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<h3>
Steffen Möller pushed to branch master
at <a href="https://salsa.debian.org/blends-team/med">Debian Blends Team / med</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/blends-team/med/commit/9ba96df3ed031325b5ec50bba31dc5ee36adaabc">9ba96df3</a></strong>
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<span>by Steffen Möller</span>
<i>at 2018-07-04T15:16:56+00:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Removed some uninspiring ones from bio.
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<h4>1 changed file:</h4>
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<li class="file-stats">
<a href="#26b0fba1305554e48a6078ef69d0cfe948ad5765">
tasks/bio
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<h4>Changes:</h4>
<li id="26b0fba1305554e48a6078ef69d0cfe948ad5765">
<a href="https://salsa.debian.org/blends-team/med/commit/9ba96df3ed031325b5ec50bba31dc5ee36adaabc#26b0fba1305554e48a6078ef69d0cfe948ad5765"><strong>tasks/bio</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1257,13 +1257,15 @@ Remark: Issuer of previous ITP said:</td>
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<pre style="margin: 0;"> <span id="LC1257" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Probably it makes sense to remove this project from the prospective packages</span></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1258" class="line" lang="mosel"><span class="s1" style="color: #d14;"> list.</span></span>
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<pre style="margin: 0;"> <span id="LC1259" class="line" lang="mosel"></span>
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<pre style="margin: 0;">-<span id="LC1260" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: gbioseq</span></span>
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<pre style="margin: 0;">-<span id="LC1261" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://www.bioinformatics.org/project/?group_id=94</span></span>
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<pre style="margin: 0;">-<span id="LC1262" class="line" lang="mosel"><span class="s1" style="color: #d14;">License: GPL</span></span>
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<pre style="margin: 0;">-<span id="LC1263" class="line" lang="mosel"><span class="s1" style="color: #d14;">Pkg-Description: DNA sequence editor for Linux</span></span>
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<pre style="margin: 0;">-<span id="LC1264" class="line" lang="mosel"><span class="s1" style="color: #d14;"> gBioSeq is in an early stage of development, but it is already running.</span></span>
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<pre style="margin: 0;">-<span id="LC1265" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The goal is to provide an easy to use software to edit DNA sequences under</span></span>
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1266
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<pre style="margin: 0;">-<span id="LC1266" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Linux, Windows, MacOsX, using GTK C# (Mono).</span></span>
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<pre style="margin: 0;">+<span id="LC1260" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Recommends: gbioseq</span></span>
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<pre style="margin: 0;">+<span id="LC1261" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Homepage: http://www.bioinformatics.org/project/?group_id=94</span></span>
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<pre style="margin: 0;">+<span id="LC1262" class="line" lang="mosel"><span class="s1" style="color: #d14;">#License: GPL</span></span>
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<pre style="margin: 0;">+<span id="LC1263" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Pkg-Description: DNA sequence editor for Linux</span></span>
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<pre style="margin: 0;">+<span id="LC1264" class="line" lang="mosel"><span class="s1" style="color: #d14;"># gBioSeq is in an early stage of development, but it is already running.</span></span>
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<pre style="margin: 0;">+<span id="LC1265" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The goal is to provide an easy to use software to edit DNA sequences under</span></span>
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<pre style="margin: 0;">+<span id="LC1266" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Linux, Windows, MacOsX, using GTK C# (Mono).</span></span>
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<pre style="margin: 0;">+<span id="LC1267" class="line" lang="mosel"><span class="s1" style="color: #d14;">#</span></span>
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<pre style="margin: 0;">+<span id="LC1268" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Update: Still in the early development phase in which Debian does not need it</span></span>
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<pre style="margin: 0;"> <span id="LC1269" class="line" lang="mosel"></span>
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<pre style="margin: 0;"> <span id="LC1270" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: phpphylotree</span></span>
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<pre style="margin: 0;"> <span id="LC1271" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://www.bioinformatics.org/project/?group_id=372</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1825,137 +1827,150 @@ Pkg-Description: quality-control checking of finished cDNA clone sequences</td>
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1825
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1827
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<pre style="margin: 0;"> <span id="LC1827" class="line" lang="mosel"> <span class="n" style="color: #333;">dump</span> <span class="n" style="color: #333;">cDNA</span> <span class="n" style="color: #333;">clones</span> <span class="n" style="color: #333;">sequences</span> <span class="p">(</span><span class="n" style="color: #333;">such</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">those</span> <span class="n" style="color: #333;">that</span> <span class="n" style="color: #333;">passed</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">QC</span></span>
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<td class="diff-line-num old_line" data-linenumber="1826" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1826
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1828
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<pre style="margin: 0;"> <span id="LC1828" class="line" lang="mosel"> <span class="n" style="color: #333;">checking</span><span class="p">)</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">cdna_db</span><span class="p">.</span></span>
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1827
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1829
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<pre style="margin: 0;"> <span id="LC1829" class="line" lang="mosel"></span>
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1828
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<pre style="margin: 0;">-<span id="LC1828" class="line" lang="mosel"><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">das</span><span class="p">-</span><span class="n" style="color: #333;">proserver</span></span>
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1829
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1829" class="line" lang="mosel"><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">sanger</span><span class="p">.</span><span class="n" style="color: #333;">ac</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">Software</span><span class="p">/</span><span class="n" style="color: #333;">analysis</span><span class="p">/</span><span class="n" style="color: #333;">proserver</span><span class="p">/</span></span>
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1830
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1830" class="line" lang="mosel"><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="n" style="color: #333;">Same</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">Perl</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1831" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1831
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1831" class="line" lang="mosel"><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">lightweight</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">server</span></span>
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1832
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1832" class="line" lang="mosel"> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">protocol</span></span>
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1833
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<pre style="margin: 0;">-<span id="LC1833" class="line" lang="mosel"> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">open</span> <span class="n" style="color: #333;">sharing</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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1834
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<pre style="margin: 0;">-<span id="LC1834" class="line" lang="mosel"> <span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1835" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1835
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1835" class="line" lang="mosel"> <span class="n" style="color: #333;">ProServer</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">very</span> <span class="n" style="color: #333;">lightweight</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">server</span> <span class="n" style="color: #333;">written</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">Perl</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1836" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1836
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1836" class="line" lang="mosel"> <span class="n" style="color: #333;">simple</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">install</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">configure</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">has</span> <span class="n" style="color: #333;">existing</span> <span class="n" style="color: #333;">adaptors</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">wide</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1837" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1837
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1837" class="line" lang="mosel"> <span class="n" style="color: #333;">variety</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">sources</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">also</span> <span class="n" style="color: #333;">easily</span> <span class="n" style="color: #333;">extensible</span> <span class="n" style="color: #333;">allowing</span></span>
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1838
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1838" class="line" lang="mosel"> <span class="n" style="color: #333;">adaptors</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">be</span> <span class="n" style="color: #333;">written</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">other</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">sources</span><span class="p">.</span> <span class="n" style="color: #333;">More</span> <span class="n" style="color: #333;">information</span> <span class="n" style="color: #333;">about</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1839" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1839
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1839" class="line" lang="mosel"> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">protocol</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">what</span> <span class="n" style="color: #333;">it</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">useful</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">over</span> <span class="n" style="color: #333;">at</span></span>
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1840
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1840" class="line" lang="mosel"> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">biodas</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">.</span></span>
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1841
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<pre style="margin: 0;">-<span id="LC1841" class="line" lang="mosel"> <span class="p">.</span></span>
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1842
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<pre style="margin: 0;">-<span id="LC1842" class="line" lang="mosel"> <span class="n" style="color: #333;">New</span> <span class="n" style="color: #333;">large</span> <span class="n" style="color: #333;">scale</span> <span class="n" style="color: #333;">techniques</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">biology</span> <span class="n" style="color: #333;">are</span> <span class="n" style="color: #333;">producing</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">rapidly</span> <span class="n" style="color: #333;">growing</span></span>
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1843
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1843" class="line" lang="mosel"> <span class="n" style="color: #333;">amount</span> <span class="k" style="font-weight: 600;">of</span> <span class="k" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">data</span><span class="p">.</span> <span class="n" style="color: #333;">Centralized</span> <span class="n" style="color: #333;">database</span> <span class="n" style="color: #333;">resources</span> <span class="n" style="color: #333;">are</span></span>
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1844
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1844" class="line" lang="mosel"> <span class="n" style="color: #333;">confronted</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">task</span> <span class="n" style="color: #333;">how</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">scale</span> <span class="n" style="color: #333;">their</span> <span class="n" style="color: #333;">storage</span> <span class="n" style="color: #333;">facilities</span><span class="p">,</span> <span class="n" style="color: #333;">how</span></span>
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1845
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1845" class="line" lang="mosel"> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">manage</span> <span class="n" style="color: #333;">frequent</span> <span class="n" style="color: #333;">updates</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">how</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">data</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">the</span></span>
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1846
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1846" class="line" lang="mosel"> <span class="n" style="color: #333;">community</span><span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1847" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1847
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1847" class="line" lang="mosel"> <span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1848" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1848
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1848" class="line" lang="mosel"> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">addresses</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">issues</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1849" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1849
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1849" class="line" lang="mosel"> <span class="n" style="color: #333;">frequently</span> <span class="n" style="color: #333;">being</span> <span class="n" style="color: #333;">used</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">openly</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">annotations</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1850" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1850
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1850" class="line" lang="mosel"> <span class="n" style="color: #333;">between</span> <span class="n" style="color: #333;">distributed</span> <span class="n" style="color: #333;">sites</span><span class="p">.</span> <span class="n" style="color: #333;">Data</span> <span class="n" style="color: #333;">distribution</span><span class="p">,</span> <span class="n" style="color: #333;">performed</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">DAS</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1851" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1851
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1851" class="line" lang="mosel"> <span class="n" style="color: #333;">servers</span><span class="p">,</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">separated</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">visualization</span><span class="p">,</span> <span class="n" style="color: #333;">which</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">done</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">DAS</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1852" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1852
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1852" class="line" lang="mosel"> <span class="n" style="color: #333;">clients</span><span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1853" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1853
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1853" class="line" lang="mosel"> <span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1854" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1854
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1854" class="line" lang="mosel"> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">client</span><span class="p">-</span><span class="n" style="color: #333;">server</span> <span class="nf" style="color: #900; font-weight: 600;">system</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">which</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">client</span> <span class="n" style="color: #333;">like</span> <span class="n" style="color: #333;">Ensembl</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1855" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1855
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1855" class="line" lang="mosel"> <span class="n" style="color: #333;">integrates</span> <span class="n" style="color: #333;">information</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">multiple</span> <span class="n" style="color: #333;">servers</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">allows</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">single</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1856" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1856
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1856" class="line" lang="mosel"> <span class="n" style="color: #333;">machine</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">gather</span> <span class="n" style="color: #333;">up</span> <span class="n" style="color: #333;">genome</span> <span class="n" style="color: #333;">annotation</span> <span class="n" style="color: #333;">information</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">multiple</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1857" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1857
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1857" class="line" lang="mosel"> <span class="n" style="color: #333;">distant</span> <span class="n" style="color: #333;">web</span> <span class="n" style="color: #333;">sites</span><span class="p">,</span> <span class="n" style="color: #333;">collate</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">information</span><span class="p">,</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">display</span> <span class="n" style="color: #333;">it</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1858" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1858
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1858" class="line" lang="mosel"> <span class="n" style="color: #333;">user</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">single</span> <span class="n" style="color: #333;">view</span><span class="p">.</span> <span class="n" style="color: #333;">Little</span> <span class="n" style="color: #333;">coordination</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">needed</span> <span class="n" style="color: #333;">among</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1859" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1859
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1859" class="line" lang="mosel"> <span class="n" style="color: #333;">various</span> <span class="n" style="color: #333;">information</span> <span class="n" style="color: #333;">providers</span><span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1860" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1860
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1860" class="line" lang="mosel"> <span class="p">.</span></span>
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1861
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1861" class="line" lang="mosel"> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">heavily</span> <span class="n" style="color: #333;">used</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">genome</span> <span class="n" style="color: #333;">bioinformatics</span> <span class="n" style="color: #333;">community</span><span class="p">.</span> <span class="n" style="color: #333;">Over</span> <span class="n" style="color: #333;">the</span></span>
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1862
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1862" class="line" lang="mosel"> <span class="n" style="color: #333;">last</span> <span class="n" style="color: #333;">years</span> <span class="n" style="color: #333;">we</span> <span class="n" style="color: #333;">have</span> <span class="n" style="color: #333;">also</span> <span class="n" style="color: #333;">seen</span> <span class="n" style="color: #333;">growing</span> <span class="n" style="color: #333;">acceptance</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">protein</span></span>
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1863
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1863" class="line" lang="mosel"> <span class="n" style="color: #333;">sequence</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">structure</span> <span class="n" style="color: #333;">communities</span><span class="p">.</span></span>
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1864
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1864" class="line" lang="mosel"></span>
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1865
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1865" class="line" lang="mosel"><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">spice</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1866" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1866
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1866" class="line" lang="mosel"><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">efamily</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">software</span><span class="p">/</span><span class="n" style="color: #333;">dasclients</span><span class="p">/</span><span class="n" style="color: #333;">spice</span><span class="p">/</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1867" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1867
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1867" class="line" lang="mosel"><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="n" style="color: #333;">GPL</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1868" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1868
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1868" class="line" lang="mosel"><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">client</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1869" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1869
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1869" class="line" lang="mosel"> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">protocol</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1870" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1870
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1870" class="line" lang="mosel"> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">open</span> <span class="n" style="color: #333;">sharing</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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1871
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<pre style="margin: 0;">-<span id="LC1871" class="line" lang="mosel"> <span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1872" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1872
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1872" class="line" lang="mosel"> <span class="n" style="color: #333;">SPICE</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">browser</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">protein</span> <span class="n" style="color: #333;">sequences</span><span class="p">,</span> <span class="n" style="color: #333;">structures</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">their</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1873" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1873
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1873" class="line" lang="mosel"> <span class="n" style="color: #333;">annotations</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">can</span> <span class="n" style="color: #333;">display</span> <span class="n" style="color: #333;">annotations</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">PDB</span><span class="p">,</span> <span class="n" style="color: #333;">UniProt</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">Ensembl</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1874
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1874" class="line" lang="mosel"> <span class="n" style="color: #333;">Peptides</span><span class="p">.</span> <span class="n" style="color: #333;">All</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">retrieved</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">different</span> <span class="n" style="color: #333;">sites</span> <span class="n" style="color: #333;">on</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">Internet</span><span class="p">,</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1875" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1875
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1875" class="line" lang="mosel"> <span class="n" style="color: #333;">that</span> <span class="n" style="color: #333;">make</span> <span class="n" style="color: #333;">their</span> <span class="n" style="color: #333;">annotations</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">using</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">protocol</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1876" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1876
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1876" class="line" lang="mosel"> <span class="n" style="color: #333;">possible</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">add</span> <span class="n" style="color: #333;">new</span> <span class="n" style="color: #333;">annotations</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">SPICE</span><span class="p">,</span> <span class="k" style="font-weight: 600;">and</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">compare</span> <span class="n" style="color: #333;">them</span> <span class="k" style="font-weight: 600;">with</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1877" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1877
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1877" class="line" lang="mosel"> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">already</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1878" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1878
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1878" class="line" lang="mosel"></span>
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<td class="diff-line-num old old_line" data-linenumber="1879" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1879
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<pre style="margin: 0;">-<span id="LC1879" class="line" lang="mosel"><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">decipher</span></span>
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1880
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<pre style="margin: 0;">-<span id="LC1880" class="line" lang="mosel"><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">sanger</span><span class="p">.</span><span class="n" style="color: #333;">ac</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">Software</span><span class="p">/</span><span class="n" style="color: #333;">analysis</span><span class="p">/</span><span class="n" style="color: #333;">decipher</span><span class="p">/</span></span>
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1881
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<pre style="margin: 0;">-<span id="LC1881" class="line" lang="mosel"><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="k" style="font-weight: 600;">To</span> <span class="n" style="color: #333;">be</span> <span class="n" style="color: #333;">clarified</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1882" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1882
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1882" class="line" lang="mosel"><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">tracks</span> <span class="n" style="color: #333;">duplications</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">deletions</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DNA</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">patients</span></span>
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1883
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1883" class="line" lang="mosel"> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">tracks</span> <span class="n" style="color: #333;">submicroscopic</span> <span class="n" style="color: #333;">duplications</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">deletions</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DNA</span> <span class="k" style="font-weight: 600;">in</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1884" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1884
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1884" class="line" lang="mosel"> <span class="n" style="color: #333;">patients</span> <span class="n" style="color: #333;">together</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">phenotypes</span> <span class="n" style="color: #333;">exhibited</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">those</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1885" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1885
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1885" class="line" lang="mosel"> <span class="n" style="color: #333;">patients</span><span class="p">.</span> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">tallies</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">genetic</span> <span class="n" style="color: #333;">abnormalities</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">genes</span> <span class="k" style="font-weight: 600;">and</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1886" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1886
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<pre style="margin: 0;">-<span id="LC1886" class="line" lang="mosel"> <span class="n" style="color: #333;">other</span> <span class="n" style="color: #333;">features</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">interest</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">affected</span> <span class="n" style="color: #333;">areas</span><span class="p">.</span> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">aim</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DECIPHER</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1887" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1887
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1887" class="line" lang="mosel"> <span class="n" style="color: #333;">is</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">provide</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">research</span> <span class="n" style="color: #333;">tool</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">aid</span> <span class="n" style="color: #333;">clinical</span> <span class="n" style="color: #333;">diagnosis</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">treatment</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1888" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1888
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1888" class="line" lang="mosel"> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">conditions</span><span class="p">.</span> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">makes</span> <span class="n" style="color: #333;">use</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">technology</span> <span class="k" style="font-weight: 600;">to</span></span>
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1889
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<pre style="margin: 0;">-<span id="LC1889" class="line" lang="mosel"> <span class="n" style="color: #333;">integrate</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">Ensembl</span><span class="p">,</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">world</span><span class="s1" style="color: #d14;">'s leading genome browser.</span></span>
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1890
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<pre style="margin: 0;">-<span id="LC1890" class="line" lang="mosel"></span>
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1891
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<pre style="margin: 0;">-<span id="LC1891" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: est-db</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1892" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1892
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<pre style="margin: 0;">-<span id="LC1892" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://www.sanger.ac.uk/Software/analysis/est_db/</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1893" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1893
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<pre style="margin: 0;">-<span id="LC1893" class="line" lang="mosel"><span class="s1" style="color: #d14;">License: Artistic</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1894" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1894
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<pre style="margin: 0;">-<span id="LC1894" class="line" lang="mosel"><span class="s1" style="color: #d14;">Pkg-Description: Software suite for expressed sequence tag (EST) sequencing</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1895" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1895
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1895" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The est_db package is a software suite and database system designed</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1896" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1896
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1896" class="line" lang="mosel"><span class="s1" style="color: #d14;"> to support expressed sequence tag (EST) sequencing projects, and to</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1897" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1897
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1897" class="line" lang="mosel"><span class="s1" style="color: #d14;"> provide comprehensive bioinformatic analysis of sequenced EST</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1898" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1898
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1898" class="line" lang="mosel"><span class="s1" style="color: #d14;"> libraries, for gene discovery and other purposes. The database can</span></span>
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1899
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<pre style="margin: 0;">-<span id="LC1899" class="line" lang="mosel"><span class="s1" style="color: #d14;"> hold and efficiently process hundreds of thousands of EST sequences,</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1900" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1900
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1900" class="line" lang="mosel"><span class="s1" style="color: #d14;"> track the cDNA libraries and clones to which they belong, and store</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1901" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1901
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1901" class="line" lang="mosel"><span class="s1" style="color: #d14;"> the results of their analysis. Should they be available, large</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1902" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1902
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1902" class="line" lang="mosel"><span class="s1" style="color: #d14;"> compute farms can be used for the analysis.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1903" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1903
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1903" class="line" lang="mosel"><span class="s1" style="color: #d14;"> .</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1904" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1904
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1904" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Extensive bioinformatic analysis can be carried out on the sequenced</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1905" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1905
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1905" class="line" lang="mosel"><span class="s1" style="color: #d14;"> EST libraries, including similarity (BLAST) searches, protein</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1906" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1906
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1906" class="line" lang="mosel"><span class="s1" style="color: #d14;"> sequence prediction, and the import of EST clustering and assembly</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1907" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1907
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1907" class="line" lang="mosel"><span class="s1" style="color: #d14;"> data from external sources. Results are searchable via a web page,</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1908" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1908
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1908" class="line" lang="mosel"><span class="s1" style="color: #d14;"> with graphic output of the various analyses, enabling one to retrieve</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1909" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1909
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1909" class="line" lang="mosel"><span class="s1" style="color: #d14;"> information pertaining to a particular cDNA clone, or EST read, as</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1910" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1910
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1910" class="line" lang="mosel"><span class="s1" style="color: #d14;"> well as view EST clustering results, or graphical representations of</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1911" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1911
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1911" class="line" lang="mosel"><span class="s1" style="color: #d14;"> BLAST results on the searched EST sequences.</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1912" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1912
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1912" class="line" lang="mosel"><span class="s1" style="color: #d14;"> .</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1913" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1913
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1913" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The est_db package is likely to appeal not only to sequencing groups</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1914" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1914
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1914" class="line" lang="mosel"><span class="s1" style="color: #d14;"> directly employed in EST sequencing, but also to groups interested in</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1915" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1915
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1915" class="line" lang="mosel"><span class="s1" style="color: #d14;"> performing bespoke analysis of ESTs that may already be publically</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1916" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1916
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1916" class="line" lang="mosel"><span class="s1" style="color: #d14;"> available, in order to support their ongoing research aims. The</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1917" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1917
</td>
<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1917" class="line" lang="mosel"><span class="s1" style="color: #d14;"> package is easily-extensible, via an API designed specifically to</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1918" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1918
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1918" class="line" lang="mosel"><span class="s1" style="color: #d14;"> handle ESTs and their analysis. It is open source and is made</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1919" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1919
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1919" class="line" lang="mosel"><span class="s1" style="color: #d14;"> available free of charge, and, where possible, similarly</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1920" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1920
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1920" class="line" lang="mosel"><span class="s1" style="color: #d14;"> open-licensed components have been used in its development.</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1921" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1921
</td>
<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1921" class="line" lang="mosel"></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1922" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1922
</td>
<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1922" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: finex</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1923" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1923
</td>
<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
</td>
<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1923" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://www.sanger.ac.uk/Software/analysis/finex/</span></span>
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1924
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<pre style="margin: 0;">-<span id="LC1924" class="line" lang="mosel"><span class="s1" style="color: #d14;">License: To be clarified</span></span>
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1925
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<pre style="margin: 0;">-<span id="LC1925" class="line" lang="mosel"><span class="s1" style="color: #d14;">Pkg-Description: sequence homology searching</span></span>
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1926
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<pre style="margin: 0;">-<span id="LC1926" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The FINEX program allows sequence homology searching techniques to be</span></span>
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1927
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<pre style="margin: 0;">-<span id="LC1927" class="line" lang="mosel"><span class="s1" style="color: #d14;"> applied, where the sequence data is replaced with a fingerprint</span></span>
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1928
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<pre style="margin: 0;">-<span id="LC1928" class="line" lang="mosel"><span class="s1" style="color: #d14;"> abstracted from the intron/exon boundary phase and the exon length.</span></span>
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1929
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<pre style="margin: 0;">-<span id="LC1929" class="line" lang="mosel"><span class="s1" style="color: #d14;"> .</span></span>
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1930
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<pre style="margin: 0;">-<span id="LC1930" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Please note FINEX is no longer supported but is available for</span></span>
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1931
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<pre style="margin: 0;">-<span id="LC1931" class="line" lang="mosel"><span class="s1" style="color: #d14;"> download.</span></span>
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1932
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<pre style="margin: 0;">-<span id="LC1932" class="line" lang="mosel"></span>
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<td class="diff-line-num old old_line" data-linenumber="1933" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1933
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<pre style="margin: 0;">-<span id="LC1933" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: hexamer</span></span>
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1934
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<pre style="margin: 0;">-<span id="LC1934" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://www.sanger.ac.uk/Software/analysis/hexamer/</span></span>
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1935
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<pre style="margin: 0;">-<span id="LC1935" class="line" lang="mosel"><span class="s1" style="color: #d14;">License: GPL</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1936" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1936
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<pre style="margin: 0;">-<span id="LC1936" class="line" lang="mosel"><span class="s1" style="color: #d14;">Pkg-Description: scan DNA sequences to look for likely coding regions</span></span>
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1937
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<pre style="margin: 0;">-<span id="LC1937" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Hexamer is a program to scan DNA sequences to look for likely coding</span></span>
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1938
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<pre style="margin: 0;">-<span id="LC1938" class="line" lang="mosel"><span class="s1" style="color: #d14;"> regions. The principle is to use 6mers, but to avoid deriving any</span></span>
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1939
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<pre style="margin: 0;">-<span id="LC1939" class="line" lang="mosel"><span class="s1" style="color: #d14;"> information from base composition. Therefore, the frequencies of each</span></span>
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1940
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<pre style="margin: 0;">-<span id="LC1940" class="line" lang="mosel"><span class="s1" style="color: #d14;"> 6mer are normalized by dividing by the total frequency of all 6mers</span></span>
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1941
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1941" class="line" lang="mosel"><span class="s1" style="color: #d14;"> with the same base composition.</span></span>
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1942
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<pre style="margin: 0;">-<span id="LC1942" class="line" lang="mosel"><span class="s1" style="color: #d14;"> .</span></span>
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1943
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1943" class="line" lang="mosel"><span class="s1" style="color: #d14;"> There are two programs involved in this process:</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1944" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1944
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<pre style="margin: 0;">-<span id="LC1944" class="line" lang="mosel"><span class="s1" style="color: #d14;"> * hextable</span></span>
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1945
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1945" class="line" lang="mosel"><span class="s1" style="color: #d14;"> hextable makes files of statistics that hexamer uses to scan for</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1946" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1946
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1946" class="line" lang="mosel"><span class="s1" style="color: #d14;"> likely coding regions.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1947" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1947
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<td class="diff-line-num new_line old" data-linenumber="1830" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1947" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The input of hextable is a fasta file of coding sequences in</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1948" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1948
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<pre style="margin: 0;">-<span id="LC1948" class="line" lang="mosel"><span class="s1" style="color: #d14;"> frame. The -o file output is an ascii list of 4096 floating point</span></span>
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1949
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<pre style="margin: 0;">-<span id="LC1949" class="line" lang="mosel"><span class="s1" style="color: #d14;"> numbers giving log likelihood ratio scores in bits. The output on</span></span>
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1950
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<pre style="margin: 0;">-<span id="LC1950" class="line" lang="mosel"><span class="s1" style="color: #d14;"> stdout is a summary of the information content of the table,</span></span>
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1951
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<pre style="margin: 0;">-<span id="LC1951" class="line" lang="mosel"><span class="s1" style="color: #d14;"> indicating how disriminative it is likely to be.</span></span>
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1952
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<pre style="margin: 0;">-<span id="LC1952" class="line" lang="mosel"><span class="s1" style="color: #d14;"> * hexamer</span></span>
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1953
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<pre style="margin: 0;">-<span id="LC1953" class="line" lang="mosel"><span class="s1" style="color: #d14;"> Uses the .hex file from hextable to scan a DNA sequence for likely</span></span>
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1954
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<pre style="margin: 0;">-<span id="LC1954" class="line" lang="mosel"><span class="s1" style="color: #d14;"> coding regions.</span></span>
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1955
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<pre style="margin: 0;">-<span id="LC1955" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The input is a fasta DNA file (n.b. that these programs assume all</span></span>
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1956
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<pre style="margin: 0;">-<span id="LC1956" class="line" lang="mosel"><span class="s1" style="color: #d14;"> '</span><span class="n" style="color: #333;">a</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">c</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">g</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">t</span><span class="s1" style="color: #d14;">'. '</span><span class="n" style="color: #333;">n</span><span class="s1" style="color: #d14;">'s found in the sequence files will be</span></span>
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1957
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<pre style="margin: 0;">-<span id="LC1957" class="line" lang="mosel"><span class="s1" style="color: #d14;"> converted to '</span><span class="n" style="color: #333;">c</span><span class="s1" style="color: #d14;">'.</span></span>
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1958
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<pre style="margin: 0;">-<span id="LC1958" class="line" lang="mosel"><span class="s1" style="color: #d14;"> The output of hexamer is in General Feature Format (GFF) format.</span></span>
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1830
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<pre style="margin: 0;">+<span id="LC1830" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">das</span><span class="p">-</span><span class="n" style="color: #333;">proserver</span></span>
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1831
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<pre style="margin: 0;">+<span id="LC1831" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">sanger</span><span class="p">.</span><span class="n" style="color: #333;">ac</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">Software</span><span class="p">/</span><span class="n" style="color: #333;">analysis</span><span class="p">/</span><span class="n" style="color: #333;">proserver</span><span class="p">/</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1832" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1832
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<pre style="margin: 0;">+<span id="LC1832" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="n" style="color: #333;">Same</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">Perl</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1833" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1833
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<pre style="margin: 0;">+<span id="LC1833" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">lightweight</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">server</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1834" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1834
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<pre style="margin: 0;">+<span id="LC1834" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">protocol</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1835" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1835
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<pre style="margin: 0;">+<span id="LC1835" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">open</span> <span class="n" style="color: #333;">sharing</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1836" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1836
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<pre style="margin: 0;">+<span id="LC1836" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1837" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1837
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<pre style="margin: 0;">+<span id="LC1837" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">ProServer</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">very</span> <span class="n" style="color: #333;">lightweight</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">server</span> <span class="n" style="color: #333;">written</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">Perl</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1838" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1838
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<pre style="margin: 0;">+<span id="LC1838" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">simple</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">install</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">configure</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">has</span> <span class="n" style="color: #333;">existing</span> <span class="n" style="color: #333;">adaptors</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">wide</span></span>
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1839
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<pre style="margin: 0;">+<span id="LC1839" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">variety</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">sources</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">also</span> <span class="n" style="color: #333;">easily</span> <span class="n" style="color: #333;">extensible</span> <span class="n" style="color: #333;">allowing</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1840" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1840
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<pre style="margin: 0;">+<span id="LC1840" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">adaptors</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">be</span> <span class="n" style="color: #333;">written</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">other</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">sources</span><span class="p">.</span> <span class="n" style="color: #333;">More</span> <span class="n" style="color: #333;">information</span> <span class="n" style="color: #333;">about</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1841" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1841
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<pre style="margin: 0;">+<span id="LC1841" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">protocol</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">what</span> <span class="n" style="color: #333;">it</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">useful</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">over</span> <span class="n" style="color: #333;">at</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1842" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1842
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<pre style="margin: 0;">+<span id="LC1842" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">biodas</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1843" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1843
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<pre style="margin: 0;">+<span id="LC1843" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1844" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1844
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<pre style="margin: 0;">+<span id="LC1844" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">New</span> <span class="n" style="color: #333;">large</span> <span class="n" style="color: #333;">scale</span> <span class="n" style="color: #333;">techniques</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">biology</span> <span class="n" style="color: #333;">are</span> <span class="n" style="color: #333;">producing</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">rapidly</span> <span class="n" style="color: #333;">growing</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1845" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1845
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<pre style="margin: 0;">+<span id="LC1845" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">amount</span> <span class="k" style="font-weight: 600;">of</span> <span class="k" style="font-weight: 600;">public</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">data</span><span class="p">.</span> <span class="n" style="color: #333;">Centralized</span> <span class="n" style="color: #333;">database</span> <span class="n" style="color: #333;">resources</span> <span class="n" style="color: #333;">are</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1846" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1846
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<pre style="margin: 0;">+<span id="LC1846" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">confronted</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">task</span> <span class="n" style="color: #333;">how</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">scale</span> <span class="n" style="color: #333;">their</span> <span class="n" style="color: #333;">storage</span> <span class="n" style="color: #333;">facilities</span><span class="p">,</span> <span class="n" style="color: #333;">how</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1847" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1847
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<pre style="margin: 0;">+<span id="LC1847" class="line" lang="mosel"><span class="p">#</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">manage</span> <span class="n" style="color: #333;">frequent</span> <span class="n" style="color: #333;">updates</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">how</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">data</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1848" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1848
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<pre style="margin: 0;">+<span id="LC1848" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">community</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1849" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1849
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<pre style="margin: 0;">+<span id="LC1849" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1850" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1850
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<pre style="margin: 0;">+<span id="LC1850" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">addresses</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">issues</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1851" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1851
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<pre style="margin: 0;">+<span id="LC1851" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">frequently</span> <span class="n" style="color: #333;">being</span> <span class="n" style="color: #333;">used</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">openly</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">annotations</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1852" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1852
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<pre style="margin: 0;">+<span id="LC1852" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">between</span> <span class="n" style="color: #333;">distributed</span> <span class="n" style="color: #333;">sites</span><span class="p">.</span> <span class="n" style="color: #333;">Data</span> <span class="n" style="color: #333;">distribution</span><span class="p">,</span> <span class="n" style="color: #333;">performed</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">DAS</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1853" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1853
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<pre style="margin: 0;">+<span id="LC1853" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">servers</span><span class="p">,</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">separated</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">visualization</span><span class="p">,</span> <span class="n" style="color: #333;">which</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">done</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">DAS</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1854" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1854
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<pre style="margin: 0;">+<span id="LC1854" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">clients</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1855" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1855
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<pre style="margin: 0;">+<span id="LC1855" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1856" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1856
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<pre style="margin: 0;">+<span id="LC1856" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">client</span><span class="p">-</span><span class="n" style="color: #333;">server</span> <span class="nf" style="color: #900; font-weight: 600;">system</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">which</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">client</span> <span class="n" style="color: #333;">like</span> <span class="n" style="color: #333;">Ensembl</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1857" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1857
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<pre style="margin: 0;">+<span id="LC1857" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">integrates</span> <span class="n" style="color: #333;">information</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">multiple</span> <span class="n" style="color: #333;">servers</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">allows</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">single</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1858" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1858
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<pre style="margin: 0;">+<span id="LC1858" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">machine</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">gather</span> <span class="n" style="color: #333;">up</span> <span class="n" style="color: #333;">genome</span> <span class="n" style="color: #333;">annotation</span> <span class="n" style="color: #333;">information</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">multiple</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1859" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1859
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<pre style="margin: 0;">+<span id="LC1859" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">distant</span> <span class="n" style="color: #333;">web</span> <span class="n" style="color: #333;">sites</span><span class="p">,</span> <span class="n" style="color: #333;">collate</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">information</span><span class="p">,</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">display</span> <span class="n" style="color: #333;">it</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1860" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1860
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<pre style="margin: 0;">+<span id="LC1860" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">user</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">single</span> <span class="n" style="color: #333;">view</span><span class="p">.</span> <span class="n" style="color: #333;">Little</span> <span class="n" style="color: #333;">coordination</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">needed</span> <span class="n" style="color: #333;">among</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1861" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1861
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<pre style="margin: 0;">+<span id="LC1861" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">various</span> <span class="n" style="color: #333;">information</span> <span class="n" style="color: #333;">providers</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1862" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1862
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<pre style="margin: 0;">+<span id="LC1862" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1863" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1863
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<pre style="margin: 0;">+<span id="LC1863" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">heavily</span> <span class="n" style="color: #333;">used</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">genome</span> <span class="n" style="color: #333;">bioinformatics</span> <span class="n" style="color: #333;">community</span><span class="p">.</span> <span class="n" style="color: #333;">Over</span> <span class="n" style="color: #333;">the</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1864" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1864
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<pre style="margin: 0;">+<span id="LC1864" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">last</span> <span class="n" style="color: #333;">years</span> <span class="n" style="color: #333;">we</span> <span class="n" style="color: #333;">have</span> <span class="n" style="color: #333;">also</span> <span class="n" style="color: #333;">seen</span> <span class="n" style="color: #333;">growing</span> <span class="n" style="color: #333;">acceptance</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">protein</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1865" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1865
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<pre style="margin: 0;">+<span id="LC1865" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">sequence</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">structure</span> <span class="n" style="color: #333;">communities</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1866" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1866
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<pre style="margin: 0;">+<span id="LC1866" class="line" lang="mosel"><span class="p">#</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1867" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1867
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<pre style="margin: 0;">+<span id="LC1867" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">Update</span><span class="p">:</span> <span class="n" style="color: #333;">All</span> <span class="n" style="color: #333;">once</span> <span class="nb" style="color: #0086b3;">true</span> <span class="p">-</span> <span class="n" style="color: #333;">upstream</span> <span class="n" style="color: #333;">seems</span> <span class="n" style="color: #333;">dead</span><span class="p">,</span> <span class="n" style="color: #333;">though</span><span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1868" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1868
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<pre style="margin: 0;">+<span id="LC1868" class="line" lang="mosel"></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1869" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1869
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<pre style="margin: 0;">+<span id="LC1869" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">spice</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1870" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1870
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<pre style="margin: 0;">+<span id="LC1870" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">efamily</span><span class="p">.</span><span class="n" style="color: #333;">org</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">software</span><span class="p">/</span><span class="n" style="color: #333;">dasclients</span><span class="p">/</span><span class="n" style="color: #333;">spice</span><span class="p">/</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1871" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1871
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<pre style="margin: 0;">+<span id="LC1871" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="n" style="color: #333;">GPL</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1872" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1872
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<pre style="margin: 0;">+<span id="LC1872" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">client</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1873" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1873
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<pre style="margin: 0;">+<span id="LC1873" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">Distributed</span> <span class="n" style="color: #333;">Annotation</span> <span class="nf" style="color: #900; font-weight: 600;">System</span> <span class="p">(</span><span class="n" style="color: #333;">DAS</span><span class="p">)</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">exchange</span> <span class="n" style="color: #333;">protocol</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1874" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1874
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<pre style="margin: 0;">+<span id="LC1874" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">open</span> <span class="n" style="color: #333;">sharing</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">biological</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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1875
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<pre style="margin: 0;">+<span id="LC1875" class="line" lang="mosel"><span class="p">#</span> <span class="p">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1876" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1876
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<pre style="margin: 0;">+<span id="LC1876" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">SPICE</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">browser</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">protein</span> <span class="n" style="color: #333;">sequences</span><span class="p">,</span> <span class="n" style="color: #333;">structures</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">their</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1877" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1877
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<pre style="margin: 0;">+<span id="LC1877" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">annotations</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">can</span> <span class="n" style="color: #333;">display</span> <span class="n" style="color: #333;">annotations</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">PDB</span><span class="p">,</span> <span class="n" style="color: #333;">UniProt</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">Ensembl</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1878" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1878
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<pre style="margin: 0;">+<span id="LC1878" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">Peptides</span><span class="p">.</span> <span class="n" style="color: #333;">All</span> <span class="n" style="color: #333;">data</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">retrieved</span> <span class="k" style="font-weight: 600;">from</span> <span class="n" style="color: #333;">different</span> <span class="n" style="color: #333;">sites</span> <span class="n" style="color: #333;">on</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">Internet</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1879" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1879
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<pre style="margin: 0;">+<span id="LC1879" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">that</span> <span class="n" style="color: #333;">make</span> <span class="n" style="color: #333;">their</span> <span class="n" style="color: #333;">annotations</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">using</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">protocol</span><span class="p">.</span> <span class="n" style="color: #333;">It</span> <span class="n" style="color: #333;">is</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1880" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1880
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<pre style="margin: 0;">+<span id="LC1880" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">possible</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">add</span> <span class="n" style="color: #333;">new</span> <span class="n" style="color: #333;">annotations</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">SPICE</span><span class="p">,</span> <span class="k" style="font-weight: 600;">and</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">compare</span> <span class="n" style="color: #333;">them</span> <span class="k" style="font-weight: 600;">with</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1881" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1881
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<pre style="margin: 0;">+<span id="LC1881" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">already</span> <span class="n" style="color: #333;">available</span> <span class="n" style="color: #333;">information</span><span class="p">.</span></span>
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1882
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<pre style="margin: 0;">+<span id="LC1882" class="line" lang="mosel"><span class="p">#</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1883" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1883
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<pre style="margin: 0;">+<span id="LC1883" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">Update</span><span class="p">:</span> <span class="n" style="color: #333;">Would</span> <span class="n" style="color: #333;">be</span> <span class="n" style="color: #333;">interesting</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">have</span><span class="p">,</span> <span class="n" style="color: #333;">but</span> <span class="k" style="font-weight: 600;">not</span> <span class="k" style="font-weight: 600;">of</span> <span class="s2" style="color: #d14;">"reddish"</span> <span class="n" style="color: #333;">importance</span> <span class="n" style="color: #333;">for</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1884" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1884
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<pre style="margin: 0;">+<span id="LC1884" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">Debian</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">redistribute</span><span class="p">.</span></span>
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1885
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<pre style="margin: 0;">+<span id="LC1885" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="1886" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1886
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<pre style="margin: 0;">+<span id="LC1886" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Recommends</span><span class="p">:</span> <span class="n" style="color: #333;">decipher</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1887" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1887
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<pre style="margin: 0;">+<span id="LC1887" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Homepage</span><span class="p">:</span> <span class="n" style="color: #333;">http</span><span class="p">://</span><span class="n" style="color: #333;">www</span><span class="p">.</span><span class="n" style="color: #333;">sanger</span><span class="p">.</span><span class="n" style="color: #333;">ac</span><span class="p">.</span><span class="n" style="color: #333;">uk</span><span class="p">/</span><span class="n" style="color: #333;">Software</span><span class="p">/</span><span class="n" style="color: #333;">analysis</span><span class="p">/</span><span class="n" style="color: #333;">decipher</span><span class="p">/</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1888" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1888
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<pre style="margin: 0;">+<span id="LC1888" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">License</span><span class="p">:</span> <span class="k" style="font-weight: 600;">To</span> <span class="n" style="color: #333;">be</span> <span class="n" style="color: #333;">clarified</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1889" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1889
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<pre style="margin: 0;">+<span id="LC1889" class="line" lang="mosel"><span class="p">#</span><span class="n" style="color: #333;">Pkg</span><span class="p">-</span><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">tracks</span> <span class="n" style="color: #333;">duplications</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">deletions</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DNA</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">patients</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1890" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1890
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<pre style="margin: 0;">+<span id="LC1890" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">tracks</span> <span class="n" style="color: #333;">submicroscopic</span> <span class="n" style="color: #333;">duplications</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">deletions</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DNA</span> <span class="k" style="font-weight: 600;">in</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1891" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1891
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<pre style="margin: 0;">+<span id="LC1891" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">patients</span> <span class="n" style="color: #333;">together</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">phenotypes</span> <span class="n" style="color: #333;">exhibited</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">those</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1892" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1892
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<pre style="margin: 0;">+<span id="LC1892" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">patients</span><span class="p">.</span> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">tallies</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">genetic</span> <span class="n" style="color: #333;">abnormalities</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">genes</span> <span class="k" style="font-weight: 600;">and</span></span>
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1893
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<pre style="margin: 0;">+<span id="LC1893" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">other</span> <span class="n" style="color: #333;">features</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">interest</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">affected</span> <span class="n" style="color: #333;">areas</span><span class="p">.</span> <span class="n" style="color: #333;">The</span> <span class="n" style="color: #333;">aim</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DECIPHER</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1894" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1894
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<pre style="margin: 0;">+<span id="LC1894" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">is</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">provide</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">research</span> <span class="n" style="color: #333;">tool</span> <span class="k" style="font-weight: 600;">to</span> <span class="n" style="color: #333;">aid</span> <span class="n" style="color: #333;">clinical</span> <span class="n" style="color: #333;">diagnosis</span> <span class="k" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">treatment</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1895" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1895
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<pre style="margin: 0;">+<span id="LC1895" class="line" lang="mosel"><span class="p">#</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">these</span> <span class="n" style="color: #333;">conditions</span><span class="p">.</span> <span class="n" style="color: #333;">DECIPHER</span> <span class="n" style="color: #333;">makes</span> <span class="n" style="color: #333;">use</span> <span class="k" style="font-weight: 600;">of</span> <span class="n" style="color: #333;">DAS</span> <span class="n" style="color: #333;">technology</span> <span class="k" style="font-weight: 600;">to</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1896" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1896
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<pre style="margin: 0;">+<span id="LC1896" class="line" lang="mosel"><span class="p">#</span> <span class="n" style="color: #333;">integrate</span> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">Ensembl</span><span class="p">,</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">world</span><span class="s1" style="color: #d14;">'s leading genome browser.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1897" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1897
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<pre style="margin: 0;">+<span id="LC1897" class="line" lang="mosel"><span class="s1" style="color: #d14;">#</span></span>
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1898
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<pre style="margin: 0;">+<span id="LC1898" class="line" lang="mosel"><span class="s1" style="color: #d14;"># No longer available upstream. Decipher is a project at the</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1899" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1899
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<pre style="margin: 0;">+<span id="LC1899" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Sanger Center, though: https://decipher.sanger.ac.uk that redistributes</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1900" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1900
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<pre style="margin: 0;">+<span id="LC1900" class="line" lang="mosel"><span class="s1" style="color: #d14;"># a data source.</span></span>
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1901
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<pre style="margin: 0;">+<span id="LC1901" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="1902" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1902
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<pre style="margin: 0;">+<span id="LC1902" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Recommends: est-db</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1903" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1903
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<pre style="margin: 0;">+<span id="LC1903" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Homepage: http://www.sanger.ac.uk/Software/analysis/est_db/</span></span>
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1904
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<pre style="margin: 0;">+<span id="LC1904" class="line" lang="mosel"><span class="s1" style="color: #d14;">#License: Artistic</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1905" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1905
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<pre style="margin: 0;">+<span id="LC1905" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Pkg-Description: Software suite for expressed sequence tag (EST) sequencing</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1906" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1906
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<pre style="margin: 0;">+<span id="LC1906" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The est_db package is a software suite and database system designed</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1907" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1907
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<pre style="margin: 0;">+<span id="LC1907" class="line" lang="mosel"><span class="s1" style="color: #d14;"># to support expressed sequence tag (EST) sequencing projects, and to</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1908" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1908
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<pre style="margin: 0;">+<span id="LC1908" class="line" lang="mosel"><span class="s1" style="color: #d14;"># provide comprehensive bioinformatic analysis of sequenced EST</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1909" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1909
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<pre style="margin: 0;">+<span id="LC1909" class="line" lang="mosel"><span class="s1" style="color: #d14;"># libraries, for gene discovery and other purposes. The database can</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1910" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1910
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<pre style="margin: 0;">+<span id="LC1910" class="line" lang="mosel"><span class="s1" style="color: #d14;"># hold and efficiently process hundreds of thousands of EST sequences,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1911" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1911
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<pre style="margin: 0;">+<span id="LC1911" class="line" lang="mosel"><span class="s1" style="color: #d14;"># track the cDNA libraries and clones to which they belong, and store</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1912" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1912
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<pre style="margin: 0;">+<span id="LC1912" class="line" lang="mosel"><span class="s1" style="color: #d14;"># the results of their analysis. Should they be available, large</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1913" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1913
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<pre style="margin: 0;">+<span id="LC1913" class="line" lang="mosel"><span class="s1" style="color: #d14;"># compute farms can be used for the analysis.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1914" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1914
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<pre style="margin: 0;">+<span id="LC1914" class="line" lang="mosel"><span class="s1" style="color: #d14;"># .</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1915" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1915
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<pre style="margin: 0;">+<span id="LC1915" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Extensive bioinformatic analysis can be carried out on the sequenced</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1916" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1916
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<pre style="margin: 0;">+<span id="LC1916" class="line" lang="mosel"><span class="s1" style="color: #d14;"># EST libraries, including similarity (BLAST) searches, protein</span></span>
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1917
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<pre style="margin: 0;">+<span id="LC1917" class="line" lang="mosel"><span class="s1" style="color: #d14;"># sequence prediction, and the import of EST clustering and assembly</span></span>
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1918
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<pre style="margin: 0;">+<span id="LC1918" class="line" lang="mosel"><span class="s1" style="color: #d14;"># data from external sources. Results are searchable via a web page,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1919" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1919
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<pre style="margin: 0;">+<span id="LC1919" class="line" lang="mosel"><span class="s1" style="color: #d14;"># with graphic output of the various analyses, enabling one to retrieve</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1920" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1920
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<pre style="margin: 0;">+<span id="LC1920" class="line" lang="mosel"><span class="s1" style="color: #d14;"># information pertaining to a particular cDNA clone, or EST read, as</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1921" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1921
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<pre style="margin: 0;">+<span id="LC1921" class="line" lang="mosel"><span class="s1" style="color: #d14;"># well as view EST clustering results, or graphical representations of</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1922" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1922
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<pre style="margin: 0;">+<span id="LC1922" class="line" lang="mosel"><span class="s1" style="color: #d14;"># BLAST results on the searched EST sequences.</span></span>
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1923
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<pre style="margin: 0;">+<span id="LC1923" class="line" lang="mosel"><span class="s1" style="color: #d14;"># .</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1924" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1924
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<pre style="margin: 0;">+<span id="LC1924" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The est_db package is likely to appeal not only to sequencing groups</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1925" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1925
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<pre style="margin: 0;">+<span id="LC1925" class="line" lang="mosel"><span class="s1" style="color: #d14;"># directly employed in EST sequencing, but also to groups interested in</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1926" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1926
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<pre style="margin: 0;">+<span id="LC1926" class="line" lang="mosel"><span class="s1" style="color: #d14;"># performing bespoke analysis of ESTs that may already be publically</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1927" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1927
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<pre style="margin: 0;">+<span id="LC1927" class="line" lang="mosel"><span class="s1" style="color: #d14;"># available, in order to support their ongoing research aims. The</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1928" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1928
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<pre style="margin: 0;">+<span id="LC1928" class="line" lang="mosel"><span class="s1" style="color: #d14;"># package is easily-extensible, via an API designed specifically to</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1929" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1929
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<pre style="margin: 0;">+<span id="LC1929" class="line" lang="mosel"><span class="s1" style="color: #d14;"># handle ESTs and their analysis. It is open source and is made</span></span>
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1930
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<pre style="margin: 0;">+<span id="LC1930" class="line" lang="mosel"><span class="s1" style="color: #d14;"># available free of charge, and, where possible, similarly</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1931" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1931
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<pre style="margin: 0;">+<span id="LC1931" class="line" lang="mosel"><span class="s1" style="color: #d14;"># open-licensed components have been used in its development.</span></span>
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1932
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<pre style="margin: 0;">+<span id="LC1932" class="line" lang="mosel"><span class="s1" style="color: #d14;">#</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1933" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1933
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<pre style="margin: 0;">+<span id="LC1933" class="line" lang="mosel"><span class="s1" style="color: #d14;"># No longer available upstream.</span></span>
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1934
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<pre style="margin: 0;">+<span id="LC1934" class="line" lang="mosel"></span>
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<td class="diff-line-num new new_line" data-linenumber="1935" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1935
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<pre style="margin: 0;">+<span id="LC1935" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Recommends: finex</span></span>
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1936
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<pre style="margin: 0;">+<span id="LC1936" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Homepage: http://www.sanger.ac.uk/Software/analysis/finex/</span></span>
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1937
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<pre style="margin: 0;">+<span id="LC1937" class="line" lang="mosel"><span class="s1" style="color: #d14;">#License: To be clarified</span></span>
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1938
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<pre style="margin: 0;">+<span id="LC1938" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Pkg-Description: sequence homology searching</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1939" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1939
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<pre style="margin: 0;">+<span id="LC1939" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The FINEX program allows sequence homology searching techniques to be</span></span>
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1940
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<pre style="margin: 0;">+<span id="LC1940" class="line" lang="mosel"><span class="s1" style="color: #d14;"># applied, where the sequence data is replaced with a fingerprint</span></span>
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1941
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<pre style="margin: 0;">+<span id="LC1941" class="line" lang="mosel"><span class="s1" style="color: #d14;"># abstracted from the intron/exon boundary phase and the exon length.</span></span>
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1942
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<pre style="margin: 0;">+<span id="LC1942" class="line" lang="mosel"><span class="s1" style="color: #d14;"># .</span></span>
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1943
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<pre style="margin: 0;">+<span id="LC1943" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Please note FINEX is no longer supported but is available for</span></span>
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1944
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<pre style="margin: 0;">+<span id="LC1944" class="line" lang="mosel"><span class="s1" style="color: #d14;"># download.</span></span>
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1945
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<pre style="margin: 0;">+<span id="LC1945" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Update: It is no longer available for download, either.</span></span>
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1946
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<pre style="margin: 0;">+<span id="LC1946" class="line" lang="mosel"></span>
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1947
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<pre style="margin: 0;">+<span id="LC1947" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Recommends: hexamer</span></span>
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1948
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<pre style="margin: 0;">+<span id="LC1948" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Homepage: http://www.sanger.ac.uk/Software/analysis/hexamer/</span></span>
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1949
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<pre style="margin: 0;">+<span id="LC1949" class="line" lang="mosel"><span class="s1" style="color: #d14;">#License: GPL</span></span>
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1950
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<pre style="margin: 0;">+<span id="LC1950" class="line" lang="mosel"><span class="s1" style="color: #d14;">#Pkg-Description: scan DNA sequences to look for likely coding regions</span></span>
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1951
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<pre style="margin: 0;">+<span id="LC1951" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Hexamer is a program to scan DNA sequences to look for likely coding</span></span>
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1952
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<pre style="margin: 0;">+<span id="LC1952" class="line" lang="mosel"><span class="s1" style="color: #d14;"># regions. The principle is to use 6mers, but to avoid deriving any</span></span>
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1953
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<pre style="margin: 0;">+<span id="LC1953" class="line" lang="mosel"><span class="s1" style="color: #d14;"># information from base composition. Therefore, the frequencies of each</span></span>
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1954
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<pre style="margin: 0;">+<span id="LC1954" class="line" lang="mosel"><span class="s1" style="color: #d14;"># 6mer are normalized by dividing by the total frequency of all 6mers</span></span>
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1955
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<pre style="margin: 0;">+<span id="LC1955" class="line" lang="mosel"><span class="s1" style="color: #d14;"># with the same base composition.</span></span>
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1956
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<pre style="margin: 0;">+<span id="LC1956" class="line" lang="mosel"><span class="s1" style="color: #d14;"># .</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1957" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1957
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<pre style="margin: 0;">+<span id="LC1957" class="line" lang="mosel"><span class="s1" style="color: #d14;"># There are two programs involved in this process:</span></span>
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1958
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<pre style="margin: 0;">+<span id="LC1958" class="line" lang="mosel"><span class="s1" style="color: #d14;"># * hextable</span></span>
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1959
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<pre style="margin: 0;">+<span id="LC1959" class="line" lang="mosel"><span class="s1" style="color: #d14;"># hextable makes files of statistics that hexamer uses to scan for</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1960" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1960
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<pre style="margin: 0;">+<span id="LC1960" class="line" lang="mosel"><span class="s1" style="color: #d14;"># likely coding regions.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1961" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1961
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<pre style="margin: 0;">+<span id="LC1961" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The input of hextable is a fasta file of coding sequences in</span></span>
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1962
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<pre style="margin: 0;">+<span id="LC1962" class="line" lang="mosel"><span class="s1" style="color: #d14;"># frame. The -o file output is an ascii list of 4096 floating point</span></span>
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1963
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<pre style="margin: 0;">+<span id="LC1963" class="line" lang="mosel"><span class="s1" style="color: #d14;"># numbers giving log likelihood ratio scores in bits. The output on</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1964" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1964
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<pre style="margin: 0;">+<span id="LC1964" class="line" lang="mosel"><span class="s1" style="color: #d14;"># stdout is a summary of the information content of the table,</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1965" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1965
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<pre style="margin: 0;">+<span id="LC1965" class="line" lang="mosel"><span class="s1" style="color: #d14;"># indicating how disriminative it is likely to be.</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1966" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1966
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<pre style="margin: 0;">+<span id="LC1966" class="line" lang="mosel"><span class="s1" style="color: #d14;"># * hexamer</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1967" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1967
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<pre style="margin: 0;">+<span id="LC1967" class="line" lang="mosel"><span class="s1" style="color: #d14;"># Uses the .hex file from hextable to scan a DNA sequence for likely</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1968" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1968
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<pre style="margin: 0;">+<span id="LC1968" class="line" lang="mosel"><span class="s1" style="color: #d14;"># coding regions.</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1969" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1969
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<pre style="margin: 0;">+<span id="LC1969" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The input is a fasta DNA file (n.b. that these programs assume all</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1970" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1970
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<pre style="margin: 0;">+<span id="LC1970" class="line" lang="mosel"><span class="s1" style="color: #d14;"># '</span><span class="n" style="color: #333;">a</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">c</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">g</span><span class="s1" style="color: #d14;">','</span><span class="n" style="color: #333;">t</span><span class="s1" style="color: #d14;">'. '</span><span class="n" style="color: #333;">n</span><span class="s1" style="color: #d14;">'s found in the sequence files will be</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1971
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<pre style="margin: 0;">+<span id="LC1971" class="line" lang="mosel"><span class="s1" style="color: #d14;"># converted to '</span><span class="n" style="color: #333;">c</span><span class="s1" style="color: #d14;">'.</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1972" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1972
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<pre style="margin: 0;">+<span id="LC1972" class="line" lang="mosel"><span class="s1" style="color: #d14;"># The output of hexamer is in General Feature Format (GFF) format.</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1973" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1973
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<pre style="margin: 0;">+<span id="LC1973" class="line" lang="mosel"><span class="s1" style="color: #d14;"># No longer available for download.</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1959
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<td class="diff-line-num new_line" data-linenumber="1974" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1974
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1974" class="line" lang="mosel"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1960" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1960
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<td class="diff-line-num new_line" data-linenumber="1975" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1975
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1975" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: coot</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1961" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1961
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<td class="diff-line-num new_line" data-linenumber="1976" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1976
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1976" class="line" lang="mosel"></span>
</pre>
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<tr class="line_holder match" id="" style="line-height: 1.6;">
<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2075" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2090" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2075,8 +2090,11 @@ Pkg-Description: processes, clusters and annotates EST data</td>
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<td class="diff-line-num old_line" data-linenumber="2075" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2075
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<td class="diff-line-num new_line" data-linenumber="2090" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2090
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2090" class="line" lang="mosel"><span class="s1" style="color: #d14;">Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html</span></span>
</pre>
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<tr class="line_holder" id="" style="line-height: 1.6;">
<td class="diff-line-num old_line" data-linenumber="2076" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2076
</td>
<td class="diff-line-num new_line" data-linenumber="2091" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2091
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2091" class="line" lang="mosel"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="2077" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2077
</td>
<td class="diff-line-num new_line" data-linenumber="2092" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2092
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2092" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: lamarc</span></span>
</pre>
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<tr class="line_holder new" id="" style="line-height: 1.6;">
<td class="diff-line-num new old_line" data-linenumber="2078" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="2093" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
2093
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC2093" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://evolution.genetics.washington.edu/lamarc/index.html</span></span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="2078" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2078
</td>
<td class="diff-line-num new_line" data-linenumber="2094" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2094
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2094" class="line" lang="mosel"><span class="s1" style="color: #d14;">Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="2079" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
2079
</td>
<td class="diff-line-num new_line old" data-linenumber="2095" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
</td>
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<pre style="margin: 0;">-<span id="LC2079" class="line" lang="mosel"><span class="s1" style="color: #d14;">Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="2080" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="2095" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
2095
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC2095" class="line" lang="mosel"><span class="s1" style="color: #d14;">Remark: This package ships with BioLinux http://envgen.nox.ac.uk/biolinux.html.</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="2080" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="2096" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
2096
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC2096" class="line" lang="mosel"><span class="s1" style="color: #d14;"> In 1/2018 upstream has apparently updated their tarball to help the</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="2080" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="2097" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
2097
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<pre style="margin: 0;">+<span id="LC2097" class="line" lang="mosel"><span class="s1" style="color: #d14;"> redistribution of their software. Someone please go for it.</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="2080" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2080
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<td class="diff-line-num new_line" data-linenumber="2098" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2098
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2098" class="line" lang="mosel"></span>
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<td class="diff-line-num old_line" data-linenumber="2081" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2081
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<td class="diff-line-num new_line" data-linenumber="2099" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2099
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<pre style="margin: 0;"> <span id="LC2099" class="line" lang="mosel"><span class="s1" style="color: #d14;">Recommends: lucy</span></span>
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<td class="diff-line-num old_line" data-linenumber="2082" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2082
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<td class="diff-line-num new_line" data-linenumber="2100" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
2100
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<pre style="margin: 0;"> <span id="LC2100" class="line" lang="mosel"><span class="s1" style="color: #d14;">Homepage: http://rcc.uga.edu/applications/bioinformatics/lucy.html</span></span>
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