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GitLab

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<h3>

Nilesh Patra pushed to branch master

at <a href="https://salsa.debian.org/med-team/vcfanno">Debian Med / vcfanno</a>

</h3>

<h4>

Commits:

</h4>

<ul>

<li>

<strong><a href="https://salsa.debian.org/med-team/vcfanno/-/commit/3229b900ea3cbe4d5a3f65340ace2ba1b4bdfaab">3229b900</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2020-07-13T00:14:20+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.3.2</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/vcfanno/-/commit/a7f68eb9c90c612c1ea40a9a6296b875c46be8c8">a7f68eb9</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2020-07-13T00:14:26+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/0.3.2'

Update to upstream version '0.3.2'

with Debian dir 2aa09a4442cfcf79f9f4c4285b9a4ff9f28d7e0e</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/vcfanno/-/commit/c7d8b11e8c8ba6cbd5abf4f4d913aec5675f4949">c7d8b11e</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2020-07-13T00:35:47+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update Build-Deps

</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/vcfanno/-/commit/273aa82bd5075e22aa457bd74e0b2b90a7be87ef">273aa82b</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2020-07-13T00:36:14+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Change xopen import path

</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/vcfanno/-/commit/3dcc009fe4007f3590b9c97663686e1f9c016db4">3dcc009f</a></strong>

<div>

<span>by Nilesh Patra</span>

<i>at 2020-07-13T00:37:57+05:30</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update missing status

</pre>

</li>

</ul>

<h4>17 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">

.travis.yml

</a>

</li>

<li class="file-stats">

<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">

<span class="new-file">

+

Makefile

</span>

</a>

</li>

<li class="file-stats">

<a href="#12e1115e8adfcc9b30696134b3cbfb0c0a131212">

api/api.go

</a>

</li>

<li class="file-stats">

<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">

debian/changelog

</a>

</li>

<li class="file-stats">

<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">

debian/control

</a>

</li>

<li class="file-stats">

<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">

<span class="new-file">

+

debian/patches/series

</span>

</a>

</li>

<li class="file-stats">

<a href="#2992a2d0405e0270d0230b9977f0a71a1dd1ca6c">

<span class="new-file">

+

debian/patches/shared/shared.go

</span>

</a>

</li>

<li class="file-stats">

<a href="#b3fc813d6e32177743f980492954f715b2ed2663">

<span class="new-file">

+

tests/by_alt_float/annotation.tsv.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#cb8d6b7915aef7fd619411dc395192a377b29aa3">

<span class="new-file">

+

tests/by_alt_float/annotation.tsv.gz.tbi

</span>

</a>

</li>

<li class="file-stats">

<a href="#aa504dd0a30b6ca502b885041fa545af91d41a88">

<span class="new-file">

+

tests/by_alt_float/conf.toml

</span>

</a>

</li>

<li class="file-stats">

<a href="#88dbbb852a2161892a1c3a287c1f0b13acf2a722">

<span class="new-file">

+

tests/by_alt_float/q.vcf

</span>

</a>

</li>

<li class="file-stats">

<a href="#4eb50f5fa506c0c963eeb42ba78cef93bbf4673e">

tests/functional-test.sh

</a>

</li>

<li class="file-stats">

<a href="#1938227b7b129f38f8898f03545678a0afac6a71">

<span class="new-file">

+

tests/notbgz/a.conf

</span>

</a>

</li>

<li class="file-stats">

<a href="#15dfcec82aeaf1b455fb7e806611290a049f6e4c">

<span class="new-file">

+

tests/notbgz/gno.vcf.gz

</span>

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</li>

<li class="file-stats">

<a href="#9fddb3cc45abe1ae4a596e55ef01ed5c8a91d4cb">

<span class="new-file">

+

tests/notbgz/gno.vcf.gz.tbi

</span>

</a>

</li>

<li class="file-stats">

<a href="#98d562dd51573bee60a0c4a87b348c9848df6390">

<span class="new-file">

+

tests/notbgz/notbgz.vcf.gz

</span>

</a>

</li>

<li class="file-stats">

<a href="#c6f424b9602b60ce22f3880a97f4246b34756acd">

vcfanno.go

</a>

</li>

</ul>

<h4>Changes:</h4>

<li id="dea01dd89a3b602828e630677fde5d77c06441c8">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#dea01dd89a3b602828e630677fde5d77c06441c8"><strong>.travis.yml</strong></a>

<hr>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="9" 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="9" 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">@@ -9,8 +9,10 @@ go:</td>

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<td class="diff-line-num old_line" data-linenumber="9" 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">

9

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<td class="diff-line-num new_line" data-linenumber="9" 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">

9

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC9" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">1.8.x</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="10" 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">

10

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<td class="diff-line-num new_line" data-linenumber="10" 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">

10

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC10" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">1.9.x</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="11" 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">

11

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<td class="diff-line-num new_line" data-linenumber="11" 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">

11

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC11" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">1.10.x</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="12" 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="12" 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">

12

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC12" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">1.11.x</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="12" 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">

12

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<td class="diff-line-num new_line" data-linenumber="13" 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">

13

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC13" class="line" lang="yaml"></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="13" 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">

13

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<td class="diff-line-num new_line" data-linenumber="14" 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">

14

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC14" class="line" lang="yaml"><span class="na" style="color: #008080;">before_install</span><span class="pi">:</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="14" 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="15" 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">

15

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC15" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">make</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="14" 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">

14

</td>

<td class="diff-line-num new_line" data-linenumber="16" 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">

16

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC16" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">go get github.com/axw/gocov/gocov</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="15" 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">

15

</td>

<td class="diff-line-num new_line" data-linenumber="17" 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">

17

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<pre style="margin: 0;"> <span id="LC17" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">go get github.com/mattn/goveralls</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="16" 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">

16

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<td class="diff-line-num new_line" data-linenumber="18" 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">

18

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<pre style="margin: 0;"> <span id="LC18" class="line" lang="yaml">  <span class="pi">-</span> <span class="s" style="color: #d14;">if ! go get code.google.com/p/go.tools/cmd/cover; then go get golang.org/x/tools/cmd/cover; fi</span></span>

</pre>

</td>

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</table>

<br>

</li>

<li id="836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c"><strong>Makefile</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

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<td class="diff-line-num new old_line" data-linenumber="0" 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="1" 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">

1

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="make"><span class="nl">all</span><span class="o" style="font-weight: 600;">:</span> <span class="nf" style="color: #900; font-weight: 600;">get build</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="2" 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">

2

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="make"></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="3" 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">

3

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="make"><span class="nl">release</span><span class="o" style="font-weight: 600;">:</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="4" 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">

4

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="make">   <span class="nv" style="color: #008080;">CGO_ENABLED</span><span class="o" style="font-weight: 600;">=</span>0 <span class="nv" style="color: #008080;">GOARCH</span><span class="o" style="font-weight: 600;">=</span>amd64 go build <span class="nt" style="color: #000080;">-o</span> vcfanno_linux64 <span class="nt" style="color: #000080;">--ldflags</span> <span class="s1" style="color: #d14;">'-extldflags "-static"'</span> vcfanno.go</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="5" 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">

5

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC5" class="line" lang="make">   <span class="nv" style="color: #008080;">GOOS</span><span class="o" style="font-weight: 600;">=</span>darwin <span class="nv" style="color: #008080;">GOARCH</span><span class="o" style="font-weight: 600;">=</span>amd64 <span class="nv" style="color: #008080;">CGO_ENABLED</span><span class="o" style="font-weight: 600;">=</span>0 go build <span class="nt" style="color: #000080;">-o</span> vcfanno_osx <span class="nt" style="color: #000080;">--ldflags</span> <span class="s1" style="color: #d14;">'-extldflags "-static"'</span> vcfanno.go</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="6" 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">

6

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC6" class="line" lang="make"></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="7" 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">

7

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC7" class="line" lang="make"><span class="nl">get</span><span class="o" style="font-weight: 600;">:</span></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="8" 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">

8

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC8" class="line" lang="make">   go get <span class="nt" style="color: #000080;">-t</span> ./...</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="9" 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">

9

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC9" class="line" lang="make"></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="10" 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">

10

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC10" class="line" lang="make"><span class="nl">build</span><span class="o" style="font-weight: 600;">:</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="11" 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">

11

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<pre style="margin: 0;">+<span id="LC11" class="line" lang="make">  go build <span class="nt" style="color: #000080;">-o</span> vcfanno vcfanno.go</span></pre>

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<br>

</li>

<li id="12e1115e8adfcc9b30696134b3cbfb0c0a131212">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#12e1115e8adfcc9b30696134b3cbfb0c0a131212"><strong>api/api.go</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="540" 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="540" 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">@@ -540,6 +540,13 @@ func (s *Source) UpdateHeader(r HeaderUpdater, ends bool, htype string, number s</td>

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<td class="diff-line-num old_line" data-linenumber="540" 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">

540

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<td class="diff-line-num new_line" data-linenumber="540" 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">

540

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC540" class="line" lang="go">   <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Op</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"by_alt"</span> <span class="p">{</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="541" 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">

541

</td>

<td class="diff-line-num new_line" data-linenumber="541" 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">

541

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC541" class="line" lang="go">           <span class="n" style="color: #333;">number</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"A"</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="542" 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">

542

</td>

<td class="diff-line-num new_line" data-linenumber="542" 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">

542

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC542" class="line" lang="go">           <span class="n" style="color: #333;">ntype</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"String"</span></span>

</pre>

</td>

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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="543" 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="543" 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">

543

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC543" class="line" lang="go">           <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">strings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">HasSuffix</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">,</span> <span class="s" style="color: #d14;">"_float"</span><span class="p">)</span> <span class="p">{</span></span>

</pre>

</td>

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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="543" 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="544" 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">

544

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC544" class="line" lang="go">                   <span class="n" style="color: #333;">ntype</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"Float"</span></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="543" 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="545" 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">

545

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC545" class="line" lang="go">                   <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">[</span><span class="o" style="font-weight: 600;">:</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">)</span><span class="o" style="font-weight: 600;">-</span><span class="m" style="color: #099;">6</span><span class="p">]</span></span>

</pre>

</td>

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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="543" 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="546" 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">

546

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC546" class="line" lang="go">           <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">strings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">HasSuffix</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">,</span> <span class="s" style="color: #d14;">"_int"</span><span class="p">)</span> <span class="p">{</span></span>

</pre>

</td>

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<pre style="margin: 0;">+<span id="LC547" class="line" lang="go">                   <span class="n" style="color: #333;">ntype</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"Integer"</span></span>

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<pre style="margin: 0;">+<span id="LC548" class="line" lang="go">                   <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">[</span><span class="o" style="font-weight: 600;">:</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Name</span><span class="p">)</span><span class="o" style="font-weight: 600;">-</span><span class="m" style="color: #099;">4</span><span class="p">]</span></span>

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<pre style="margin: 0;">+<span id="LC549" class="line" lang="go">           <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC550" class="line" lang="go">           <span class="c" style="color: #998; font-style: italic;">// for 'self' and 'first', we can get the type from the header of the annotation file.</span></span>

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<pre style="margin: 0;"> <span id="LC551" class="line" lang="go">   <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">htype</span> <span class="o" style="font-weight: 600;">!=</span> <span class="s" style="color: #d14;">""</span> <span class="o" style="font-weight: 600;">&&</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Op</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"self"</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Op</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"first"</span><span class="p">)</span> <span class="p">{</span></span>

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<pre style="margin: 0;"> <span id="LC552" class="line" lang="go">           <span class="n" style="color: #333;">ntype</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">htype</span></span>

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<br>

</li>

<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>

<hr>

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1

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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">vcfanno (0.3.<span class="idiff left right">1</span>-1) UNRELEASED; urgency=medium</span>

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">vcfanno (0.3.<span class="idiff left right">2</span>-1) UNRELEASED; urgency=medium</span>

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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>

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<td class="diff-line-num old_line" data-linenumber="3" 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">

3

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<td class="diff-line-num new_line" data-linenumber="3" 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">

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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">  * Initial release (Closes: #<bug>)</span>

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<td class="diff-line-num old_line" data-linenumber="4" 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">

4

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4

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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">  </span>

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5

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">  [Steffen Moeller]</span>

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6

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<td class="diff-line-num new_line" data-linenumber="6" 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">

6

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">  </span>

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<td class="diff-line-num old_line" data-linenumber="7" 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">

7

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<td class="diff-line-num new_line" data-linenumber="7" 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">

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">  * Far from being releaseable, requiring</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="8" 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">

8

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<td class="diff-line-num new_line old" data-linenumber="8" 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="LC8" class="line" lang="plaintext">    "github.com/BurntSushi/toml"</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="9" 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">

9

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<td class="diff-line-num new_line old" data-linenumber="8" 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="LC9" class="line" lang="plaintext">    "github.com/biogo/hts/bgzf"</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="10" 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">

10

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<td class="diff-line-num new_line old" data-linenumber="8" 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="LC10" class="line" lang="plaintext">    "github.com/brentp/irelate"</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="11" 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">

11

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<td class="diff-line-num new_line old" data-linenumber="8" 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="LC11" class="line" lang="plaintext">    "github.com/brentp/irelate/interfaces"</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="12" 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">

12

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<td class="diff-line-num new_line old" data-linenumber="8" 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="LC12" class="line" lang="plaintext">    "github.com/brentp/irelate/parsers"</span>

</pre>

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<td class="diff-line-num old old_line" data-linenumber="13" 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">

13

</td>

<td class="diff-line-num new_line old" data-linenumber="8" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">    "github.com/brentp/vcfanno/api"</span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="14" 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">

14

</td>

<td class="diff-line-num new_line old" data-linenumber="8" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext">    "github.com/brentp/vcfanno/shared"</span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="15" 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">

15

</td>

<td class="diff-line-num new_line old" data-linenumber="8" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">    "github.com/brentp/vcfgo"</span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="16" 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">

16

</td>

<td class="diff-line-num new_line old" data-linenumber="8" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext">    "github.com/brentp/xopen"</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="17" 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="8" 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">

8

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">    "github.com/brentp/goluaez"</span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="17" 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">

17

</td>

<td class="diff-line-num new_line" data-linenumber="9" 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">

9

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="18" 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">

18

</td>

<td class="diff-line-num new_line" data-linenumber="10" 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">

10

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org>  Wed, 17 Apr 2019 10:48:54 +0200</span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="19" 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">

19

</td>

<td class="diff-line-num new_line old" data-linenumber="11" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext"> </span></pre>

</td>

</tr>

<tr class="line_holder old-nonewline" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" 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="new_line diff-line-num" 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">\ No newline at end of file</td>

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<td class="diff-line-num new old_line" data-linenumber="20" 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="11" 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">

11

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> </span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="8" 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="8" 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">@@ -8,7 +8,13 @@ Build-Depends: debhelper (>= 12~),</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="8" 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">

8

</td>

<td class="diff-line-num new_line" data-linenumber="8" 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">

8

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">               golang-any,</span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="9" 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">

9

</td>

<td class="diff-line-num new_line" data-linenumber="9" 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">

9

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">               golang-github-biogo-hts-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="10" 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">

10

</td>

<td class="diff-line-num new_line" data-linenumber="10" 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">

10

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">               golang-gopkg-check.v1-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="11" 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">

11

</td>

<td class="diff-line-num new_line old" data-linenumber="11" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">               golang-toml-dev</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="11" 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">

11

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">               golang-toml-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="12" 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">

12

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">               golang-github-brentp-irelate-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="13" 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">

13

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">               golang-github-brentp-vcfgo-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="14" 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">

14

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">               golang-github-brentp-bix-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="15" 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">

15

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">               golang-github-shenwei356-xopen-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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="16" 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">

16

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">               golang-github-biogo-hts-dev,</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="12" 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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17

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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">               golang-github-pkg-errors-dev</span>

</pre>

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12

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18

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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Standards-Version: 4.3.0</span>

</pre>

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13

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19

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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/vcfanno</span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="14" 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">

14

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20

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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/vcfanno.git</span>

</pre>

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<br>

</li>

<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>

<hr>

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1

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">shared/shared.go</span></pre>

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<br>

</li>

<li id="2992a2d0405e0270d0230b9977f0a71a1dd1ca6c">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#2992a2d0405e0270d0230b9977f0a71a1dd1ca6c"><strong>debian/patches/shared/shared.go</strong></a>

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<td class="diff-line-num new new_line" data-linenumber="1" 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">

1

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="go"><span class="n" style="color: #333;">Author</span><span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">Nilesh</span> <span class="n" style="color: #333;">Patra</span> <span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">npatra974</span><span class="err" style="color: #a61717; background-color: #e3d2d2;">@</span><span class="n" style="color: #333;">gmail</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">com</span><span class="o" style="font-weight: 600;">></span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="2" 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">

2

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<pre style="margin: 0;">+<span id="LC2" class="line" lang="go"><span class="n" style="color: #333;">Description</span><span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">Instead</span> <span class="n" style="color: #333;">of</span> <span class="n" style="color: #333;">github</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">com</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">brentp</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">xopen</span><span class="p">,</span> <span class="n" style="color: #333;">its</span> <span class="n" style="color: #333;">fork</span> <span class="n" style="color: #333;">github</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">com</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">shenwei356</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">xopen</span> <span class="n" style="color: #333;">has</span> <span class="n" style="color: #333;">been</span> <span class="n" style="color: #333;">packaged</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">debian</span><span class="p">,</span> <span class="n" style="color: #333;">hence</span> <span class="n" style="color: #333;">repacing</span> <span class="n" style="color: #333;">all</span> <span class="n" style="color: #333;">the</span> <span class="n" style="color: #333;">paths</span> <span class="n" style="color: #333;">by</span> <span class="n" style="color: #333;">this</span><span class="o" style="font-weight: 600;">.</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="3" 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">

3

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="go"><span class="n" style="color: #333;">Last</span> <span class="n" style="color: #333;">Changed</span><span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">Mon</span> <span class="n" style="color: #333;">July</span> <span class="m" style="color: #099;">13</span><span class="p">,</span> <span class="m" style="color: #099;">2020</span></span>

</pre>

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4

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<pre style="margin: 0;">+<span id="LC4" class="line" lang="go"><span class="o" style="font-weight: 600;">---</span> <span class="n" style="color: #333;">a</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">bench_test</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="5" 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">

5

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<pre style="margin: 0;">+<span id="LC5" class="line" lang="go"><span class="o" style="font-weight: 600;">+++</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">bench_test</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="6" 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">

6

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<pre style="margin: 0;">+<span id="LC6" class="line" lang="go"><span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span> <span class="o" style="font-weight: 600;">-</span><span class="m" style="color: #099;">13</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="o" style="font-weight: 600;">+</span><span class="m" style="color: #099;">13</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span></span>

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<td class="diff-line-num new new_line" data-linenumber="7" 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">

7

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<pre style="margin: 0;">+<span id="LC7" class="line" lang="go">     <span class="s" style="color: #d14;">"github.com/brentp/irelate/parsers"</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="8" 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">

8

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<pre style="margin: 0;">+<span id="LC8" class="line" lang="go">     <span class="s" style="color: #d14;">"github.com/brentp/vcfanno/api"</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="9" 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">

9

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<pre style="margin: 0;">+<span id="LC9" class="line" lang="go">     <span class="s" style="color: #d14;">"github.com/brentp/vcfanno/shared"</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="10" 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">

10

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<pre style="margin: 0;">+<span id="LC10" class="line" lang="go"><span class="o" style="font-weight: 600;">-</span>  <span class="s" style="color: #d14;">"github.com/brentp/xopen"</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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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11

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<pre style="margin: 0;">+<span id="LC11" class="line" lang="go"><span class="o" style="font-weight: 600;">+</span>  <span class="s" style="color: #d14;">"github.com/shenwei356/xopen"</span></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="12" 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">

12

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC12" class="line" lang="go"> <span class="p">)</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="13" 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">

13

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC13" class="line" lang="go"> </span>

</pre>

</td>

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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="0" 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="14" 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">

14

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC14" class="line" lang="go"> <span class="k" style="font-weight: 600;">func</span> <span class="n" style="color: #333;">benchmarkAnno</span><span class="p">(</span><span class="n" style="color: #333;">b</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">testing</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">B</span><span class="p">)</span> <span class="p">{</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="15" 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">

15

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC15" class="line" lang="go"><span class="o" style="font-weight: 600;">---</span> <span class="n" style="color: #333;">a</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">shared</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">shared</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</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="0" 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="16" 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">

16

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC16" class="line" lang="go"><span class="o" style="font-weight: 600;">+++</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">shared</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">shared</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</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="0" 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="17" 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">

17

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC17" class="line" lang="go"><span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span> <span class="o" style="font-weight: 600;">-</span><span class="m" style="color: #099;">7</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="o" style="font-weight: 600;">+</span><span class="m" style="color: #099;">7</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span></span>

</pre>

</td>

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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="0" 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="18" 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">

18

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC18" class="line" lang="go">    <span class="s" style="color: #d14;">"strings"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="19" 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">

19

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC19" class="line" lang="go"> </span>

</pre>

</td>

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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="0" 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="20" 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">

20

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC20" class="line" lang="go">    <span class="o" style="font-weight: 600;">.</span> <span class="s" style="color: #d14;">"github.com/brentp/vcfanno/api"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="21" 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">

21

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC21" class="line" lang="go"><span class="o" style="font-weight: 600;">-</span>  <span class="s" style="color: #d14;">"github.com/brentp/xopen"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="22" 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">

22

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC22" class="line" lang="go"><span class="o" style="font-weight: 600;">+</span>  <span class="s" style="color: #d14;">"github.com/shenwei356/xopen"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="23" 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">

23

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC23" class="line" lang="go"> <span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="24" 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">

24

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC24" class="line" lang="go"> </span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="25" 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">

25

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC25" class="line" lang="go"> <span class="k" style="font-weight: 600;">type</span> <span class="n" style="color: #333;">Config</span> <span class="k" style="font-weight: 600;">struct</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="26" 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">

26

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC26" class="line" lang="go"><span class="o" style="font-weight: 600;">---</span> <span class="n" style="color: #333;">a</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">vcfanno</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="27" 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">

27

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC27" class="line" lang="go"><span class="o" style="font-weight: 600;">+++</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">vcfanno</span><span class="o" style="font-weight: 600;">.</span><span class="k" style="font-weight: 600;">go</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="28" 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">

28

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC28" class="line" lang="go"><span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span> <span class="o" style="font-weight: 600;">-</span><span class="m" style="color: #099;">22</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="o" style="font-weight: 600;">+</span><span class="m" style="color: #099;">22</span><span class="p">,</span><span class="m" style="color: #099;">7</span> <span class="err" style="color: #a61717; background-color: #e3d2d2;">@@</span></span>

</pre>

</td>

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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="0" 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="29" 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">

29

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC29" class="line" lang="go">    <span class="o" style="font-weight: 600;">.</span> <span class="s" style="color: #d14;">"github.com/brentp/vcfanno/api"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="30" 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">

30

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<pre style="margin: 0;">+<span id="LC30" class="line" lang="go">    <span class="o" style="font-weight: 600;">.</span> <span class="s" style="color: #d14;">"github.com/brentp/vcfanno/shared"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="31" 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">

31

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC31" class="line" lang="go">    <span class="s" style="color: #d14;">"github.com/brentp/vcfgo"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="32" 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">

32

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC32" class="line" lang="go"><span class="o" style="font-weight: 600;">-</span>  <span class="s" style="color: #d14;">"github.com/brentp/xopen"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="33" 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">

33

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC33" class="line" lang="go"><span class="o" style="font-weight: 600;">+</span>  <span class="s" style="color: #d14;">"github.com/shenwei356/xopen"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="34" 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">

34

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC34" class="line" lang="go"> <span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="35" 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">

35

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC35" class="line" lang="go"> </span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="36" 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">

36

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC36" class="line" lang="go"> <span class="k" style="font-weight: 600;">var</span> <span class="n" style="color: #333;">VERSION</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"0.3.2"</span></span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="b3fc813d6e32177743f980492954f715b2ed2663">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#b3fc813d6e32177743f980492954f715b2ed2663"><strong>tests/by_alt_float/annotation.tsv.gz</strong></a>

<hr>

No preview for this file type

<br>

</li>

<li id="cb8d6b7915aef7fd619411dc395192a377b29aa3">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#cb8d6b7915aef7fd619411dc395192a377b29aa3"><strong>tests/by_alt_float/annotation.tsv.gz.tbi</strong></a>

<hr>

No preview for this file type

<br>

</li>

<li id="aa504dd0a30b6ca502b885041fa545af91d41a88">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#aa504dd0a30b6ca502b885041fa545af91d41a88"><strong>tests/by_alt_float/conf.toml</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

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</td>

<td class="diff-line-num new new_line" data-linenumber="1" 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">

1

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="toml"><span class="nn" style="color: #555;">[[annotation]]</span></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="2" 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">

2

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="toml"><span class="py">names</span> <span class="p">=</span> <span class="nn" style="color: #555;">["CADD_RAW_float"]</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="3" 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">

3

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="toml"><span class="py">file</span> <span class="p">=</span> <span class="s" style="color: #d14;">"annotation.tsv.gz"</span></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="4" 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">

4

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="toml"><span class="py">columns</span> <span class="p">=</span> <span class="nn" style="color: #555;">[5]</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="5" 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">

5

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC5" class="line" lang="toml"><span class="py">ops</span> <span class="p">=</span> <span class="nn" style="color: #555;">["by_alt"]</span></span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="88dbbb852a2161892a1c3a287c1f0b13acf2a722">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#88dbbb852a2161892a1c3a287c1f0b13acf2a722"><strong>tests/by_alt_float/q.vcf</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="1" 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">

1

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##fileformat=VCFv4.2</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="2" 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">

2

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##contig=<ID=chr2,length=242193529,assembly=GRCh38></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="3" 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">

3

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">##INFO=<ID=AF,Number=.,Type=Float,Description=""></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="4" 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">

4

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">##INFO=<ID=AQ,Number=.,Type=Integer,Description=""></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="5" 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">

5

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">##hailversion=0.2.9-8588a25687af</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="6" 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">

6

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">#CHROM        POS     ID      REF     ALT     QUAL    FILTER  INFO</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="7" 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">

7

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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">chr2  41647   2_41647_A_G     A       G       1328.0  .       AF=1.56250e-02;AQ=1328</span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="4eb50f5fa506c0c963eeb42ba78cef93bbf4673e">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#4eb50f5fa506c0c963eeb42ba78cef93bbf4673e"><strong>tests/functional-test.sh</strong></a>

<hr>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="56" 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="56" 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">@@ -56,6 +56,9 @@ names=["nef"]</td>

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<td class="diff-line-num old_line" data-linenumber="56" 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">

56

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<td class="diff-line-num new_line" data-linenumber="56" 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">

56

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<pre style="margin: 0;"> <span id="LC56" class="line" lang="shell"><span class="sh" style="color: #d14;">fields=["xxx"]</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="57" 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">

57

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<td class="diff-line-num new_line" data-linenumber="57" 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">

57

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<pre style="margin: 0;"> <span id="LC57" class="line" lang="shell"><span class="no" style="color: #008080;">EOF</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="58" 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">

58

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<td class="diff-line-num new_line" data-linenumber="58" 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">

58

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<pre style="margin: 0;"> <span id="LC58" class="line" lang="shell"></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="59" 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="59" 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">

59

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<pre style="margin: 0;">+<span id="LC59" class="line" lang="shell">run check_not_bgz vcfanno <span class="nt" style="color: #000080;">-p</span> 4 tests/notbgz/a.conf tests/notbgz/notbgz.vcf.gz</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="59" 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="60" 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">

60

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC60" class="line" lang="shell">assert exit_code 0</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="59" 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="61" 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">

61

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC61" class="line" lang="shell"></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="59" 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">

59

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<td class="diff-line-num new_line" data-linenumber="62" 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">

62

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<pre style="margin: 0;"> <span id="LC62" class="line" lang="shell">run check_field_warning vcfanno <span class="nt" style="color: #000080;">-lua</span> example/custom.lua __t.conf example/exac.vcf.gz</span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="60" 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">

60

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<td class="diff-line-num new_line" data-linenumber="63" 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">

63

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC63" class="line" lang="shell">assert_exit_code 0</span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="61" 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">

61

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<td class="diff-line-num new_line" data-linenumber="64" 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">

64

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<pre style="margin: 0;"> <span id="LC64" class="line" lang="shell">assert_in_stderr <span class="s2" style="color: #d14;">"xxx not found in header"</span></span>

</pre>

</td>

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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="184" 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="187" 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">@@ -184,3 +187,10 @@ run self_test_with_A_and_many_overlaps fn_self_test_with_A_and_many_overlaps</td>

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<td class="diff-line-num old_line" data-linenumber="184" 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">

184

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<td class="diff-line-num new_line" data-linenumber="187" 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">

187

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<pre style="margin: 0;"> <span id="LC187" class="line" lang="shell">assert_exit_code 0</span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="185" 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">

185

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<td class="diff-line-num new_line" data-linenumber="188" 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">

188

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<pre style="margin: 0;"> <span id="LC188" class="line" lang="shell">assert_equal <span class="si" style="color: #d14;">$(</span><span class="nb" style="color: #0086b3;">tail</span> <span class="nt" style="color: #000080;">-1</span> <span class="nv" style="color: #008080;">$STDOUT_FILE</span> | <span class="nb" style="color: #0086b3;">cut</span> <span class="nt" style="color: #000080;">-f</span> 8<span class="si" style="color: #d14;">)</span> <span class="s2" style="color: #d14;">"AC=35,65;GN_AF=0.3717,0.6122"</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="186" 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">

186

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<td class="diff-line-num new_line" data-linenumber="189" 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">

189

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC189" class="line" lang="shell">assert_in_stdout <span class="s2" style="color: #d14;">"ID=GN_AF,Number=A"</span></span>

</pre>

</td>

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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="187" 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="190" 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">

190

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC190" class="line" lang="shell"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="187" 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="191" 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">

191

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC191" class="line" lang="shell"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="187" 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="192" 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">

192

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC192" class="line" lang="shell">run check_by_alts_float vcfanno <span class="nt" style="color: #000080;">-base-path</span> tests/by_alt_float/ tests/by_alt_float/conf.toml tests/by_alt_float/q.vcf</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="187" 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="193" 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">

193

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC193" class="line" lang="shell">assert_exit_code 0</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="187" 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="194" 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">

194

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC194" class="line" lang="shell">assert_equal <span class="si" style="color: #d14;">$(</span><span class="nb" style="color: #0086b3;">tail</span> <span class="nt" style="color: #000080;">-1</span> <span class="nv" style="color: #008080;">$STDOUT_FILE</span> | <span class="nb" style="color: #0086b3;">cut</span> <span class="nt" style="color: #000080;">-f</span> 8<span class="si" style="color: #d14;">)</span> <span class="s2" style="color: #d14;">"AF=1.56250e-02;AQ=1328;CADD_RAW=0.591814"</span></span>

</pre>

</td>

</tr>

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</td>

<td class="diff-line-num new new_line" data-linenumber="195" 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">

195

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<pre style="margin: 0;">+<span id="LC195" class="line" lang="shell">go <span class="nb" style="color: #0086b3;">install</span> <span class="nt" style="color: #000080;">-a</span></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="187" 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="196" 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">

196

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC196" class="line" lang="shell"></span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="1938227b7b129f38f8898f03545678a0afac6a71">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#1938227b7b129f38f8898f03545678a0afac6a71"><strong>tests/notbgz/a.conf</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="1" 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">

1

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="conf">[[<span class="n" style="color: #333;">annotation</span>]]</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="2" 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">

2

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="conf"><span class="n" style="color: #333;">file</span>=<span class="s2" style="color: #d14;">"tests/notbgz/gno.vcf.gz"</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="3" 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">

3

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="conf"><span class="n" style="color: #333;">fields</span> = [<span class="s2" style="color: #d14;">"AF"</span>, <span class="s2" style="color: #d14;">"AF_AFR"</span>, <span class="s2" style="color: #d14;">"AF_AMR"</span>, <span class="s2" style="color: #d14;">"AF_ASJ"</span>, <span class="s2" style="color: #d14;">"AF_FIN"</span>, <span class="s2" style="color: #d14;">"AF_NFE"</span>, <span class="s2" style="color: #d14;">"AF_OTH"</span>, <span class="s2" style="color: #d14;">"AF_SAS"</span>]</span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="4" 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">

4

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="conf"><span class="n" style="color: #333;">names</span> = [<span class="s2" style="color: #d14;">"gnomad_AF"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_AFR"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_AMR"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_ASJ"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_FIN"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_NFE"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_OTH"</span>, <span class="s2" style="color: #d14;">"gnomad_AF_SAS"</span>]</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="5" 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">

5

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC5" class="line" lang="conf"><span class="n" style="color: #333;">ops</span>=[<span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>, <span class="s2" style="color: #d14;">"max"</span>] </span></pre>

</td>

</tr>

</table>

<br>

</li>

<li id="15dfcec82aeaf1b455fb7e806611290a049f6e4c">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#15dfcec82aeaf1b455fb7e806611290a049f6e4c"><strong>tests/notbgz/gno.vcf.gz</strong></a>

<hr>

No preview for this file type

<br>

</li>

<li id="9fddb3cc45abe1ae4a596e55ef01ed5c8a91d4cb">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#9fddb3cc45abe1ae4a596e55ef01ed5c8a91d4cb"><strong>tests/notbgz/gno.vcf.gz.tbi</strong></a>

<hr>

No preview for this file type

<br>

</li>

<li id="98d562dd51573bee60a0c4a87b348c9848df6390">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#98d562dd51573bee60a0c4a87b348c9848df6390"><strong>tests/notbgz/notbgz.vcf.gz</strong></a>

<hr>

<table class="code white" style="font-family: monospace; font-size: 90%;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="1" 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">

1

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##fileformat=VCFv4.2</span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="2" 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">

2

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##ALT=<ID=NON_REF,Description="Represents any possible alternative allele at this location"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="3" 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">

3

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">##FILTER=<ID=FS,Description="FS > 30.0"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="4" 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">

4

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">##FILTER=<ID=LowQual,Description="Low quality"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="5" 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">

5

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">##FILTER=<ID=PASS,Description="All filters passed"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="6" 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">

6

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">##FILTER=<ID=QD,Description="QD < 2.0"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="7" 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">

7

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">##FILTER=<ID=SnpCluster,Description="SNPs found in clusters"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="8" 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">

8

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="9" 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">

9

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="10" 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">

10

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"></span>

</pre>

</td>

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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">##FORMAT=<ID=MMQ,Number=A,Type=Integer,Description="median mapping quality"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">##FORMAT=<ID=PGT,Number=1,Type=String,Description="Physical phasing haplotype information, describing how the alternate alleles are phased in relation to one another"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">##FORMAT=<ID=PID,Number=1,Type=String,Description="Physical phasing ID information, where each unique ID within a given sample (but not across samples) connects records within a phasing group"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">##FORMAT=<ID=RGQ,Number=1,Type=Integer,Description="Unconditional reference genotype confidence, encoded as a phred quality -10*log10 p(genotype call is wrong)"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">##FORMAT=<ID=SB,Number=4,Type=Integer,Description="Per-sample component statistics which comprise the Fisher's Exact Test to detect strand bias."></span>

</pre>

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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext">##GATKCommandLine=<ID=GenomicsDBImport,CommandLine="GenomicsDBImport  --genomicsdb-workspace-path 27571P-1_0_249250621_genomicsdb --variant /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/variation/rnaseq/gatk-haplotype/Sample_1__27571P-gatk-haplotype.vcf.gz --reader-threads 1 --intervals 1:1-249250621  --genomicsdb-segment-size 1048576 --genomicsdb-vcf-buffer-size 16384 --overwrite-existing-genomicsdb-workspace false --batch-size 0 --consolidate false --validate-sample-name-map false --max-num-intervals-to-import-in-parallel 1 --interval-set-rule UNION --interval-padding 0 --interval-exclusion-padding 0 --interval-merging-rule ALL --read-validation-stringency SILENT --seconds-between-progress-updates 10.0 --disable-sequence-dictionary-validation false --create-output-bam-index true --create-output-bam-md5 false --create-output-variant-index true --create-output-variant-md5 false --lenient false --add-output-sam-program-record true --add-output-vcf-command-line true --cloud-prefetch-buffer 0 --cloud-index-prefetch-buffer 0 --disable-bam-index-caching false --sites-only-vcf-output false --help false --version false --showHidden false --verbosity INFO --QUIET false --use-jdk-deflater false --use-jdk-inflater false --gcs-max-retries 20 --disable-tool-default-read-filters false",Version=4.0.6.0,Date="August 6, 2018 9:18:13 PM EDT"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">##GATKCommandLine=<ID=GenotypeGVCFs,CommandLine="GenotypeGVCFs  --output /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/bcbiotx/tmpCs8vG6/27571P-1_0_249250621.vcf.gz --use-new-qual-calculator true --variant gendb:///mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/joint/gatk-haplotype-joint/27571P/1/27571P-1_0_249250621_genomicsdb --intervals 1:1-249250621 --reference /mnt/isilon/cbmi/variome/bin/bcbio-nextgen/bcbio/genomes/Hsapiens/GRCh37/seq/GRCh37.fa  --annotate-with-num-discovered-alleles false --heterozygosity 0.001 --indel-heterozygosity 1.25E-4 --heterozygosity-stdev 0.01 --standard-min-confidence-threshold-for-calling 10.0 --max-alternate-alleles 6 --max-genotype-count 1024 --sample-ploidy 2 --num-reference-samples-if-no-call 0 --only-output-calls-starting-in-intervals false --interval-set-rule UNION --interval-padding 0 --interval-exclusion-padding 0 --interval-merging-rule ALL --read-validation-stringency SILENT --seconds-between-progress-updates 10.0 --disable-sequence-dictionary-validation false --create-output-bam-index true --create-output-bam-md5 false --create-output-variant-index true --create-output-variant-md5 false --lenient false --add-output-sam-program-record true --add-output-vcf-command-line true --cloud-prefetch-buffer 40 --cloud-index-prefetch-buffer -1 --disable-bam-index-caching false --sites-only-vcf-output false --help false --version false --showHidden false --verbosity INFO --QUIET false --use-jdk-deflater false --use-jdk-inflater false --gcs-max-retries 20 --disable-tool-default-read-filters false --disable-tool-default-annotations false --enable-all-annotations false",Version=4.0.6.0,Date="August 6, 2018 9:20:32 PM EDT"></span>

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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext">##GATKCommandLine=<ID=HaplotypeCaller,CommandLine="HaplotypeCaller  --emit-ref-confidence GVCF --gvcf-gq-bands 10 --gvcf-gq-bands 20 --gvcf-gq-bands 30 --gvcf-gq-bands 40 --gvcf-gq-bands 60 --gvcf-gq-bands 80 --native-pair-hmm-threads 1 --output /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/bcbiotx/tmp7bfK6h/Sample_1__27571P-1_0_62094793-gatk-haplotype.vcf.gz --intervals /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/variation/rnaseq/gatk-haplotype/regions/Sample_1__27571P-1_0_62094793-gatk-haplotype-regions.bed --interval-set-rule INTERSECTION --input /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/align/Sample_1__27571P/Sample_1__27571P-dedup.splitN.bam --reference /mnt/isilon/cbmi/variome/bin/bcbio-nextgen/bcbio/genomes/Hsapiens/GRCh37/seq/GRCh37.fa --annotation MappingQualityRankSumTest --annotation MappingQualityZero --annotation QualByDepth --annotation ReadPosRankSumTest --annotation RMSMappingQuality --annotation BaseQualityRankSumTest --annotation FisherStrand --annotation MappingQuality --annotation DepthPerAlleleBySample --annotation Coverage --annotation ClippingRankSumTest --annotation DepthPerSampleHC  --indel-size-to-eliminate-in-ref-model 10 --use-alleles-trigger false --disable-optimizations false --just-determine-active-regions false --dont-genotype false --max-mnp-distance 0 --dont-trim-active-regions false --max-disc-ar-extension 25 --max-gga-ar-extension 300 --padding-around-indels 150 --padding-around-snps 20 --kmer-size 10 --kmer-size 25 --dont-increase-kmer-sizes-for-cycles false --allow-non-unique-kmers-in-ref false --num-pruning-samples 1 --recover-dangling-heads false --do-not-recover-dangling-branches false --min-dangling-branch-length 4 --consensus false --max-num-haplotypes-in-population 128 --error-correct-kmers false --min-pruning 2 --debug-graph-transformations false --kmer-length-for-read-error-correction 25 --min-observations-for-kmer-to-be-solid 20 --likelihood-calculation-engine PairHMM --base-quality-score-threshold 18 --pair-hmm-gap-continuation-penalty 10 --pair-hmm-implementation FASTEST_AVAILABLE --pcr-indel-model CONSERVATIVE --phred-scaled-global-read-mismapping-rate 45 --native-pair-hmm-use-double-precision false --debug false --use-filtered-reads-for-annotations false --bam-writer-type CALLED_HAPLOTYPES --dont-use-soft-clipped-bases false --capture-assembly-failure-bam false --error-correct-reads false --do-not-run-physical-phasing false --min-base-quality-score 10 --smith-waterman JAVA --use-new-qual-calculator false --annotate-with-num-discovered-alleles false --heterozygosity 0.001 --indel-heterozygosity 1.25E-4 --heterozygosity-stdev 0.01 --standard-min-confidence-threshold-for-calling 10.0 --max-alternate-alleles 6 --max-genotype-count 1024 --sample-ploidy 2 --num-reference-samples-if-no-call 0 --genotyping-mode DISCOVERY --genotype-filtered-alleles false --contamination-fraction-to-filter 0.0 --output-mode EMIT_VARIANTS_ONLY --all-site-pls false --min-assembly-region-size 50 --max-assembly-region-size 300 --assembly-region-padding 100 --max-reads-per-alignment-start 50 --active-probability-threshold 0.002 --max-prob-propagation-distance 50 --interval-padding 0 --interval-exclusion-padding 0 --interval-merging-rule ALL --read-validation-stringency SILENT --seconds-between-progress-updates 10.0 --disable-sequence-dictionary-validation false --create-output-bam-index true --create-output-bam-md5 false --create-output-variant-index true --create-output-variant-md5 false --lenient false --add-output-sam-program-record true --add-output-vcf-command-line true --cloud-prefetch-buffer 40 --cloud-index-prefetch-buffer -1 --disable-bam-index-caching false --sites-only-vcf-output false --help false --version false --showHidden false --verbosity INFO --QUIET false --use-jdk-deflater false --use-jdk-inflater false --gcs-max-retries 20 --disable-tool-default-read-filters false --minimum-mapping-quality 20 --disable-tool-default-annotations false --enable-all-annotations false",Version=4.0.6.0,Date="August 5, 2018 8:56:28 PM EDT"></span>

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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext">##GATKCommandLine=<ID=VariantFiltration,CommandLine="VariantFiltration  --output /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/bcbiotx/tmpHjZiKO/27571P-joint-annotated-rnaedit-filter.vcf.gz --filter-expression FS > 30.0 --filter-expression QD < 2.0 --filter-name FS --filter-name QD --cluster-size 3 --cluster-window-size 35 --variant /mnt/isilon/cbmi/variome/rathik/mendelian_rnaseq/gatk_output/27571P/joint/gatk-haplotype-joint/27571P/27571P-joint-annotated-rnaedit.vcf.gz --reference /mnt/isilon/cbmi/variome/bin/bcbio-nextgen/bcbio/genomes/Hsapiens/GRCh37/seq/GRCh37.fa  --mask-extension 0 --mask-name Mask --filter-not-in-mask false --missing-values-evaluate-as-failing false --invalidate-previous-filters false --invert-filter-expression false --invert-genotype-filter-expression false --set-filtered-genotype-to-no-call false --interval-set-rule UNION --interval-padding 0 --interval-exclusion-padding 0 --interval-merging-rule ALL --read-validation-stringency SILENT --seconds-between-progress-updates 10.0 --disable-sequence-dictionary-validation false --create-output-bam-index true --create-output-bam-md5 false --create-output-variant-index true --create-output-variant-md5 false --lenient false --add-output-sam-program-record true --add-output-vcf-command-line true --cloud-prefetch-buffer 40 --cloud-index-prefetch-buffer -1 --disable-bam-index-caching false --sites-only-vcf-output false --help false --version false --showHidden false --verbosity INFO --QUIET false --use-jdk-deflater false --use-jdk-inflater false --gcs-max-retries 20 --disable-tool-default-read-filters false",Version=4.0.6.0,Date="August 6, 2018 10:20:28 PM EDT"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext">##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext">##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext">##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext">##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext">##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref number of hard clipped bases"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext">##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext">##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext">##INFO=<ID=END,Number=1,Type=Integer,Description="Stop position of the interval"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext">##INFO=<ID=ExcessHet,Number=1,Type=Float,Description="Phred-scaled p-value for exact test of excess heterozygosity"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext">##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext">##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext">##INFO=<ID=MLEAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the allele counts (not necessarily the same as the AC), for each ALT allele, in the same order as listed"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext">##INFO=<ID=MLEAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the allele frequency (not necessarily the same as the AF), for each ALT allele, in the same order as listed"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext">##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext">##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads"></span>

</pre>

</td>

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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext">##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext">##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth"></span>

</pre>

</td>

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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext">##INFO=<ID=RAW_MQ,Number=1,Type=Float,Description="Raw data for RMS Mapping Quality"></span>

</pre>

</td>

</tr>

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</td>

<td class="diff-line-num new new_line" data-linenumber="41" 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">

41

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext">##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias"></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="42" 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">

42

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext">##INFO=<ID=SOR,Number=1,Type=Float,Description="Symmetric Odds Ratio of 2x2 contingency table to detect strand bias"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="0" 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="43" 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">

43

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC43" class="line" lang="plaintext">##INFO=<ID=possible_rnaedit,Number=0,Type=Flag,Description="calculated by lua:is_edit_flag(ref, alt) of overlapping values in column 4 from /mnt/isilon/cbmi/variome/bin/bcbio-nextgen/bcbio/genomes/Hsapiens/GRCh37/editing/RADAR.bed.gz"></span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="44" 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">

44

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC44" class="line" lang="plaintext">##contig=<ID=1,length=249250621></span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="45" 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">

45

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC45" class="line" lang="plaintext">##contig=<ID=2,length=243199373></span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="46" 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">

46

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC46" class="line" lang="plaintext">##contig=<ID=3,length=198022430></span>

</pre>

</td>

</tr>

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47

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC47" class="line" lang="plaintext">##contig=<ID=4,length=191154276></span>

</pre>

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48

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC48" class="line" lang="plaintext">##contig=<ID=5,length=180915260></span>

</pre>

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49

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC49" class="line" lang="plaintext">##contig=<ID=6,length=171115067></span>

</pre>

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50

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC50" class="line" lang="plaintext">##contig=<ID=7,length=159138663></span>

</pre>

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51

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC51" class="line" lang="plaintext">##contig=<ID=8,length=146364022></span>

</pre>

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52

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC52" class="line" lang="plaintext">##contig=<ID=9,length=141213431></span>

</pre>

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53

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC53" class="line" lang="plaintext">##contig=<ID=10,length=135534747></span>

</pre>

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54

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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext">##contig=<ID=11,length=135006516></span>

</pre>

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55

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC55" class="line" lang="plaintext">##contig=<ID=12,length=133851895></span>

</pre>

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56

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC56" class="line" lang="plaintext">##contig=<ID=13,length=115169878></span>

</pre>

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57

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC57" class="line" lang="plaintext">##contig=<ID=14,length=107349540></span>

</pre>

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58

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<pre style="margin: 0;">+<span id="LC58" class="line" lang="plaintext">##contig=<ID=15,length=102531392></span>

</pre>

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59

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC59" class="line" lang="plaintext">##contig=<ID=16,length=90354753></span>

</pre>

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<pre style="margin: 0;">+<span id="LC60" class="line" lang="plaintext">##contig=<ID=17,length=81195210></span>

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<pre style="margin: 0;">+<span id="LC61" class="line" lang="plaintext">##contig=<ID=18,length=78077248></span>

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<pre style="margin: 0;">+<span id="LC65" class="line" lang="plaintext">##contig=<ID=22,length=51304566></span>

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<pre style="margin: 0;">+<span id="LC66" class="line" lang="plaintext">##contig=<ID=X,length=155270560></span>

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<pre style="margin: 0;">+<span id="LC67" class="line" lang="plaintext">##contig=<ID=Y,length=59373566></span>

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<pre style="margin: 0;">+<span id="LC68" class="line" lang="plaintext">##contig=<ID=MT,length=16569></span>

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<pre style="margin: 0;">+<span id="LC69" class="line" lang="plaintext">##contig=<ID=GL000207.1,length=4262></span>

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<pre style="margin: 0;">+<span id="LC70" class="line" lang="plaintext">##contig=<ID=GL000226.1,length=15008></span>

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<pre style="margin: 0;">+<span id="LC71" class="line" lang="plaintext">##contig=<ID=GL000229.1,length=19913></span>

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<pre style="margin: 0;">+<span id="LC72" class="line" lang="plaintext">##contig=<ID=GL000231.1,length=27386></span>

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<pre style="margin: 0;">+<span id="LC73" class="line" lang="plaintext">##contig=<ID=GL000210.1,length=27682></span>

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<pre style="margin: 0;">+<span id="LC74" class="line" lang="plaintext">##contig=<ID=GL000239.1,length=33824></span>

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<pre style="margin: 0;">+<span id="LC75" class="line" lang="plaintext">##contig=<ID=GL000235.1,length=34474></span>

</pre>

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<pre style="margin: 0;">+<span id="LC76" class="line" lang="plaintext">##contig=<ID=GL000201.1,length=36148></span>

</pre>

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<pre style="margin: 0;">+<span id="LC77" class="line" lang="plaintext">##contig=<ID=GL000247.1,length=36422></span>

</pre>

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<pre style="margin: 0;">+<span id="LC78" class="line" lang="plaintext">##contig=<ID=GL000245.1,length=36651></span>

</pre>

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<pre style="margin: 0;">+<span id="LC79" class="line" lang="plaintext">##contig=<ID=GL000197.1,length=37175></span>

</pre>

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<pre style="margin: 0;">+<span id="LC80" class="line" lang="plaintext">##contig=<ID=GL000203.1,length=37498></span>

</pre>

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<pre style="margin: 0;">+<span id="LC81" class="line" lang="plaintext">##contig=<ID=GL000246.1,length=38154></span>

</pre>

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<pre style="margin: 0;">+<span id="LC82" class="line" lang="plaintext">##contig=<ID=GL000249.1,length=38502></span>

</pre>

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83

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<pre style="margin: 0;">+<span id="LC83" class="line" lang="plaintext">##contig=<ID=GL000196.1,length=38914></span>

</pre>

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84

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC84" class="line" lang="plaintext">##contig=<ID=GL000248.1,length=39786></span>

</pre>

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85

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC85" class="line" lang="plaintext">##contig=<ID=GL000244.1,length=39929></span>

</pre>

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86

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC86" class="line" lang="plaintext">##contig=<ID=GL000238.1,length=39939></span>

</pre>

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87

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC87" class="line" lang="plaintext">##contig=<ID=GL000202.1,length=40103></span>

</pre>

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88

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC88" class="line" lang="plaintext">##contig=<ID=GL000234.1,length=40531></span>

</pre>

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89

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC89" class="line" lang="plaintext">##contig=<ID=GL000232.1,length=40652></span>

</pre>

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90

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC90" class="line" lang="plaintext">##contig=<ID=GL000206.1,length=41001></span>

</pre>

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91

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC91" class="line" lang="plaintext">##contig=<ID=GL000240.1,length=41933></span>

</pre>

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92

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC92" class="line" lang="plaintext">##contig=<ID=GL000236.1,length=41934></span>

</pre>

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93

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC93" class="line" lang="plaintext">##contig=<ID=GL000241.1,length=42152></span>

</pre>

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94

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC94" class="line" lang="plaintext">##contig=<ID=GL000243.1,length=43341></span>

</pre>

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95

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC95" class="line" lang="plaintext">##contig=<ID=GL000242.1,length=43523></span>

</pre>

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96

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC96" class="line" lang="plaintext">##contig=<ID=GL000230.1,length=43691></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="97" 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">

97

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC97" class="line" lang="plaintext">##contig=<ID=GL000237.1,length=45867></span>

</pre>

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98

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC98" class="line" lang="plaintext">##contig=<ID=GL000233.1,length=45941></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="99" 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">

99

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC99" class="line" lang="plaintext">##contig=<ID=GL000204.1,length=81310></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="100" 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">

100

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC100" class="line" lang="plaintext">##contig=<ID=GL000198.1,length=90085></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="101" 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">

101

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC101" class="line" lang="plaintext">##contig=<ID=GL000208.1,length=92689></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="102" 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">

102

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<pre style="margin: 0;">+<span id="LC102" class="line" lang="plaintext">##contig=<ID=GL000191.1,length=106433></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="103" 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">

103

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC103" class="line" lang="plaintext">##contig=<ID=GL000227.1,length=128374></span>

</pre>

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<pre style="margin: 0;">+<span id="LC105" class="line" lang="plaintext">##contig=<ID=GL000214.1,length=137718></span>

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<pre style="margin: 0;">+<span id="LC106" class="line" lang="plaintext">##contig=<ID=GL000221.1,length=155397></span>

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<pre style="margin: 0;">+<span id="LC107" class="line" lang="plaintext">##contig=<ID=GL000209.1,length=159169></span>

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<pre style="margin: 0;">+<span id="LC108" class="line" lang="plaintext">##contig=<ID=GL000218.1,length=161147></span>

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109

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<pre style="margin: 0;">+<span id="LC109" class="line" lang="plaintext">##contig=<ID=GL000220.1,length=161802></span>

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<pre style="margin: 0;">+<span id="LC110" class="line" lang="plaintext">##contig=<ID=GL000213.1,length=164239></span>

</pre>

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<pre style="margin: 0;">+<span id="LC111" class="line" lang="plaintext">##contig=<ID=GL000211.1,length=166566></span>

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<pre style="margin: 0;">+<span id="LC112" class="line" lang="plaintext">##contig=<ID=GL000199.1,length=169874></span>

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<pre style="margin: 0;">+<span id="LC113" class="line" lang="plaintext">##contig=<ID=GL000217.1,length=172149></span>

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114

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<pre style="margin: 0;">+<span id="LC114" class="line" lang="plaintext">##contig=<ID=GL000216.1,length=172294></span>

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<pre style="margin: 0;">+<span id="LC115" class="line" lang="plaintext">##contig=<ID=GL000215.1,length=172545></span>

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116

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<pre style="margin: 0;">+<span id="LC116" class="line" lang="plaintext">##contig=<ID=GL000205.1,length=174588></span>

</pre>

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117

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<pre style="margin: 0;">+<span id="LC117" class="line" lang="plaintext">##contig=<ID=GL000219.1,length=179198></span>

</pre>

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118

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<pre style="margin: 0;">+<span id="LC118" class="line" lang="plaintext">##contig=<ID=GL000224.1,length=179693></span>

</pre>

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<pre style="margin: 0;">+<span id="LC119" class="line" lang="plaintext">##contig=<ID=GL000223.1,length=180455></span>

</pre>

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<pre style="margin: 0;">+<span id="LC120" class="line" lang="plaintext">##contig=<ID=GL000195.1,length=182896></span>

</pre>

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<pre style="margin: 0;">+<span id="LC121" class="line" lang="plaintext">##contig=<ID=GL000212.1,length=186858></span>

</pre>

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<pre style="margin: 0;">+<span id="LC122" class="line" lang="plaintext">##contig=<ID=GL000222.1,length=186861></span>

</pre>

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<pre style="margin: 0;">+<span id="LC123" class="line" lang="plaintext">##contig=<ID=GL000200.1,length=187035></span>

</pre>

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<pre style="margin: 0;">+<span id="LC124" class="line" lang="plaintext">##contig=<ID=GL000193.1,length=189789></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="125" 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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<pre style="margin: 0;">+<span id="LC125" class="line" lang="plaintext">##contig=<ID=GL000194.1,length=191469></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="126" 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">

126

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<pre style="margin: 0;">+<span id="LC126" class="line" lang="plaintext">##contig=<ID=GL000225.1,length=211173></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="127" 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">

127

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<pre style="margin: 0;">+<span id="LC127" class="line" lang="plaintext">##contig=<ID=GL000192.1,length=547496></span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="128" 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">

128

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<pre style="margin: 0;">+<span id="LC128" class="line" lang="plaintext">##source=GenomicsDBImport</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="129" 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">

129

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<pre style="margin: 0;">+<span id="LC129" class="line" lang="plaintext">##source=GenotypeGVCFs</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="130" 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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<pre style="margin: 0;">+<span id="LC130" class="line" lang="plaintext">##source=HaplotypeCaller</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="131" 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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<pre style="margin: 0;">+<span id="LC131" class="line" lang="plaintext">##source=VariantFiltration</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="132" 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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<pre style="margin: 0;">+<span id="LC132" class="line" lang="plaintext">#CHROM      POS     ID      REF     ALT     QUAL    FILTER  INFO    FORMAT  TUMOR</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="133" 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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<pre style="margin: 0;">+<span id="LC133" class="line" lang="plaintext">1   14522   .       G       A       142.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.47;ClippingRankSum=0.00;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=15.84;ReadPosRankSum=1.20;SOR=0.527       GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:5,4:9:99:60,0:0|1:14522_G_A:150,0,240</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="134" 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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<pre style="margin: 0;">+<span id="LC134" class="line" lang="plaintext">1   14542   .       A       G       214.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.990;ClippingRankSum=0.00;DP=16;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=13.41;ReadPosRankSum=0.490;SOR=1.085    GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:10,6:16:99:60,0:0|1:14522_G_A:222,0,382</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="135" 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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<pre style="margin: 0;">+<span id="LC135" class="line" lang="plaintext">1   14574   .       A       G       677.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-9.280e-01;ClippingRankSum=0.00;DP=41;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=16.53;ReadPosRankSum=-8.940e-01;SOR=1.316  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:23,18:41:99:60,0:0|1:14574_A_G:685,0,912</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="136" 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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<pre style="margin: 0;">+<span id="LC136" class="line" lang="plaintext">1   14590   .       G       A       571.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=0.601;ClippingRankSum=0.00;DP=47;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=12.16;ReadPosRankSum=2.24;SOR=0.790     GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:31,16:47:99:60,0:0|1:14574_A_G:579,0,1254</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="137" 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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<pre style="margin: 0;">+<span id="LC137" class="line" lang="plaintext">1   14599   .       T       A       561.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-9.360e-01;ClippingRankSum=0.00;DP=49;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.46;ReadPosRankSum=3.23;SOR=0.723        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:33,16:49:99:60,0:0|1:14574_A_G:569,0,1379</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="138" 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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<pre style="margin: 0;">+<span id="LC138" class="line" lang="plaintext">1   14604   .       A       G       558.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=1.50;ClippingRankSum=0.00;DP=51;ExcessHet=3.0103;FS=2.653;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=10.95;ReadPosRankSum=3.04;SOR=1.657      GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:35,16:51:99:60,0:0|1:14574_A_G:566,0,1421</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="139" 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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<pre style="margin: 0;">+<span id="LC139" class="line" lang="plaintext">1   14610   .       T       C       636.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=1.24;ClippingRankSum=0.00;DP=55;ExcessHet=3.0103;FS=5.359;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.57;ReadPosRankSum=1.53;SOR=2.176      GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:37,18:55:99:60,0:0|1:14574_A_G:644,0,1479</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="140" 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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<pre style="margin: 0;">+<span id="LC140" class="line" lang="plaintext">1   14653   .       C       T       2517.60 PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.65;ClippingRankSum=0.00;DP=133;ExcessHet=3.0103;FS=23.228;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=18.93;ReadPosRankSum=-1.537e+00;SOR=3.383      GT:AD:DP:GQ:MMQ:PL      0/1:68,65:133:99:60,0:2525,0,2295</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="141" 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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<pre style="margin: 0;">+<span id="LC141" class="line" lang="plaintext">1   14907   .       A       G       428.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.030e+00;ClippingRankSum=0.00;DP=72;ExcessHet=3.0103;FS=17.057;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=5.95;ReadPosRankSum=5.14;SOR=0.034        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:58,14:72:99:60,0:0|1:14907_A_G:436,0,2304</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="142" 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">

142

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<pre style="margin: 0;">+<span id="LC142" class="line" lang="plaintext">1   14930   .       A       G       545.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-9.000e-03;ClippingRankSum=0.00;DP=79;ExcessHet=3.0103;FS=23.790;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.91;ReadPosRankSum=5.49;SOR=0.025        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:61,18:79:99:60,0:0|1:14907_A_G:553,0,2401</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="143" 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">

143

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<pre style="margin: 0;">+<span id="LC143" class="line" lang="plaintext">1   15015   .       G       C       218.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.985;ClippingRankSum=0.00;DP=28;ExcessHet=3.0103;FS=2.586;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.81;SOR=1.345  GT:AD:DP:GQ:MMQ:PL      0/1:21,7:28:99:60,0:226,0,739</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="144" 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">

144

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<pre style="margin: 0;">+<span id="LC144" class="line" lang="plaintext">1   15208   .       G       A       163.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-6.930e-01;ClippingRankSum=0.00;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.79;ReadPosRankSum=-9.360e-01;SOR=0.368   GT:AD:DP:GQ:MMQ:PL      0/1:14,7:21:99:60,0:171,0,481</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="145" 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">

145

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<pre style="margin: 0;">+<span id="LC145" class="line" lang="plaintext">1   15211   .       T       G       613.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.370e-01;ClippingRankSum=0.00;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=29.22;ReadPosRankSum=-1.441e+00;SOR=1.085  GT:AD:DP:GQ:MMQ:PL      0/1:4,17:21:76:60,0:621,0,76</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="146" 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">

146

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<pre style="margin: 0;">+<span id="LC146" class="line" lang="plaintext">1   15274   .       A       G,T     487     PASS    AC=1,1;AF=0.500,0.500;AN=2;DP=12;ExcessHet=3.0103;FS=0.000;MLEAC=1,1;MLEAF=0.500,0.500;MQ=60.00;MQ0=0;QD=25.36;SOR=2.670        GT:AD:DP:GQ:MMQ:PL      1/2:0,2,10:12:54:60,60,0:504,420,414,84,0,54</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="147" 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">

147

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<pre style="margin: 0;">+<span id="LC147" class="line" lang="plaintext">1   16257   .       G       C       38.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=0.040;ClippingRankSum=0.00;DP=46;ExcessHet=3.0103;FS=1.887;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.84;ReadPosRankSum=-1.098e+00;SOR=0.877        GT:AD:DP:GQ:MMQ:PL      0/1:41,5:46:46:60,0:46,0,1301</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="148" 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">

148

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<pre style="margin: 0;">+<span id="LC148" class="line" lang="plaintext">1   16288   .       C       G       154.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.862;ClippingRankSum=0.00;DP=36;ExcessHet=3.0103;FS=7.396;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=4.29;ReadPosRankSum=0.553;SOR=2.280     GT:AD:DP:GQ:MMQ:PL      0/1:30,6:36:99:60,0:162,0,1221</span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="149" 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">

149

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC149" class="line" lang="plaintext">1   16298   .       C       T       256.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.62;ClippingRankSum=0.00;DP=31;ExcessHet=3.0103;FS=10.268;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=8.28;ReadPosRankSum=0.166;SOR=2.564     GT:AD:DP:GQ:MMQ:PL      0/1:24,7:31:99:60,0:264,0,900</span>

</pre>

</td>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="150" 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">

150

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC150" class="line" lang="plaintext">1   16378   .       T       C       676.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.888e+00;ClippingRankSum=0.00;DP=48;ExcessHet=3.0103;FS=20.750;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=14.10;ReadPosRankSum=2.00;SOR=1.812       GT:AD:DP:GQ:MMQ:PL      0/1:26,22:48:99:60,0:684,0,945</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="151" 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">

151

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC151" class="line" lang="plaintext">1   16495   .       G       C       415.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.046;ClippingRankSum=0.00;DP=61;ExcessHet=3.0103;FS=1.076;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.81;ReadPosRankSum=-1.506e+00;SOR=0.457        GT:AD:DP:GQ:MMQ:PL      0/1:42,19:61:99:60,0:423,0,1463</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="152" 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">

152

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<pre style="margin: 0;">+<span id="LC152" class="line" lang="plaintext">1   16497   .       A       G       424.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-8.880e-01;ClippingRankSum=0.00;DP=60;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.08;ReadPosRankSum=-8.870e-01;SOR=0.776   GT:AD:DP:GQ:MMQ:PL      0/1:40,20:60:99:60,0:432,0,1413</span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="153" 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">

153

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC153" class="line" lang="plaintext">1   16534   .       C       T       469.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.667;ClippingRankSum=0.00;DP=39;ExcessHet=3.0103;FS=4.029;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=12.04;ReadPosRankSum=0.174;SOR=0.174    GT:AD:DP:GQ:MMQ:PL      0/1:24,15:39:99:60,0:477,0,841</span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="154" 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">

154

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<pre style="margin: 0;">+<span id="LC154" class="line" lang="plaintext">1   16571   .       G       A       241.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.679;ClippingRankSum=0.00;DP=22;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=10.98;ReadPosRankSum=-1.303e+00;SOR=0.223       GT:AD:DP:GQ:MMQ:PL      0/1:15,7:22:99:60,0:249,0,609</span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="155" 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">

155

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC155" class="line" lang="plaintext">1   16580   .       C       G       67.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.03;ClippingRankSum=0.00;DP=19;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.56;ReadPosRankSum=-9.460e-01;SOR=0.054 GT:AD:DP:GQ:MMQ:PL      0/1:16,3:19:75:60,0:75,0,705</span>

</pre>

</td>

</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="156" 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">

156

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC156" class="line" lang="plaintext">1   16949   .       A       C       130.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.097;ClippingRankSum=0.00;DP=13;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=10.05;ReadPosRankSum=0.447;SOR=0.223    GT:AD:DP:GQ:MMQ:PL      0/1:9,4:13:99:60,0:138,0,409</span>

</pre>

</td>

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<td class="diff-line-num new new_line" data-linenumber="157" 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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<pre style="margin: 0;">+<span id="LC157" class="line" lang="plaintext">1   16974   .       C       T       31.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=0.548;ClippingRankSum=0.00;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=1.86;ReadPosRankSum=0.373;SOR=0.035     GT:AD:DP:GQ:MMQ:PL      0/1:15,2:17:39:60,0:39,0,625</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="158" 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">

158

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<pre style="margin: 0;">+<span id="LC158" class="line" lang="plaintext">1   16996   .       T       C       76.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.948;ClippingRankSum=0.00;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=4.51;ReadPosRankSum=-7.590e-01;SOR=0.069        GT:AD:DP:GQ:MMQ:PL      0/1:14,3:17:84:60,0:84,0,559</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="159" 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">

159

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<pre style="margin: 0;">+<span id="LC159" class="line" lang="plaintext">1   17055   .       C       CAGGTT  28.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-9.670e-01;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=9.55;ReadPosRankSum=-9.670e-01;SOR=0.368    GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,1:3:36:60,0:0|1:17055_C_CAGGTT:36,0,77</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="160" 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">

160

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<pre style="margin: 0;">+<span id="LC160" class="line" lang="plaintext">1   17056   .       C       CTCGG   28.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.00;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=9.55;ReadPosRankSum=-9.670e-01;SOR=0.368  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,1:3:36:60,0:0|1:17055_C_CAGGTT:36,0,77</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="161" 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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<pre style="margin: 0;">+<span id="LC161" class="line" lang="plaintext">1   17407   .       G       A       209.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-7.730e-01;ClippingRankSum=0.00;DP=19;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.03;ReadPosRankSum=-5.720e-01;SOR=0.804  GT:AD:DP:GQ:MMQ:PL      0/1:12,7:19:99:60,0:217,0,606</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="162" 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">

162

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<pre style="margin: 0;">+<span id="LC162" class="line" lang="plaintext">1   17538   .       C       A       64.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.08;ClippingRankSum=0.00;DP=21;ExcessHet=3.0103;FS=6.067;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.08;ReadPosRankSum=-9.910e-01;SOR=0.889 GT:AD:DP:GQ:MMQ:PL      0/1:18,3:21:72:60,0:72,0,933</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="163" 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">

163

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<pre style="margin: 0;">+<span id="LC163" class="line" lang="plaintext">1   18062   .       C       CT      256     PASS    AC=2;AF=1.00;AN=2;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.73;SOR=1.329   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,6:6:18:60,0:1|1:18062_C_CT:270,18,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="164" 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">

164

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<pre style="margin: 0;">+<span id="LC164" class="line" lang="plaintext">1   18064   .       G       GATGGCCTTCTTGCTGCCCTTGATCTTCTCAATCTTGGCC        256     PASS    AC=2;AF=1.00;AN=2;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=30.97;SOR=1.329   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,6:6:18:60,0:1|1:18062_C_CT:270,18,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="165" 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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<pre style="margin: 0;">+<span id="LC165" class="line" lang="plaintext">1   19226   .       T       A       205.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=0.372;ClippingRankSum=0.00;DP=34;ExcessHet=3.0103;FS=5.146;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.05;ReadPosRankSum=-6.030e-01;SOR=2.012        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:27,7:34:99:60,0:0|1:19226_T_A:213,0,5280</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="166" 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">

166

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<pre style="margin: 0;">+<span id="LC166" class="line" lang="plaintext">1   19249   .       G       A       235.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=0.191;ClippingRankSum=0.00;DP=38;ExcessHet=3.0103;FS=7.857;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.20;ReadPosRankSum=0.900;SOR=2.595     GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:30,8:38:99:60,0:0|1:19226_T_A:243,0,5947</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="167" 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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<pre style="margin: 0;">+<span id="LC167" class="line" lang="plaintext">1   19254   .       G       C       235.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=1.43;ClippingRankSum=0.00;DP=39;ExcessHet=3.0103;FS=7.954;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.04;ReadPosRankSum=0.943;SOR=2.792      GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:31,8:39:99:60,0:0|1:19226_T_A:243,0,5947</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="168" 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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<pre style="margin: 0;">+<span id="LC168" class="line" lang="plaintext">1   19279   .       C       T       275.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-3.500e-01;ClippingRankSum=0.00;DP=39;ExcessHet=3.0103;FS=5.808;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.07;ReadPosRankSum=-4.280e-01;SOR=1.961   GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:29,10:39:99:60,0:0|1:19226_T_A:283,0,5479</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="169" 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">

169

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<pre style="margin: 0;">+<span id="LC169" class="line" lang="plaintext">1   19322   .       C       T       232.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.607;ClippingRankSum=0.00;DP=25;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=9.30;ReadPosRankSum=-3.240e-01;SOR=0.569        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:18,7:25:99:60,0:0|1:19322_C_T:240,0,866</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="170" 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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<pre style="margin: 0;">+<span id="LC170" class="line" lang="plaintext">1   19355   .       G       A       244.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-7.120e-01;ClippingRankSum=0.00;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.65;ReadPosRankSum=-2.250e-01;SOR=0.250  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:14,7:21:99:60,0:1|0:19322_C_T:252,0,837</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="171" 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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<pre style="margin: 0;">+<span id="LC171" class="line" lang="plaintext">1   19391   .       G       A       55.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.480e+00;ClippingRankSum=0.00;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.18;ReadPosRankSum=0.140;SOR=0.132 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:7,2:9:63:60,0:1|0:19322_C_T:63,0,475</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="172" 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">

172

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<pre style="margin: 0;">+<span id="LC172" class="line" lang="plaintext">1   20037   .       A       C       88.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.730;ClippingRankSum=0.00;DP=13;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.82;ReadPosRankSum=0.290;SOR=0.495     GT:AD:DP:GQ:MMQ:PL      0/1:10,3:13:96:60,0:96,0,576</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="173" 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">

173

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<pre style="margin: 0;">+<span id="LC173" class="line" lang="plaintext">1   20129   .       C       T       190.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.080e-01;ClippingRankSum=0.00;DP=24;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.94;ReadPosRankSum=1.15;SOR=0.591 GT:AD:DP:GQ:MMQ:PL      0/1:18,6:24:99:60,0:198,0,757</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="174" 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">

174

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<pre style="margin: 0;">+<span id="LC174" class="line" lang="plaintext">1   20184   .       A       G       245.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-8.000e-02;ClippingRankSum=0.00;DP=22;ExcessHet=3.0103;FS=7.384;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.16;ReadPosRankSum=-7.540e-01;SOR=1.759  GT:AD:DP:GQ:MMQ:PL      0/1:14,8:22:99:60,0:253,0,526</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="175" 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">

175

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<pre style="margin: 0;">+<span id="LC175" class="line" lang="plaintext">1   20221   .       G       C       31.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.907e+00;ClippingRankSum=0.00;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=1.86;ReadPosRankSum=1.25;SOR=0.582 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:15,2:17:39:60,0:0|1:20221_G_C:39,0,633</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="176" 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">

176

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<pre style="margin: 0;">+<span id="LC176" class="line" lang="plaintext">1   20227   .       T       C       34.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.149e+00;ClippingRankSum=0.00;DP=16;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.16;ReadPosRankSum=0.815;SOR=0.473        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:14,2:16:42:60,0:0|1:20221_G_C:42,0,582</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="177" 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">

177

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<pre style="margin: 0;">+<span id="LC177" class="line" lang="plaintext">1   24832   .       A       G       43.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=-8.910e-01;ClippingRankSum=0.00;DP=28;ExcessHet=3.0103;FS=9.700;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=1.56;ReadPosRankSum=0.692;SOR=0.003        GT:AD:DP:GQ:MMQ:PL      0/1:25,3:28:51:60,0:51,0,1518</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="178" 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">

178

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<pre style="margin: 0;">+<span id="LC178" class="line" lang="plaintext">1   127573  .       G       A       187.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.22;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=18.76;ReadPosRankSum=0.674;SOR=0.693     GT:AD:DP:GQ:MMQ:PL      0/1:5,5:10:99:60,0:195,0,214</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="179" 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">

179

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<pre style="margin: 0;">+<span id="LC179" class="line" lang="plaintext">1   135040  .       T       C       1172.60 PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.06;ClippingRankSum=0.00;DP=65;ExcessHet=3.0103;FS=2.115;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=18.04;ReadPosRankSum=0.678;SOR=0.452     GT:AD:DP:GQ:MMQ:PL      0/1:29,36:65:99:60,0:1180,0,1200</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="180" 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">

180

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<pre style="margin: 0;">+<span id="LC180" class="line" lang="plaintext">1   135982  .       A       G       255.90  PASS    AC=2;AF=1.00;AN=2;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.24;SOR=3.912   GT:AD:DP:GQ:MMQ:PL      1/1:0,6:6:18:60,0:270,18,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="181" 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">

181

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<pre style="margin: 0;">+<span id="LC181" class="line" lang="plaintext">1   136048  .       C       T       175.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.18;ClippingRankSum=0.00;DP=32;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=5.49;ReadPosRankSum=0.545;SOR=0.693      GT:AD:DP:GQ:MMQ:PL      0/1:24,8:32:99:60,0:183,0,639</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="182" 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">

182

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<pre style="margin: 0;">+<span id="LC182" class="line" lang="plaintext">1   136052  .       T       C       323.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-7.330e-01;ClippingRankSum=0.00;DP=32;ExcessHet=3.0103;FS=1.412;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=10.11;ReadPosRankSum=-1.296e+00;SOR=0.843  GT:AD:DP:GQ:MMQ:PL      0/1:18,14:32:99:60,0:331,0,491</span>

</pre>

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</tr>

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</td>

<td class="diff-line-num new new_line" data-linenumber="183" 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">

183

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<pre style="margin: 0;">+<span id="LC183" class="line" lang="plaintext">1   136940  .       G       T       365.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.278e+00;ClippingRankSum=0.00;DP=34;ExcessHet=3.0103;FS=3.176;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.08;ReadPosRankSum=-9.410e-01;SOR=0.269  GT:AD:DP:GQ:MMQ:PL      0/1:16,17:33:99:60,0:373,0,700</span>

</pre>

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</tr>

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</td>

<td class="diff-line-num new new_line" data-linenumber="184" 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">

184

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<pre style="margin: 0;">+<span id="LC184" class="line" lang="plaintext">1   137491  .       T       C       70.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.674;ClippingRankSum=0.00;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=17.65;ReadPosRankSum=0.00;SOR=0.693      GT:AD:DP:GQ:MMQ:PL      0/1:2,2:4:78:60,0:78,0,100</span>

</pre>

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</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="185" 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">

185

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<pre style="margin: 0;">+<span id="LC185" class="line" lang="plaintext">1   137622  .       G       A       112.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-5.240e-01;ClippingRankSum=0.00;DP=5;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=22.52;ReadPosRankSum=-1.260e-01;SOR=1.179   GT:AD:DP:GQ:MMQ:PL      0/1:2,3:5:99:60,0:120,0,114</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="186" 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">

186

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<pre style="margin: 0;">+<span id="LC186" class="line" lang="plaintext">1   137825  .       G       A       627.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.165e+00;ClippingRankSum=0.00;DP=67;ExcessHet=3.0103;FS=3.476;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=9.37;ReadPosRankSum=1.78;SOR=0.368 GT:AD:DP:GQ:MMQ:PL      0/1:43,24:67:99:60,0:635,0,1920</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="187" 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">

187

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<pre style="margin: 0;">+<span id="LC187" class="line" lang="plaintext">1   139058  .       C       G       31.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=1.42;ClippingRankSum=0.00;DP=47;ExcessHet=3.0103;FS=2.095;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.67;ReadPosRankSum=1.34;SOR=1.402       GT:AD:DP:GQ:MMQ:PL      0/1:43,4:47:39:60,0:39,0,2097</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="188" 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">

188

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<pre style="margin: 0;">+<span id="LC188" class="line" lang="plaintext">1   146511  .       T       TCATTTCTGTGCTGCTTGG     73.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-9.670e-01;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=24.55;ReadPosRankSum=0.431;SOR=0.223        GT:AD:DP:GQ:MMQ:PL      0/1:1,2:3:35:60,0:81,0,35</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="189" 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">

189

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<pre style="margin: 0;">+<span id="LC189" class="line" lang="plaintext">1   155800  .       C       T       719.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.151e+00;ClippingRankSum=0.00;DP=28;ExcessHet=3.0103;FS=4.301;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=25.70;ReadPosRankSum=-2.268e+00;SOR=1.814  GT:AD:DP:GQ:MMQ:PL      0/1:8,20:28:99:60,0:727,0,430</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="190" 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">

190

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<pre style="margin: 0;">+<span id="LC190" class="line" lang="plaintext">1   157259  .       G       A       199.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.431;ClippingRankSum=0.00;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.27;ReadPosRankSum=-6.740e-01;SOR=0.368        GT:AD:DP:GQ:MMQ:PL      0/1:1,5:6:27:60,0:207,0,27</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="191" 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">

191

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<pre style="margin: 0;">+<span id="LC191" class="line" lang="plaintext">1   157295  .       T       C       29.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.383e+00;ClippingRankSum=0.00;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.40;ReadPosRankSum=-4.310e-01;SOR=0.105    GT:AD:DP:GQ:MMQ:PL      0/1:2,2:4:37:60,0:37,0,78</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="192" 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">

192

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<pre style="margin: 0;">+<span id="LC192" class="line" lang="plaintext">1   172689  .       C       CAGAG   35.50   PASS    AC=2;AF=1.00;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=28.20;SOR=1.609  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,1:1:3:60,0:1|1:172689_C_CAGAG:45,3,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="193" 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">

193

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<pre style="margin: 0;">+<span id="LC193" class="line" lang="plaintext">1   172691  .       A       T       35.40   PASS    AC=2;AF=1.00;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=25.00;SOR=1.609  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,1:1:3:60,0:1|1:172689_C_CAGAG:45,3,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="194" 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">

194

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<pre style="margin: 0;">+<span id="LC194" class="line" lang="plaintext">1   521603  .       G       A       37.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=18.64;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:49,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="195" 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">

195

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<pre style="margin: 0;">+<span id="LC195" class="line" lang="plaintext">1   564463  .       A       G       14.40   PASS    AC=2;AF=1.00;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=14.41;SOR=1.609  GT:AD:DP:GQ:MMQ:PL      1/1:0,1:1:3:60,0:24,3,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="196" 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">

196

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<pre style="margin: 0;">+<span id="LC196" class="line" lang="plaintext">1   564598  .       A       G       70.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.126;ClippingRankSum=0.00;DP=5;ExcessHet=3.0103;FS=3.979;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=14.12;ReadPosRankSum=0.674;SOR=0.859     GT:AD:DP:GQ:MMQ:PL      0/1:2,3:5:55:60,0:78,0,55</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="197" 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">

197

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<pre style="margin: 0;">+<span id="LC197" class="line" lang="plaintext">1   564654  .       G       A       241.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.424e+00;ClippingRankSum=0.00;DP=16;ExcessHet=3.0103;FS=2.331;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=15.10;ReadPosRankSum=-9.750e-01;SOR=0.223  GT:AD:DP:GQ:MMQ:PL      0/1:4,12:16:91:60,0:249,0,91</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="198" 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">

198

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<pre style="margin: 0;">+<span id="LC198" class="line" lang="plaintext">1   564766  .       T       C       166.10  PASS    AC=2;AF=1.00;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.56;SOR=3.258   GT:AD:DP:GQ:MMQ:PL      1/1:0,4:4:12:60,0:180,12,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="199" 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">

199

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<pre style="margin: 0;">+<span id="LC199" class="line" lang="plaintext">1   565286  .       C       T       19723   PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=7.82;ClippingRankSum=0.00;DP=467;ExcessHet=3.0103;FS=25.209;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=30.62;ReadPosRankSum=1.99;SOR=7.815      GT:AD:DP:GQ:MMQ:PL      1/1:12,455:467:99:60,0:19737,1043,0</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="200" 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">

200

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<pre style="margin: 0;">+<span id="LC200" class="line" lang="plaintext">1   565406  .       C       T       1746.60 PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.851;ClippingRankSum=0.00;DP=54;ExcessHet=3.0103;FS=3.804;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=34.25;ReadPosRankSum=-3.650e-01;SOR=2.552       GT:AD:DP:GQ:MMQ:PL      0/1:5,46:51:70:60,0:1754,0,70</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="201" 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">

201

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<pre style="margin: 0;">+<span id="LC201" class="line" lang="plaintext">1   565454  .       T       C       35.40   PASS    AC=2;AF=1.00;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=28.17;SOR=1.609  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,1:1:3:60,0:1|1:565454_T_C:45,3,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC202" class="line" lang="plaintext">1   565464  .       T       C       35.40   PASS    AC=2;AF=1.00;AN=2;DP=1;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=26.80;SOR=1.609  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,1:1:3:60,0:1|1:565454_T_C:45,3,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="203" 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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<pre style="margin: 0;">+<span id="LC203" class="line" lang="plaintext">1   565591  .       C       T       206.90  PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=0.126;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=20.69;ReadPosRankSum=0.674;SOR=0.525     GT:AD:DP:GQ:MMQ:PL      1/1:1,9:10:5:60,0:218,5,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="204" 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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<pre style="margin: 0;">+<span id="LC204" class="line" lang="plaintext">1   565697  .       A       G       116.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.450e+00;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=2.808;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=11.66;ReadPosRankSum=0.431;SOR=1.108       GT:AD:DP:GQ:MMQ:PL      0/1:4,6:10:99:60,0:124,0,212</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="205" 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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<pre style="margin: 0;">+<span id="LC205" class="line" lang="plaintext">1   565937  .       T       C       37.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=18.64;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:49,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="206" 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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<pre style="margin: 0;">+<span id="LC206" class="line" lang="plaintext">1   565976  .       C       T       37.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=18.64;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:49,6,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC207" class="line" lang="plaintext">1   566010  .       G       A       37.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=18.64;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:49,6,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC208" class="line" lang="plaintext">1   566573  .       A       G       614.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.757e+00;ClippingRankSum=0.00;DP=38;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=16.61;ReadPosRankSum=2.51;SOR=0.646        GT:AD:DP:GQ:MMQ:PL      0/1:9,28:37:99:60,0:622,0,191</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="209" 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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<pre style="margin: 0;">+<span id="LC209" class="line" lang="plaintext">1   566757  .       T       A       167.60  FS;SnpCluster   AC=1;AF=0.500;AN=2;BaseQRankSum=-2.532e+00;ClippingRankSum=0.00;DP=62;ExcessHet=3.0103;FS=37.235;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.70;ReadPosRankSum=-6.198e+00;SOR=1.400  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:40,22:62:99:60,0:0|1:566757_T_A:175,0,1642</span>

</pre>

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<pre style="margin: 0;">+<span id="LC210" class="line" lang="plaintext">1   566758  .       T       A       168.60  FS;SnpCluster   AC=1;AF=0.500;AN=2;BaseQRankSum=-2.861e+00;ClippingRankSum=0.00;DP=62;ExcessHet=3.0103;FS=37.235;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.72;ReadPosRankSum=-6.198e+00;SOR=1.400  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:40,22:62:99:60,0:0|1:566757_T_A:176,0,1642</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="211" 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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<pre style="margin: 0;">+<span id="LC211" class="line" lang="plaintext">1   566764  .       T       TAGTTCCC        168.60  FS      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.651e+00;ClippingRankSum=0.00;DP=62;ExcessHet=3.0103;FS=37.235;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.72;ReadPosRankSum=-5.695e+00;SOR=1.400  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:40,22:62:99:60,0:0|1:566757_T_A:176,0,1642</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="212" 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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<pre style="margin: 0;">+<span id="LC212" class="line" lang="plaintext">1   566766  .       T       TAA     168.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.258e+00;ClippingRankSum=0.00;DP=57;ExcessHet=3.0103;FS=24.434;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.96;ReadPosRankSum=-4.735e+00;SOR=0.666  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:40,17:57:99:60,0:0|1:566757_T_A:176,0,1642</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="213" 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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<pre style="margin: 0;">+<span id="LC213" class="line" lang="plaintext">1   566768  .       A       AATCGGTG        100.60  QD      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.223e+00;ClippingRankSum=0.00;DP=56;ExcessHet=3.0103;FS=23.954;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=1.80;ReadPosRankSum=-4.992e+00;SOR=0.668  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:39,17:56:99:60,0:0|1:566757_T_A:108,0,1651</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="214" 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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<pre style="margin: 0;">+<span id="LC214" class="line" lang="plaintext">1   566771  .       C       T       146.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.439e+00;ClippingRankSum=0.00;DP=49;ExcessHet=3.0103;FS=20.853;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.99;ReadPosRankSum=4.39;SOR=0.694        GT:AD:DP:GQ:MMQ:PL      0/1:39,10:49:99:60,0:154,0,1129</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="215" 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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<pre style="margin: 0;">+<span id="LC215" class="line" lang="plaintext">1   566772  .       C       CCGATATGGCGTTT  11.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=0.136;ClippingRankSum=0.00;DP=48;ExcessHet=3.0103;FS=7.437;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.24;ReadPosRankSum=-3.271e+00;SOR=0.081        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:39,9:48:19:60,0:0|1:566757_T_A:19,0,1621</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="216" 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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<pre style="margin: 0;">+<span id="LC216" class="line" lang="plaintext">1   566792  .       T       C       249     SnpCluster      AC=2;AF=1.00;AN=2;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.67;SOR=0.892   GT:AD:DP:GQ:MMQ:PL      1/1:0,9:9:27:60,0:263,27,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC217" class="line" lang="plaintext">1   566816  .       C       A       179     PASS    AC=2;AF=1.00;AN=2;DP=7;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=25.57;SOR=0.941   GT:AD:DP:GQ:MMQ:PL      1/1:0,7:7:21:60,0:193,21,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="218" 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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<pre style="margin: 0;">+<span id="LC218" class="line" lang="plaintext">1   566849  .       G       A       133.90  PASS    AC=2;AF=1.00;AN=2;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.32;SOR=0.693   GT:AD:DP:GQ:MMQ:PL      1/1:0,6:6:18:60,0:148,18,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="219" 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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<pre style="margin: 0;">+<span id="LC219" class="line" lang="plaintext">1   566916  .       A       G       105.10  PASS    AC=2;AF=1.00;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.27;SOR=0.693   GT:AD:DP:GQ:MMQ:PL      1/1:0,4:4:12:60,0:119,12,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC220" class="line" lang="plaintext">1   566933  .       A       G       115.10  PASS    AC=2;AF=1.00;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.77;SOR=0.693   GT:AD:DP:GQ:MMQ:PL      1/1:0,4:4:12:60,0:129,12,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC221" class="line" lang="plaintext">1   566960  .       T       C       58.80   PASS    AC=2;AF=1.00;AN=2;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=19.60;SOR=1.179  GT:AD:DP:GQ:MMQ:PL      1/1:0,3:3:9:60,0:72,9,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC222" class="line" lang="plaintext">1   567191  .       C       T       15415   PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=1.55;ClippingRankSum=0.00;DP=326;ExcessHet=3.0103;FS=9.450;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=26.00;ReadPosRankSum=-1.366e+00;SOR=4.122 GT:AD:DP:GQ:MMQ:PL      1/1:1,325:326:99:60,0:15429,1076,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC223" class="line" lang="plaintext">1   567242  .       G       A       38195   PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=4.93;ClippingRankSum=0.00;DP=1418;ExcessHet=3.0103;FS=5.804;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=27.05;ReadPosRankSum=4.49;SOR=2.322      GT:AD:DP:GQ:MMQ:PL      1/1:33,1379:1412:99:60,0:38209,3254,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="224" 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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<pre style="margin: 0;">+<span id="LC224" class="line" lang="plaintext">1   567486  .       T       C       838     PASS    AC=2;AF=1.00;AN=2;DP=19;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=30.02;SOR=1.609  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,19:19:57:60,0:1|1:567486_T_C:852,57,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="225" 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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<pre style="margin: 0;">+<span id="LC225" class="line" lang="plaintext">1   567489  .       T       C       1201    PASS    AC=2;AF=1.00;AN=2;DP=27;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.98;SOR=1.302  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,27:27:81:60,0:1|1:567486_T_C:1215,81,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="226" 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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<pre style="margin: 0;">+<span id="LC226" class="line" lang="plaintext">1   567579  .       C       T       1815    PASS    AC=2;AF=1.00;AN=2;DP=43;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.51;SOR=2.833  GT:AD:DP:GQ:MMQ:PL      1/1:0,43:43:99:60,0:1829,129,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="227" 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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<pre style="margin: 0;">+<span id="LC227" class="line" lang="plaintext">1   567697  .       G       A       539.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.467e+00;ClippingRankSum=0.00;DP=39;ExcessHet=3.0103;FS=3.057;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=13.84;ReadPosRankSum=1.34;SOR=0.287        GT:AD:DP:GQ:MMQ:PL      0/1:13,26:39:99:60,0:547,0,310</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="228" 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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<pre style="margin: 0;">+<span id="LC228" class="line" lang="plaintext">1   567755  .       CCGGAATGCCCCGACGTTACT   C       10.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=-4.550e-01;ClippingRankSum=0.00;DP=27;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.44;ReadPosRankSum=0.896;SOR=0.412        GT:AD:DP:GQ:MMQ:PL      0/1:22,2:24:18:60,0:18,0,917</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="229" 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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<pre style="margin: 0;">+<span id="LC229" class="line" lang="plaintext">1   567783  .       T       C       710     PASS    AC=2;AF=1.00;AN=2;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.11;SOR=0.804  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,17:17:51:60,0:1|1:567783_T_C:724,51,0</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="230" 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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<pre style="margin: 0;">+<span id="LC230" class="line" lang="plaintext">1   567807  .       T       C       671     PASS    AC=2;AF=1.00;AN=2;DP=15;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.08;SOR=1.112  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,15:15:51:60,0:1|1:567783_T_C:685,51,0</span>

</pre>

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</tr>

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<td class="diff-line-num new old_line" data-linenumber="0" 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="231" 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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<pre style="margin: 0;">+<span id="LC231" class="line" lang="plaintext">1   567867  .       A       G       798     PASS    AC=2;AF=1.00;AN=2;DP=32;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=24.94;SOR=0.818  GT:AD:DP:GQ:MMQ:PL      1/1:0,32:32:96:60,0:812,96,0</span>

</pre>

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</tr>

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<pre style="margin: 0;">+<span id="LC232" class="line" lang="plaintext">1   568201  .       T       C       791     PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=0.917;ClippingRankSum=0.00;DP=30;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=26.37;ReadPosRankSum=-8.730e-01;SOR=1.382 GT:AD:DP:GQ:MMQ:PL      1/1:2,28:30:41:60,0:805,41,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC233" class="line" lang="plaintext">1   568256  .       C       T       996.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.759;ClippingRankSum=0.00;DP=58;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=17.18;ReadPosRankSum=1.06;SOR=0.693     GT:AD:DP:GQ:MMQ:PL      0/1:12,46:58:99:60,0:1004,0,123</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="234" 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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<pre style="margin: 0;">+<span id="LC234" class="line" lang="plaintext">1   568361  .       T       C       395     PASS    AC=2;AF=1.00;AN=2;DP=15;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.34;SOR=1.473  GT:AD:DP:GQ:MMQ:PL      1/1:0,15:15:45:60,0:409,45,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC235" class="line" lang="plaintext">1   568419  .       T       C       436     PASS    AC=2;AF=1.00;AN=2;DP=10;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=23.23;SOR=0.693  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,10:10:30:60,0:1|1:568419_T_C:450,30,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC236" class="line" lang="plaintext">1   568442  .       T       C       836     PASS    AC=2;AF=1.00;AN=2;DP=19;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.03;SOR=0.793  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,19:19:60:60,0:1|1:568419_T_C:850,60,0</span>

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<pre style="margin: 0;">+<span id="LC237" class="line" lang="plaintext">1   568463  .       A       G       984     PASS    AC=2;AF=1.00;AN=2;DP=26;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=30.67;SOR=0.693  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,26:26:78:60,0:1|1:568419_T_C:998,78,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="238" 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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<pre style="margin: 0;">+<span id="LC238" class="line" lang="plaintext">1   568572  .       G       A       184     PASS    AC=2;AF=1.00;AN=2;DP=8;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=23.00;SOR=0.693   GT:AD:DP:GQ:MMQ:PL      1/1:0,8:8:24:60,0:198,24,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC239" class="line" lang="plaintext">1   568616  .       A       G       481     PASS    AC=2;AF=1.00;AN=2;DP=20;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=24.05;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,20:20:60:60,0:495,60,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC240" class="line" lang="plaintext">1   568691  .       T       C       78.30   SnpCluster      AC=2;AF=1.00;AN=2;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=26.61;SOR=0.693  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,2:2:6:60,0:1|1:568691_T_C:90,6,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC241" class="line" lang="plaintext">1   568703  .       A       G       78.30   SnpCluster      AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=29.20;SOR=0.693  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,2:2:6:60,0:1|1:568691_T_C:90,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="242" 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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<pre style="margin: 0;">+<span id="LC242" class="line" lang="plaintext">1   568718  .       C       T       78.30   SnpCluster      AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=28.55;SOR=0.693  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,2:2:6:60,0:1|1:568691_T_C:90,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="243" 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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<pre style="margin: 0;">+<span id="LC243" class="line" lang="plaintext">1   568752  .       T       C       37.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=18.64;SOR=2.303  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:49,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="244" 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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<pre style="margin: 0;">+<span id="LC244" class="line" lang="plaintext">1   569004  .       T       C       931     PASS    AC=2;AF=1.00;AN=2;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=34.42;SOR=0.990  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,21:21:63:60,0:1|1:569004_T_C:945,63,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="245" 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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<pre style="margin: 0;">+<span id="LC245" class="line" lang="plaintext">1   569010  .       T       C       931     PASS    AC=2;AF=1.00;AN=2;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.53;SOR=0.990  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,21:21:63:60,0:1|1:569004_T_C:945,63,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="246" 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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<pre style="margin: 0;">+<span id="LC246" class="line" lang="plaintext">1   569052  .       C       T       546     PASS    AC=2;AF=1.00;AN=2;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.00;SOR=0.784  GT:AD:DP:GQ:MMQ:PL      1/1:0,21:21:63:60,0:560,63,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="247" 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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<pre style="margin: 0;">+<span id="LC247" class="line" lang="plaintext">1   569094  .       A       G       976     PASS    AC=2;AF=1.00;AN=2;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.23;SOR=1.179   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,3:3:66:60,0:1|1:569094_A_G:990,66,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="248" 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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<pre style="margin: 0;">+<span id="LC248" class="line" lang="plaintext">1   569106  .       G       A       3541    PASS    AC=2;AF=1.00;AN=2;DP=80;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.52;SOR=6.518  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,79:79:99:60,0:1|1:569094_A_G:3555,238,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="249" 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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<pre style="margin: 0;">+<span id="LC249" class="line" lang="plaintext">1   569204  .       T       C       620.10  PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=-5.340e-01;ClippingRankSum=0.00;DP=19;ExcessHet=3.0103;FS=3.245;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=32.64;ReadPosRankSum=0.462;SOR=0.556 GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:1,18:19:12:60,0:1|1:569204_T_C:634,12,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="250" 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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<pre style="margin: 0;">+<span id="LC250" class="line" lang="plaintext">1   569226  .       C       A       490     PASS    AC=2;AF=1.00;AN=2;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=33.47;SOR=0.892   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,9:9:39:60,0:1|1:569204_T_C:504,39,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="251" 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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<pre style="margin: 0;">+<span id="LC251" class="line" lang="plaintext">1   569250  .       G       A       616     PASS    AC=2;AF=1.00;AN=2;DP=14;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=32.91;SOR=2.985  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,14:14:42:60,0:1|1:569204_T_C:630,42,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="252" 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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<pre style="margin: 0;">+<span id="LC252" class="line" lang="plaintext">1   569267  .       G       A       626.30  PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=1.34;ClippingRankSum=0.00;DP=15;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=31.31;ReadPosRankSum=1.28;SOR=2.584       GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:1,14:15:6:60,0:1|1:569204_T_C:638,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="253" 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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<pre style="margin: 0;">+<span id="LC253" class="line" lang="plaintext">1   569301  .       A       G       46790   PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=-5.340e-01;ClippingRankSum=0.00;DP=1046;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=31.45;ReadPosRankSum=0.352;SOR=8.480       GT:AD:DP:GQ:MMQ:PL      1/1:2,1044:1046:99:60,0:46804,3059,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="254" 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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<pre style="margin: 0;">+<span id="LC254" class="line" lang="plaintext">1   569492  .       T       C       23316   PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=3.43;ClippingRankSum=0.00;DP=573;ExcessHet=3.0103;FS=13.011;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.27;ReadPosRankSum=-4.598e+00;SOR=7.197        GT:AD:DP:GQ:MMQ:PL      1/1:8,561:569:99:60,0:23330,1449,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="255" 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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<pre style="margin: 0;">+<span id="LC255" class="line" lang="plaintext">1   569609  .       A       C       1053.60 PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.177e+00;ClippingRankSum=0.00;DP=31;ExcessHet=3.0103;FS=5.576;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.99;ReadPosRankSum=2.29;SOR=0.102        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:4,27:31:81:60,0:0|1:569609_A_C:1061,0,81</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="256" 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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<pre style="margin: 0;">+<span id="LC256" class="line" lang="plaintext">1   569624  .       T       C       1232    PASS    AC=2;AF=1.00;AN=2;DP=29;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.26;SOR=1.460  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,29:29:51:60,0:1|1:569609_A_C:1246,51,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="257" 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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<pre style="margin: 0;">+<span id="LC257" class="line" lang="plaintext">1   569717  .       T       C       197.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-5.080e-01;ClippingRankSum=0.00;DP=9;ExcessHet=3.0103;FS=3.522;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=21.96;ReadPosRankSum=-2.100e-01;SOR=0.515   GT:AD:DP:GQ:MMQ:PL      0/1:2,7:9:62:60,0:205,0,62</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="258" 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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<pre style="margin: 0;">+<span id="LC258" class="line" lang="plaintext">1   569803  .       G       A       412.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-7.140e-01;ClippingRankSum=0.00;DP=22;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=18.75;ReadPosRankSum=-1.300e-01;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      0/1:4,18:22:73:60,0:420,0,73</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="259" 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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<pre style="margin: 0;">+<span id="LC259" class="line" lang="plaintext">1   569809  .       A       G       16.60   QD;SnpCluster   AC=1;AF=0.500;AN=2;BaseQRankSum=1.72;ClippingRankSum=0.00;DP=22;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.75;ReadPosRankSum=-2.266e+00;SOR=0.693 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:20,2:22:24:60,0:0|1:569809_A_G:24,0,834</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="260" 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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<pre style="margin: 0;">+<span id="LC260" class="line" lang="plaintext">1   569810  .       A       T       16.60   QD;SnpCluster   AC=1;AF=0.500;AN=2;BaseQRankSum=1.72;ClippingRankSum=0.00;DP=22;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.75;ReadPosRankSum=-2.264e+00;SOR=0.693 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:20,2:22:24:60,0:0|1:569809_A_G:24,0,834</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="261" 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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<pre style="margin: 0;">+<span id="LC261" class="line" lang="plaintext">1   569811  .       C       T       16.60   QD;SnpCluster   AC=1;AF=0.500;AN=2;BaseQRankSum=2.71;ClippingRankSum=0.00;DP=21;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=0.79;ReadPosRankSum=-1.611e+00;SOR=1.609 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:20,1:21:24:60,0:0|1:569809_A_G:24,0,834</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="262" 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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<pre style="margin: 0;">+<span id="LC262" class="line" lang="plaintext">1   569874  .       C       T       796     PASS    AC=2;AF=1.00;AN=2;DP=18;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.76;SOR=0.914  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,18:18:54:60,0:1|1:569874_C_T:810,54,0</span>

</pre>

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<pre style="margin: 0;">+<span id="LC263" class="line" lang="plaintext">1   569878  .       C       G       796     PASS    AC=2;AF=1.00;AN=2;DP=18;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.09;SOR=0.914  GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,18:18:54:60,0:1|1:569874_C_T:810,54,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="264" 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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<pre style="margin: 0;">+<span id="LC264" class="line" lang="plaintext">1   569983  .       G       A       354.30  PASS    AC=2;AF=1.00;AN=2;BaseQRankSum=0.665;ClippingRankSum=0.00;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=20.84;ReadPosRankSum=-1.510e-01;SOR=0.818        GT:AD:DP:GQ:MMQ:PL      1/1:2,15:17:6:60,0:366,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="265" 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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<pre style="margin: 0;">+<span id="LC265" class="line" lang="plaintext">1   570076  .       T       C       469.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-3.455e+00;ClippingRankSum=0.00;DP=14;ExcessHet=3.0103;FS=3.256;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.54;ReadPosRankSum=2.32;SOR=0.105        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,12:14:48:60,0:0|1:570076_T_C:477,0,48</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="266" 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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<pre style="margin: 0;">+<span id="LC266" class="line" lang="plaintext">1   570079  .       C       T       469.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.810e+00;ClippingRankSum=0.00;DP=13;ExcessHet=3.0103;FS=3.123;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=26.08;ReadPosRankSum=2.29;SOR=0.141        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,11:13:48:60,0:0|1:570076_T_C:477,0,48</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="267" 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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<pre style="margin: 0;">+<span id="LC267" class="line" lang="plaintext">1   570089  .       C       T       406.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-3.151e+00;ClippingRankSum=0.00;DP=12;ExcessHet=3.0103;FS=3.282;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.88;ReadPosRankSum=2.28;SOR=0.105        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,10:12:54:60,0:0|1:570076_T_C:414,0,54</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="268" 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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<pre style="margin: 0;">+<span id="LC268" class="line" lang="plaintext">1   570094  .       G       A       406.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.287e+00;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=3.310;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=33.85;ReadPosRankSum=2.29;SOR=0.105        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,8:10:54:60,0:0|1:570076_T_C:414,0,54</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="269" 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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<pre style="margin: 0;">+<span id="LC269" class="line" lang="plaintext">1   570097  .       A       G       322.60  SnpCluster      AC=1;AF=0.500;AN=2;BaseQRankSum=-2.287e+00;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=3.310;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=32.26;ReadPosRankSum=2.29;SOR=0.105        GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:2,8:10:60:60,0:0|1:570076_T_C:330,0,60</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="270" 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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<pre style="margin: 0;">+<span id="LC270" class="line" lang="plaintext">1   570178  .       G       A       708.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.387e+00;ClippingRankSum=0.00;DP=37;ExcessHet=3.0103;FS=3.928;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=19.15;ReadPosRankSum=-3.310e-01;SOR=0.588  GT:AD:DP:GQ:MMQ:PL      0/1:6,31:37:78:60,0:716,0,78</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="271" 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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<pre style="margin: 0;">+<span id="LC271" class="line" lang="plaintext">1   645624  .       A       AT      45.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-9.670e-01;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=15.21;ReadPosRankSum=0.00;SOR=0.223 GT:AD:DP:GQ:MMQ:PL      0/1:1,2:3:22:60,0:53,0,22</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="272" 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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<pre style="margin: 0;">+<span id="LC272" class="line" lang="plaintext">1   652753  .       A       AAT     69.30   PASS    AC=2;AF=1.00;AN=2;DP=2;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=34.66;SOR=0.693  GT:AD:DP:GQ:MMQ:PL      1/1:0,2:2:6:60,0:81,6,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="273" 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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<pre style="margin: 0;">+<span id="LC273" class="line" lang="plaintext">1   662029  .       G       A       2101    PASS    AC=2;AF=1.00;AN=2;DP=47;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.08;SOR=7.743  GT:AD:DP:GQ:MMQ:PL      1/1:0,47:47:99:60,0:2115,141,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="274" 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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<pre style="margin: 0;">+<span id="LC274" class="line" lang="plaintext">1   662313  .       T       C       25.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.190e-01;ClippingRankSum=0.00;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=6.40;ReadPosRankSum=-6.740e-01;SOR=1.022    GT:AD:DP:GQ:MMQ:PL      0/1:3,1:4:33:60,0:33,0,123</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="275" 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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<pre style="margin: 0;">+<span id="LC275" class="line" lang="plaintext">1   662353  .       T       C       115.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.190e-01;ClippingRankSum=0.00;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=28.90;ReadPosRankSum=0.00;SOR=0.446 GT:AD:DP:GQ:MMQ:PL      0/1:1,3:4:33:60,0:123,0,33</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="276" 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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<pre style="margin: 0;">+<span id="LC276" class="line" lang="plaintext">1   662584  .       T       C       92.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.217e+00;ClippingRankSum=0.00;DP=13;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.12;ReadPosRankSum=-7.180e-01;SOR=0.836   GT:AD:DP:GQ:MMQ:PL      0/1:9,4:13:99:60,0:100,0,470</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="277" 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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<pre style="margin: 0;">+<span id="LC277" class="line" lang="plaintext">1   662647  .       T       C       260.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-2.590e-01;ClippingRankSum=0.00;DP=12;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=21.72;ReadPosRankSum=-8.750e-01;SOR=0.634  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:3,9:12:99:60,0:0|1:662641_T_C:268,0,103</span>

</pre>

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<pre style="margin: 0;">+<span id="LC278" class="line" lang="plaintext">1   663097  .       G       C       80.80   PASS    AC=2;AF=1.00;AN=2;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;QD=26.93;SOR=1.179  GT:AD:DP:GQ:MMQ:PL      1/1:0,3:3:9:60,0:94,9,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="279" 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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<pre style="margin: 0;">+<span id="LC279" class="line" lang="plaintext">1   679604  .       C       A       166.10  PASS    AC=2;AF=1.00;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=25.42;SOR=3.258   GT:AD:DP:GQ:MMQ:PL      1/1:0,4:4:12:60,0:180,12,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="280" 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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<pre style="margin: 0;">+<span id="LC280" class="line" lang="plaintext">1   680144  .       A       C       73.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.967;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=24.53;ReadPosRankSum=-4.310e-01;SOR=1.179        GT:AD:DP:GQ:MMQ:PL      0/1:1,2:3:49:60,0:81,0,49</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="281" 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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<pre style="margin: 0;">+<span id="LC281" class="line" lang="plaintext">1   680246  .       G       A       73.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.00;ClippingRankSum=0.00;DP=3;ExcessHet=3.0103;FS=4.771;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=24.53;ReadPosRankSum=0.967;SOR=2.225      GT:AD:DP:GQ:MMQ:PL      0/1:1,2:3:40:60,0:81,0,40</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="282" 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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<pre style="margin: 0;">+<span id="LC282" class="line" lang="plaintext">1   684766  .       A       AT      300     PASS    AC=2;AF=1.00;AN=2;DP=7;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.65;SOR=1.609   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,7:7:21:60,0:1|1:684766_A_AT:314,21,0</span>

</pre>

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</td>

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<pre style="margin: 0;">+<span id="LC283" class="line" lang="plaintext">1   684767  .       A       AACATGTTGCCCAGTCAGTTTCTCTTCCTGGATTC     301     PASS    AC=2;AF=1.00;AN=2;DP=7;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.48;SOR=1.609   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,7:7:21:60,0:1|1:684766_A_AT:315,21,0</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="284" 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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<pre style="margin: 0;">+<span id="LC284" class="line" lang="plaintext">1   700565  .       C       G       12.60   QD      AC=1;AF=0.500;AN=2;BaseQRankSum=-7.280e-01;ClippingRankSum=0.00;DP=10;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=1.26;ReadPosRankSum=-4.310e-01;SOR=0.693   GT:AD:DP:GQ:MMQ:PL      0/1:8,2:10:20:60,0:20,0,306</span>

</pre>

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<pre style="margin: 0;">+<span id="LC285" class="line" lang="plaintext">1   703993  .       T       TTCGGATC        346     PASS    AC=2;AF=1.00;AN=2;DP=8;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=30.56;SOR=4.407   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,8:8:24:60,0:1|1:703993_T_TTCGGATC:360,24,0</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="286" 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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<pre style="margin: 0;">+<span id="LC286" class="line" lang="plaintext">1   703995  .       T       TTGTAAGAGCAGAGCAGGTGATGGAGAGGGTGGGAGGTGTAGTGACAGAAGCAGGAAACTCCAGTCATTCGAGACG    346     PASS    AC=2;AF=1.00;AN=2;DP=8;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=33.63;SOR=4.407   GT:AD:DP:GQ:MMQ:PGT:PID:PL      1/1:0,8:8:24:60,0:1|1:703993_T_TTCGGATC:360,24,0</span>

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<td class="diff-line-num new new_line" data-linenumber="287" 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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<pre style="margin: 0;">+<span id="LC287" class="line" lang="plaintext">1   708461  .       G       T       526.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-3.460e-01;ClippingRankSum=0.00;DP=14;ExcessHet=3.0103;FS=3.680;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=30.55;ReadPosRankSum=-9.040e-01;SOR=0.916  GT:AD:DP:GQ:MMQ:PL      0/1:1,13:14:22:60,0:534,0,22</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="288" 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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<pre style="margin: 0;">+<span id="LC288" class="line" lang="plaintext">1   713786  .       G       GGCT    542.60  PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.505e+00;ClippingRankSum=0.00;DP=27;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=21.71;ReadPosRankSum=1.17;SOR=0.551        GT:AD:DP:GQ:MMQ:PL      0/1:12,13:25:99:60,0:550,0,462</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="289" 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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<pre style="margin: 0;">+<span id="LC289" class="line" lang="plaintext">1   713914  .       A       G       73.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.49;ClippingRankSum=0.00;DP=18;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=4.09;ReadPosRankSum=0.912;SOR=0.551      GT:AD:DP:GQ:MMQ:PL      0/1:15,3:18:81:60,0:81,0,694</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="290" 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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<pre style="margin: 0;">+<span id="LC290" class="line" lang="plaintext">1   713931  .       A       G       76.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.57;ClippingRankSum=0.00;DP=17;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=4.51;ReadPosRankSum=-1.930e-01;SOR=0.283 GT:AD:DP:GQ:MMQ:PL      0/1:14,3:17:84:60,0:84,0,696</span>

</pre>

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</td>

<td class="diff-line-num new new_line" data-linenumber="291" 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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<pre style="margin: 0;">+<span id="LC291" class="line" lang="plaintext">1   713954  .       T       C       43.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=1.41;ClippingRankSum=0.00;DP=13;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.35;ReadPosRankSum=-9.660e-01;SOR=0.260 GT:AD:DP:GQ:MMQ:PL      0/1:11,2:13:51:60,0:51,0,532</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="292" 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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<pre style="margin: 0;">+<span id="LC292" class="line" lang="plaintext">1   714427  .       G       A       346     PASS    AC=2;AF=1.00;AN=2;DP=9;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=32.62;SOR=0.892   GT:AD:DP:GQ:MMQ:PL      1/1:0,9:9:27:60,0:360,27,0</span>

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<pre style="margin: 0;">+<span id="LC293" class="line" lang="plaintext">1   714471  .       G       GGCAGAA 19.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.210;ClippingRankSum=0.00;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.27;ReadPosRankSum=-9.670e-01;SOR=1.518 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:5,1:6:27:60,0:0|1:714471_G_GGCAGAA:27,0,207</span>

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<pre style="margin: 0;">+<span id="LC294" class="line" lang="plaintext">1   714476  .       C       A       19.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.00;ClippingRankSum=0.00;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.27;ReadPosRankSum=-1.383e+00;SOR=1.518  GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:5,1:6:27:60,0:0|1:714471_G_GGCAGAA:27,0,207</span>

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<pre style="margin: 0;">+<span id="LC295" class="line" lang="plaintext">1   714477  .       G       GCATGAGCAAATTACTTTTTAGAGGTAACTT 19.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.210;ClippingRankSum=0.00;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.27;ReadPosRankSum=-1.383e+00;SOR=1.518 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:5,1:6:27:60,0:0|1:714471_G_GGCAGAA:27,0,207</span>

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<pre style="margin: 0;">+<span id="LC296" class="line" lang="plaintext">1   714480  .       C       CTGAACTTGT      19.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=0.431;ClippingRankSum=0.00;DP=6;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=3.27;ReadPosRankSum=-1.383e+00;SOR=1.518 GT:AD:DP:GQ:MMQ:PGT:PID:PL      0/1:5,1:6:27:60,0:0|1:714471_G_GGCAGAA:27,0,207</span>

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<pre style="margin: 0;">+<span id="LC297" class="line" lang="plaintext">1   715348  .       T       G       120.10  PASS    AC=2;AF=1.00;AN=2;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=30.02;SOR=1.609   GT:AD:DP:GQ:MMQ:PL      1/1:0,4:4:12:60,0:134,12,0</span>

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<pre style="margin: 0;">+<span id="LC298" class="line" lang="plaintext">1   715762  .       A       G       29.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.383e+00;ClippingRankSum=0.00;DP=4;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=7.40;ReadPosRankSum=0.00;SOR=0.105  GT:AD:DP:GQ:MMQ:PL      0/1:2,2:4:37:60,0:37,0,117</span>

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<pre style="margin: 0;">+<span id="LC299" class="line" lang="plaintext">1   716421  .       A       G       17.60   PASS    AC=1;AF=0.500;AN=2;BaseQRankSum=-1.242e+00;ClippingRankSum=0.00;DP=8;ExcessHet=3.0103;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.00;QD=2.20;ReadPosRankSum=-8.540e-01;SOR=0.693    GT:AD:DP:GQ:MMQ:PL      0/1:6,2:8:25:60,0:25,0,284</span>

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<pre style="margin: 0;">+<span id="LC300" class="line" lang="plaintext">1   718555  .       T       C       210.90  PASS    AC=2;AF=1.00;AN=2;DP=5;ExcessHet=3.0103;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=29.33;SOR=3.611   GT:AD:DP:GQ:MMQ:PL      1/1:0,5:5:15:60,0:225,15,0</span></pre>

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<br>

</li>

<li id="c6f424b9602b60ce22f3880a97f4246b34756acd">

<a href="https://salsa.debian.org/med-team/vcfanno/-/compare/5e3f0ae7dae1eca3985841ee8edd4177d82744d1...3dcc009fe4007f3590b9c97663686e1f9c016db4#c6f424b9602b60ce22f3880a97f4246b34756acd"><strong>vcfanno.go</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">@@ -25,7 +25,7 @@ import (</td>

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<pre style="margin: 0;"> <span id="LC25" class="line" lang="go">    <span class="s" style="color: #d14;">"github.com/brentp/xopen"</span></span>

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<pre style="margin: 0;"> <span id="LC26" class="line" lang="go"><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC27" class="line" lang="go"></span>

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<pre style="margin: 0;">-<span id="LC28" class="line" lang="go"><span class="k" style="font-weight: 600;">var</span> <span class="n" style="color: #333;">VERSION</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"0.3.<span class="idiff left right">1</span>"</span></span>

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<pre style="margin: 0;">+<span id="LC28" class="line" lang="go"><span class="k" style="font-weight: 600;">var</span> <span class="n" style="color: #333;">VERSION</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"0.3.<span class="idiff left right">2</span>"</span></span>

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<pre style="margin: 0;"> <span id="LC29" class="line" lang="go"></span>

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<pre style="margin: 0;"> <span id="LC30" class="line" lang="go"><span class="k" style="font-weight: 600;">func</span> <span class="n" style="color: #333;">envGet</span><span class="p">(</span><span class="n" style="color: #333;">name</span> <span class="kt" style="color: #458; font-weight: 600;">string</span><span class="p">,</span> <span class="n" style="color: #333;">vdefault</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="p">)</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="p">{</span></span>

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31

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<td class="diff-line-num new_line" data-linenumber="31" 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">

31

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<pre style="margin: 0;"> <span id="LC31" class="line" lang="go">    <span class="n" style="color: #333;">sval</span> <span class="o" style="font-weight: 600;">:=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Getenv</span><span class="p">(</span><span class="n" style="color: #333;">name</span><span class="p">)</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="128" 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="128" 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">@@ -128,25 +128,32 @@ see: https://github.com/brentp/vcfanno</td>

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128

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<td class="diff-line-num new_line" data-linenumber="128" 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">

128

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<pre style="margin: 0;"> <span id="LC128" class="line" lang="go"></span>

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<td class="diff-line-num old_line" data-linenumber="129" 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">

129

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<td class="diff-line-num new_line" data-linenumber="129" 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">

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<pre style="margin: 0;"> <span id="LC129" class="line" lang="go">   <span class="k" style="font-weight: 600;">var</span> <span class="n" style="color: #333;">err</span> <span class="kt" style="color: #458; font-weight: 600;">error</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="130" 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">

130

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<td class="diff-line-num new_line" data-linenumber="130" 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">

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<pre style="margin: 0;"> <span id="LC130" class="line" lang="go">   <span class="k" style="font-weight: 600;">var</span> <span class="n" style="color: #333;">qrdr</span> <span class="n" style="color: #333;">io</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Reader</span></span>

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<td class="diff-line-num old old_line" data-linenumber="131" 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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<td class="diff-line-num new_line old" data-linenumber="131" 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="LC131" class="line" lang="go">   <span class="c" style="color: #998; font-style: italic;">// try to paralleliz<span class="idiff left right">ing</span> reading if we have plenty of CPUs and it's (possibly)</span></span>

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<td class="diff-line-num new old_line" data-linenumber="132" 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="131" 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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<pre style="margin: 0;">+<span id="LC131" class="line" lang="go">   <span class="c" style="color: #998; font-style: italic;">// try to paralleliz<span class="idiff left right">e</span> reading if we have plenty of CPUs and it's (possibly)</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="132" 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">

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<td class="diff-line-num new_line" data-linenumber="132" 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">

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<pre style="margin: 0;"> <span id="LC132" class="line" lang="go">   <span class="c" style="color: #998; font-style: italic;">// a bgzf file.</span></span>

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<td class="diff-line-num old old_line" data-linenumber="133" 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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<td class="diff-line-num new_line old" data-linenumber="133" 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="LC133" class="line" lang="go">   <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Annotation</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">runtime</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">GOMAXPROCS</span><span class="p">(</span><span class="m" style="color: #099;">0</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">HasSuffix</span><span class="p">(</span><span class="n" style="color: #333;">queryFile</span><span class="p">,</span> <span class="s" style="color: #d14;">".gz"</span><span class="p">)</span> <span class="p">{</span></span>

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<td class="diff-line-num new old_line" data-linenumber="134" 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="133" 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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<pre style="margin: 0;">+<span id="LC133" class="line" lang="go">   <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Annotation</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">runtime</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">GOMAXPROCS</span><span class="p">(</span><span class="m" style="color: #099;">0</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strings</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">HasSuffix</span><span class="p">(</span><span class="n" style="color: #333;">queryFile</span><span class="p">,</span> <span class="s" style="color: #d14;">".gz"</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><span class="idiff left">||</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">strings</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">HasSuffix</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">queryFile</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">".bgz"</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff right"> </span><span class="p">{</span></span>

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<td class="diff-line-num old_line" data-linenumber="134" 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">

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<td class="diff-line-num new_line" data-linenumber="134" 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">

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<pre style="margin: 0;"> <span id="LC134" class="line" lang="go">           <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">rdr</span><span class="p">,</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">:=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Open</span><span class="p">(</span><span class="n" style="color: #333;">queryFile</span><span class="p">);</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">==</span> <span class="no" style="color: #008080;">nil</span> <span class="p">{</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="135" 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">

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<td class="diff-line-num new_line" data-linenumber="135" 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">

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<pre style="margin: 0;"> <span id="LC135" class="line" lang="go">                   <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">st</span><span class="p">,</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">:=</span> <span class="n" style="color: #333;">rdr</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Stat</span><span class="p">();</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">==</span> <span class="no" style="color: #008080;">nil</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">st</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Size</span><span class="p">()</span> <span class="o" style="font-weight: 600;">></span> <span class="m" style="color: #099;">2320303098</span> <span class="p">{</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="136" 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">

136

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<td class="diff-line-num new_line" data-linenumber="136" 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">

136

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<pre style="margin: 0;"> <span id="LC136" class="line" lang="go">                           <span class="n" style="color: #333;">qrdr</span><span class="p">,</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bgzf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">NewReader</span><span class="p">(</span><span class="n" style="color: #333;">rdr</span><span class="p">,</span> <span class="m" style="color: #099;">4</span><span class="p">)</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="137" 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">

137

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<td class="diff-line-num new_line" data-linenumber="137" 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">

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<pre style="margin: 0;"> <span id="LC137" class="line" lang="go">                           <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">==</span> <span class="no" style="color: #008080;">nil</span> <span class="p">{</span></span>

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<td class="diff-line-num old old_line" data-linenumber="138" 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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<td class="diff-line-num new_line old" data-linenumber="138" 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="LC138" class="line" lang="go">                                   <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Printf</span><span class="p">(</span><span class="s" style="color: #d14;">"using 4 worker threads to decompress query file"</span><span class="p">)</span></span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="139" 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="138" 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">

138

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC138" class="line" lang="go">                                   <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Printf</span><span class="p">(</span><span class="s" style="color: #d14;">"using 4 worker threads to decompress bgzip file"</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="139" 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="139" 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">

139

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC139" class="line" lang="go">                           <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="139" 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="140" 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">

140

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC140" class="line" lang="go">                                   <span class="n" style="color: #333;">qrdr</span> <span class="o" style="font-weight: 600;">=</span> <span class="no" style="color: #008080;">nil</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="139" 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">

139

</td>

<td class="diff-line-num new_line" data-linenumber="141" 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">

141

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC141" class="line" lang="go">                           <span class="p">}</span></span>

</pre>

</td>

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<td class="diff-line-num old_line" data-linenumber="140" 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">

140

</td>

<td class="diff-line-num new_line" data-linenumber="142" 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">

142

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC142" class="line" lang="go">                   <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="141" 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">

141

</td>

<td class="diff-line-num new_line" data-linenumber="143" 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">

143

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC143" class="line" lang="go">                           <span class="n" style="color: #333;">qrdr</span><span class="p">,</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bgzf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">NewReader</span><span class="p">(</span><span class="n" style="color: #333;">rdr</span><span class="p">,</span> <span class="m" style="color: #099;">2</span><span class="p">)</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="142" 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">

142

</td>

<td class="diff-line-num new_line" data-linenumber="144" 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">

144

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC144" class="line" lang="go">                           <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">==</span> <span class="no" style="color: #008080;">nil</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="diff-line-num old old_line" data-linenumber="143" 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">

143

</td>

<td class="diff-line-num new_line old" data-linenumber="145" 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 old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC143" class="line" lang="go">                                   <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Printf</span><span class="p">(</span><span class="s" style="color: #d14;">"using 2 worker threads to decompress query file"</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="144" 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="145" 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">

145

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC145" class="line" lang="go">                                   <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Printf</span><span class="p">(</span><span class="s" style="color: #d14;">"using 2 worker threads to decompress bgzip file"</span><span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="144" 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="146" 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">

146

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC146" class="line" lang="go">                           <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="144" 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="147" 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">

147

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC147" class="line" lang="go">                                   <span class="n" style="color: #333;">qrdr</span> <span class="o" style="font-weight: 600;">=</span> <span class="no" style="color: #008080;">nil</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="144" 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">

144

</td>

<td class="diff-line-num new_line" data-linenumber="148" 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">

148

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC148" class="line" lang="go">                           <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="145" 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">

145

</td>

<td class="diff-line-num new_line" data-linenumber="149" 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">

149

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC149" class="line" lang="go">                   <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="146" 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="150" 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">

150

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC150" class="line" lang="go">           <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="diff-line-num new old_line" data-linenumber="146" 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="151" 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">

151

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC151" class="line" lang="go">                   <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Fatal</span><span class="p">(</span><span class="n" style="color: #333;">err</span><span class="p">)</span></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="146" 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">

146

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<td class="diff-line-num new_line" data-linenumber="152" 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">

152

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC152" class="line" lang="go">           <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="147" 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">

147

</td>

<td class="diff-line-num new_line" data-linenumber="153" 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">

153

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC153" class="line" lang="go">   <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="148" 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">

148

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<td class="diff-line-num new_line" data-linenumber="154" 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">

154

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC154" class="line" lang="go">   <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">qrdr</span> <span class="o" style="font-weight: 600;">==</span> <span class="no" style="color: #008080;">nil</span> <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="diff-line-num old_line" data-linenumber="149" 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">

149

</td>

<td class="diff-line-num new_line" data-linenumber="155" 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">

155

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC155" class="line" lang="go">           <span class="n" style="color: #333;">qrdr</span><span class="p">,</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">xopen</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Ropen</span><span class="p">(</span><span class="n" style="color: #333;">queryFile</span><span class="p">)</span></span>

</pre>

</td>

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<td class="diff-line-num new new_line" data-linenumber="156" 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">

156

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<pre style="margin: 0;">+<span id="LC156" class="line" lang="go">           <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Printf</span><span class="p">(</span><span class="s" style="color: #d14;">"falling back to non-bgzip"</span><span class="p">)</span></span>

</pre>

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150

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<td class="diff-line-num new_line" data-linenumber="157" 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">

157

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<pre style="margin: 0;"> <span id="LC157" class="line" lang="go">   <span class="p">}</span></span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="151" 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">

151

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<td class="diff-line-num new_line" data-linenumber="158" 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">

158

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<pre style="margin: 0;"> <span id="LC158" class="line" lang="go">   <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">!=</span> <span class="no" style="color: #008080;">nil</span> <span class="p">{</span></span>

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<td class="diff-line-num old_line" data-linenumber="152" 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">

152

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<td class="diff-line-num new_line" data-linenumber="159" 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">

159

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<pre style="margin: 0;"> <span id="LC159" class="line" lang="go">           <span class="n" style="color: #333;">log</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Fatal</span><span class="p">(</span><span class="n" style="color: #333;">fmt</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Errorf</span><span class="p">(</span><span class="s" style="color: #d14;">"error opening query file %s: %s"</span><span class="p">,</span> <span class="n" style="color: #333;">queryFile</span><span class="p">,</span> <span class="n" style="color: #333;">err</span><span class="p">))</span></span>

</pre>

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