><td>18</td></tr><tr> -<td>GTTCA</td> -<td>395</td> -<td>1.5525635</td> -<td>7.700401</td> -<td>11</td> -</tr> -<tr> -<td>TCTTC</td> -<td>375</td> -<td>1.5523325</td> -<td>5.068676</td> -<td>4</td> -</tr> -<tr> -<td>AGGCA</td> -<td>325</td> -<td>1.5482932</td> -<td>5.8332543</td> -<td>6</td> -</tr> -<tr> -<td>GGGGA</td> -<td>240</td> -<td>1.5474048</td> -<td>6.3157325</td> -<td>7</td> -</tr> -<tr> -<td>CCTTC</td> -<td>290</td> -<td>1.5323931</td> -<td>6.4701333</td> -<td>17</td> -</tr> -<tr><td>ATGCC</td><td>305</td> -<td>1.5302798</td> +<td>1.4997808</td><td>12.286893</td><td>22</td></tr><tr><td>GAAGG</td><td>320</td> -<td>1.5278738</td> +<td>1.4974226</td><td>5.8462653</td><td>8</td></tr><tr> +<td>GAGAG</td> +<td>320</td> +<td>1.4974226</td> +<td>5.857981</td> +<td>41</td> +</tr> +<tr> +<td>TGTGC</td> +<td>285</td> +<td>1.4825499</td> +<td>5.2044287</td> +<td>29</td> +</tr> +<tr> +<td>TTGGC</td> +<td>285</td> +<td>1.4825495</td> +<td>5.199223</td> +<td>15</td> +</tr> +<tr><td>GGGAT</td> -<td>295</td> -<td>1.4867171</td> +<td>300</td> +<td>1.4817826</td><td>7.40506</td><td>21</td></tr><tr> -<td>TGTGC</td> -<td>280</td> -<td>1.4861598</td> -<td>5.199224</td> -<td>7</td> +<td>AGCTG</td> +<td>300</td> +<td>1.4784846</td> +<td>6.1633124</td> +<td>30</td></tr><tr><td>AACAG</td> -<td>420</td> -<td>1.4817125</td> +<td>425</td> +<td>1.4694693</td><td>5.1836653</td><td>10</td></tr><tr> +<td>GAGTG</td> +<td>295</td> +<td>1.4570862</td> +<td>6.1770606</td> +<td>33</td> +</tr> +<tr> +<td>GGGAC</td> +<td>230</td> +<td>1.4501395</td> +<td>6.3143044</td> +<td>40</td> +</tr> +<tr> +<td>GTGTT</td> +<td>355</td> +<td>1.4466851</td> +<td>6.134112</td> +<td>50</td> +</tr> +<tr> +<td>TTTGG</td> +<td>355</td> +<td>1.4466851</td> +<td>6.1095753</td> +<td>3</td> +</tr> +<tr><td>TCTTT</td><td>455</td> -<td>1.4755235</td> +<td>1.4461157</td><td>5.5590916</td><td>1</td></tr><tr> -<td>TTGGC</td> -<td>275</td> -<td>1.4596211</td> -<td>5.199223</td> -<td>15</td> -</tr> -<tr><td>GAGAT</td> -<td>385</td> -<td>1.4368514</td> +<td>395</td> +<td>1.4447913</td><td>6.397646</td><td>27</td></tr><tr> -<td>TTTGG</td> -<td>345</td> -<td>1.4345239</td> -<td>6.1095753</td> -<td>3</td> +<td>CAAAA</td> +<td>560</td> +<td>1.4338523</td> +<td>5.123362</td> +<td>31</td></tr><tr><td>GGTTC</td> -<td>270</td> -<td>1.4330826</td> +<td>275</td> +<td>1.4305303</td><td>10.398446</td><td>10</td></tr><tr> +<td>CCCTT</td> +<td>275</td> +<td>1.4241698</td> +<td>5.186479</td> +<td>39</td> +</tr> +<tr> +<td>CTGTT</td> +<td>350</td> +<td>1.4231348</td> +<td>5.0799813</td> +<td>10</td> +</tr> +<tr> +<td>ATGGT</td> +<td>365</td> +<td>1.4091904</td> +<td>6.7596393</td> +<td>47</td> +</tr> +<tr> +<td>TGTTG</td> +<td>345</td> +<td>1.4059336</td> +<td>5.1015162</td> +<td>40</td> +</tr> +<tr> +<td>CTGTC</td> +<td>270</td> +<td>1.4013947</td> +<td>5.198048</td> +<td>39</td> +</tr> +<tr> +<td>GAGAC</td> +<td>300</td> +<td>1.4007094</td> +<td>5.856681</td> +<td>50</td> +</tr> +<tr> +<td>CTTCT</td> +<td>345</td> +<td>1.3996824</td> +<td>7.1246448</td> +<td>50</td> +</tr> +<tr> +<td>GGCCC</td> +<td>165</td> +<td>1.398575</td> +<td>6.353853</td> +<td>2</td> +</tr> +<tr> +<td>TGAGT</td> +<td>360</td> +<td>1.3898867</td> +<td>5.7939773</td> +<td>32</td> +</tr> +<tr> +<td>GGCAC</td> +<td>220</td> +<td>1.3840029</td> +<td>6.2876506</td> +<td>17</td> +</tr> +<tr> +<td>CCTTT</td> +<td>340</td> +<td>1.3793972</td> +<td>5.068676</td> +<td>8</td> +</tr> +<tr><td>CCTTG</td><td>265</td> -<td>1.4034137</td> +<td>1.3754432</td><td>5.187652</td><td>18</td></tr><tr> -<td>CCCTT</td> -<td>265</td> -<td>1.4002901</td> -<td>5.176106</td> -<td>14</td> -</tr> -<tr> -<td>CTGTT</td> -<td>335</td> -<td>1.3898433</td> -<td>5.0799813</td> -<td>10</td> -</tr> -<tr> -<td>CCTTT</td> -<td>335</td> -<td>1.3867503</td> -<td>5.068676</td> -<td>8</td> -</tr> -<tr> -<td>GGCAC</td> -<td>215</td> -<td>1.3800533</td> -<td>6.2876506</td> -<td>17</td> -</tr> -<tr><td>TTGAA</td> -<td>465</td> -<td>1.3564935</td> +<td>475</td> +<td>1.3580486</td><td>6.4295163</td><td>7</td></tr><tr> -<td>CTTGG</td> -<td>255</td> -<td>1.3534669</td> -<td>5.1992235</td> -<td>18</td> +<td>GAGCG</td> +<td>215</td> +<td>1.3555653</td> +<td>12.603353</td> +<td>6</td></tr><tr> -<td>GTGTT</td> -<td>325</td> -<td>1.3513632</td> -<td>5.091313</td> -<td>28</td> -</tr> -<tr> -<td>GGCCC</td> -<td>155</td> -<td>1.3405302</td> -<td>6.353853</td> -<td>2</td> -</tr> -<tr> -<td>TGGTT</td> -<td>320</td> -<td>1.330573</td> -<td>5.091313</td> -<td>25</td> +<td>AAGGA</td> +<td>390</td> +<td>1.3514621</td> +<td>5.1952276</td> +<td>44</td></tr><tr><td>TTCTT</td> -<td>410</td> -<td>1.3295923</td> +<td>420</td> +<td>1.3348758</td><td>7.941558</td><td>4</td></tr><tr><td>GGGGT</td> -<td>195</td> -<td>1.327077</td> +<td>200</td> +<td>1.3339773</td><td>8.333022</td><td>45</td></tr><tr> -<td>AAGGA</td> -<td>375</td> -<td>1.3259085</td> -<td>5.1952276</td> -<td>44</td> +<td>CAGAT</td> +<td>365</td> +<td>1.3320893</td> +<td>5.4769697</td> +<td>34</td></tr><tr> -<td>CAGAT</td> -<td>350</td> -<td>1.3033215</td> -<td>5.471493</td> -<td>10</td> +<td>CTTGG</td> +<td>255</td> +<td>1.3264918</td> +<td>5.1992235</td> +<td>18</td> +</tr> +<tr> +<td>TGGTT</td> +<td>320</td> +<td>1.3040541</td> +<td>5.091313</td> +<td>25</td> +</tr> +<tr> +<td>TTGGG</td> +<td>250</td> +<td>1.3033829</td> +<td>6.5135255</td> +<td>6</td></tr><tr><td>CTGGT</td> -<td>245</td> -<td>1.3003898</td> -<td>5.1992235</td> -<td>12</td> +<td>250</td> +<td>1.3004823</td> +<td>5.204428</td> +<td>48</td> +</tr> +<tr> +<td>GCTCC</td> +<td>195</td> +<td>1.2919631</td> +<td>8.277508</td> +<td>26</td> +</tr> +<tr> +<td>TGATG</td> +<td>330</td> +<td>1.2740628</td> +<td>5.7939773</td> +<td>46</td></tr><tr><td>TGTCC</td><td>245</td> -<td>1.2974956</td> +<td>1.2716361</td><td>5.187652</td><td>21</td></tr><tr> -<td>GCTCC</td> -<td>190</td> -<td>1.2844352</td> -<td>8.277508</td> -<td>26</td> +<td>GGCTT</td> +<td>240</td> +<td>1.2484628</td> +<td>5.199223</td> +<td>4</td></tr><tr><td>GACAG</td><td>265</td> -<td>1.2624544</td> +<td>1.2372932</td><td>5.833254</td><td>27</td></tr><tr> -<td>GAGCG</td> -<td>195</td> -<td>1.2544682</td> -<td>12.603353</td> -<td>6</td> -</tr> -<tr> -<td>TTGGG</td> +<td>GGTGT</td><td>235</td> -<td>1.2500948</td> -<td>6.5135255</td> -<td>6</td> +<td>1.2251799</td> +<td>5.21082</td> +<td>27</td></tr><tr><td>AATGC</td><td>335</td> -<td>1.2474647</td> +<td>1.2226022</td><td>10.031068</td><td>21</td></tr><tr> -<td>GGCTT</td> -<td>235</td> -<td>1.2473125</td> -<td>5.199223</td> -<td>4</td> -</tr> -<tr><td>TTTGC</td> -<td>295</td> -<td>1.223892</td> +<td>300</td> +<td>1.2198299</td><td>5.0799813</td><td>9</td></tr><tr> -<td>GGTGT</td> +<td>GTCCT</td><td>230</td> -<td>1.223497</td> -<td>5.21082</td> -<td>27</td> +<td>1.1937809</td> +<td>5.1928453</td> +<td>47</td> +</tr> +<tr> +<td>GGGCC</td> +<td>140</td> +<td>1.1893166</td> +<td>6.3744006</td> +<td>43</td> +</tr> +<tr> +<td>ATCCC</td> +<td>240</td> +<td>1.1775287</td> +<td>6.135909</td> +<td>43</td> +</tr> +<tr> +<td>GCTCT</td> +<td>225</td> +<td>1.1678292</td> +<td>7.789268</td> +<td>47</td> +</tr> +<tr> +<td>AGCCC</td> +<td>185</td> +<td>1.1612303</td> +<td>6.2799363</td> +<td>31</td></tr><tr><td>GATCG</td><td>235</td> -<td>1.181698</td> -<td>6.1571493</td> -<td>45</td> +<td>1.1581463</td> +<td>6.1633124</td> +<td>29</td> +</tr> +<tr> +<td>ACCCT</td> +<td>230</td> +<td>1.128465</td> +<td>6.129773</td> +<td>10</td> +</tr> +<tr> +<td>GTTGG</td> +<td>215</td> +<td>1.1209095</td> +<td>5.2160373</td> +<td>47</td></tr><tr><td>AGCTC</td><td>225</td> -<td>1.1288949</td> +<td>1.1063956</td><td>6.1434464</td><td>25</td></tr><tr> -<td>ACCCT</td> +<td>CCCAT</td><td>225</td> -<td>1.1263824</td> +<td>1.1039332</td><td>6.129773</td> -<td>10</td> +<td>21</td></tr><tr><td>CGGAA</td><td>235</td> -<td>1.119535</td> +<td>1.0972222</td><td>9.333206</td><td>1</td></tr><tr> -<td>CCCAT</td> -<td>220</td> -<td>1.1013516</td> -<td>6.129773</td> -<td>21</td> -</tr> -<tr><td>TCTTG</td><td>265</td> -<td>1.0994283</td> +<td>1.0775164</td><td>5.0799813</td><td>21</td></tr><tr><td>ATGCA</td><td>295</td> -<td>1.0985136</td> +<td>1.0766199</td><td>5.4714913</td><td>37</td></tr><tr><td>GCTTG</td><td>205</td> -<td>1.0880812</td> +<td>1.0663953</td><td>5.199223</td><td>2</td></tr><tr><td>AGCGG</td><td>165</td> -<td>1.061473</td> +<td>1.0403174</td><td>12.603352</td><td>7</td></tr><tr> +<td>TTGCC</td> +<td>200</td> +<td>1.0380702</td> +<td>5.1876516</td> +<td>3</td> +</tr> +<tr> +<td>AACCT</td> +<td>285</td> +<td>1.0378094</td> +<td>5.4593143</td> +<td>13</td> +</tr> +<tr><td>AACCA</td><td>300</td> -<td>1.0560105</td> +<td>1.0349638</td><td>5.1721287</td><td>22</td></tr><tr> -<td>AACCT</td> -<td>280</td> -<td>1.0403365</td> -<td>5.4593143</td> -<td>13</td> -</tr> -<tr><td>CCGAG</td><td>160</td> -<td>1.0270164</td> +<td>1.0065476</td><td>12.575301</td><td>25</td></tr><tr> -<td>TTGCC</td> +<td>GTTCC</td><td>190</td> -<td>1.0062209</td> -<td>5.1876516</td> -<td>3</td> +<td>0.9861668</td> +<td>6.4845653</td> +<td>27</td></tr><tr><td>ACTCA</td> -<td>265</td> -<td>0.9846043</td> +<td>270</td> +<td>0.983188</td><td>5.4593153</td><td>11</td></tr><tr><td>CTCAT</td> -<td>250</td> -<td>0.98044825</td> +<td>255</td> +<td>0.9801258</td><td>5.7624474</td><td>4</td></tr><tr> -<td>GTTCC</td> -<td>185</td> -<td>0.9797416</td> -<td>6.4845653</td> -<td>27</td> -</tr> -<tr><td>GAACC</td> -<td>205</td> -<td>0.97444224</td> +<td>210</td> +<td>0.9783144</td><td>5.820272</td><td>25</td></tr><tr><td>GGCGG</td><td>110</td> -<td>0.9555928</td> +<td>0.93654746</td><td>10.637051</td><td>44</td></tr><tr> +<td>GCGGG</td> +<td>110</td> +<td>0.93654746</td> +<td>6.3886194</td> +<td>36</td> +</tr> +<tr> +<td>ATCGG</td> +<td>190</td> +<td>0.93637353</td> +<td>6.163312</td> +<td>30</td> +</tr> +<tr> +<td>GTCTG</td> +<td>180</td> +<td>0.9363471</td> +<td>5.2096424</td> +<td>41</td> +</tr> +<tr><td>GCGGT</td> -<td>130</td> -<td>0.8827489</td> +<td>140</td> +<td>0.93170583</td><td>13.303162</td><td>8</td></tr><tr> -<td>GCGGG</td> -<td>100</td> -<td>0.86872077</td> -<td>6.3822303</td> -<td>45</td> +<td>CGGGG</td> +<td>105</td> +<td>0.8939771</td> +<td>6.3886194</td> +<td>46</td> +</tr> +<tr> +<td>GGGCG</td> +<td>105</td> +<td>0.8939771</td> +<td>8.518159</td> +<td>43</td> +</tr> +<tr> +<td>TCGGA</td> +<td>170</td> +<td>0.83780795</td> +<td>7.395975</td> +<td>31</td> +</tr> +<tr> +<td>CTTGT</td> +<td>205</td> +<td>0.83355045</td> +<td>5.0850673</td> +<td>38</td></tr><tr><td>TGCCG</td><td>125</td> -<td>0.846908</td> +<td>0.83002883</td><td>14.93275</td><td>23</td></tr><tr><td>AGGCG</td> -<td>120</td> -<td>0.7719804</td> +<td>125</td> +<td>0.7881193</td><td>6.3016763</td><td>15</td></tr><tr><td>CGGTT</td> -<td>140</td> -<td>0.74307984</td> +<td>150</td> +<td>0.78028923</td><td>10.398446</td><td>9</td></tr><tr> +<td>GTGAC</td> +<td>150</td> +<td>0.7392424</td> +<td>6.163313</td> +<td>32</td> +</tr> +<tr><td>GCCGA</td><td>115</td> -<td>0.738168</td> +<td>0.723456</td><td>12.575301</td><td>24</td></tr><tr> +<td>CCCGC</td> +<td>85</td> +<td>0.7188745</td> +<td>6.3460584</td> +<td>30</td> +</tr> +<tr> +<td>CCCCG</td> +<td>85</td> +<td>0.7188745</td> +<td>10.576764</td> +<td>29</td> +</tr> +<tr><td>CGAGA</td> -<td>130</td> -<td>0.61931723</td> +<td>135</td> +<td>0.6303192</td><td>9.333206</td><td>26</td></tr><tr><td>CGGGA</td> -<td>85</td> -<td>0.5468194</td> +<td>90</td> +<td>0.5674459</td><td>6.301676</td><td>24</td></tr><tr><td>CACGG</td><td>85</td> -<td>0.54560244</td> +<td>0.5347284</td><td>6.2876506</td><td>37</td></tr> +<tr> +<td>CGCCT</td> +<td>80</td> +<td>0.5300361</td> +<td>6.6286345</td> +<td>30</td> +</tr> +<tr> +<td>CCGCA</td> +<td>75</td> +<td>0.47076905</td> +<td>6.2799363</td> +<td>36</td> +</tr> +<tr> +<td>CGTTG</td> +<td>40</td> +<td>0.20807713</td> +<td>5.2044277</td> +<td>46</td> +</tr></table> -<p><a href="#summary">Back to summary</a></div> -</div><div class="footer">Produced by <a href="http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/">FastQC</a> (version 0.9.1)</div> -</body></html> \ No newline at end of file +</div> +</body></html><div class="module"><h2>Files created by FastQC</h2><table cellspacing="2" cellpadding="2"> +<tr><td><a href="dataset_1.dat_fastqc.zip">dataset_1.dat_fastqc.zip (312.4 KB)</a></td></tr> +<tr><td><a href="duplication_levels.png">duplication_levels.png (14.5 KB)</a></td></tr> +<tr><td><a href="fastqc_data.txt">fastqc_data.txt (15.0 KB)</a></td></tr> +<tr><td><a href="fastqc_report.html">fastqc_report.html (25.2 KB)</a></td></tr> +<tr><td><a href="kmer_profiles.png">kmer_profiles.png (186.7 KB)</a></td></tr> +<tr><td><a href="per_base_gc_content.png">per_base_gc_content.png (12.1 KB)</a></td></tr> +<tr><td><a href="per_base_n_content.png">per_base_n_content.png (7.4 KB)</a></td></tr> +<tr><td><a href="per_base_quality.png">per_base_quality.png (9.6 KB)</a></td></tr> +<tr><td><a href="per_base_sequence_content.png">per_base_sequence_content.png (23.9 KB)</a></td></tr> +<tr><td><a href="per_sequence_gc_content.png">per_sequence_gc_content.png (29.6 KB)</a></td></tr> +<tr><td><a href="per_sequence_quality.png">per_sequence_quality.png (21.9 KB)</a></td></tr> +<tr><td><a href="sequence_length_distribution.png">sequence_length_distribution.png (18.9 KB)</a></td></tr> +<tr><td><a href="summary.txt">summary.txt (465 B)</a></td></tr> +</table> +<a href="http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/">FastQC documentation and full attribution is here</a><br/><hr/> +FastQC was run by Galaxy using the rgenetics rgFastQC wrapper - see http://rgenetics.org for details and licensing +</div></div><div class="footer">Produced by <a href="http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/">FastQC</a> (version 0.10.0)</div>
diff -r e637518dada717ac2e1cde85c28d2de0f106fe8a -r a87d7b85c5771372550bd786bd15606f8e29cf41 tools/rgenetics/rgFastQC.py --- a/tools/rgenetics/rgFastQC.py +++ b/tools/rgenetics/rgFastQC.py @@ -91,21 +91,20 @@ def fix_fastqc(self,rep=[],flist=[],runlog=[]): """ add some of our stuff to the html """ - bs = '</body></html>\n' # hope they don't change this - try: - bodyindex = rep.index(bs) # hope they don't change this - except: - bodyindex = len(rep) - 1 - res = [] - res.append('<table>\n') + bodyindex = len(rep) -1 # hope they don't change this + footrow = bodyindex - 1 + footer = rep[footrow] + rep = rep[:footrow] + rep[footrow+1:] + res = ['<div class="module"><h2>Files created by FastQC</h2><table cellspacing="2" cellpadding="2">\n'] flist.sort() for i,f in enumerate(flist): if not(os.path.isdir(f)): fn = os.path.split(f)[-1] res.append('<tr><td><a href="%s">%s</a></td></tr>\n' % (fn,getFileString(fn, self.opts.outputdir))) - res.append('</table><p/>\n') + res.append('</table>\n') res.append('<a href="http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/">FastQC documentation and full attribution is here</a><br/><hr/>\n') - res.append('FastQC was run by Galaxy using the rgenetics rgFastQC wrapper - see http://rgenetics.org for details and licensing\n') + res.append('FastQC was run by Galaxy using the rgenetics rgFastQC wrapper - see http://rgenetics.org for details and licensing\n</div>') + res.append(footer) fixed = rep[:bodyindex] + res + rep[bodyindex:] return fixed # with our additions
@@ -147,3 +146,4 @@ f.write(''.join(html)) f.close()
+
diff -r e637518dada717ac2e1cde85c28d2de0f106fe8a -r a87d7b85c5771372550bd786bd15606f8e29cf41 tools/rgenetics/rgFastQC.xml --- a/tools/rgenetics/rgFastQC.xml +++ b/tools/rgenetics/rgFastQC.xml @@ -1,4 +1,4 @@ -<tool name="Fastqc: Fastqc QC" id="fastqc" version="0.2"> +<tool name="Fastqc: Fastqc QC" id="fastqc" version="0.3"><description>using FastQC from Babraham</description><command interpreter="python"> rgFastQC.py -i $input_file -d $html_file.files_path -o $html_file -n "$out_prefix" -f $input_file.ext -e ${GALAXY_DATA_INDEX_DIR}/shared/jars/FastQC/fastqc
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