2025 lines
56 KiB
Text
2025 lines
56 KiB
Text
|
|
<!DOCTYPE html>
|
|
<html>
|
|
<head>
|
|
<title>Chicken Genome Assembly GRCg6a - Genome Reference Consortium</title>
|
|
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
|
|
<meta name="ncbi_app" content="grc" />
|
|
<meta name="ncbi_db" content="none" />
|
|
<meta name="ncbi_pdid" content="screen_default" />
|
|
<meta name="ncbi_pagename" content="assemblyDataPage" />
|
|
<meta name="ncbi_pagetitle" content="Chicken Genome Assembly GRCg6a" />
|
|
|
|
<link rel="stylesheet" type="text/css" href="/grc/static/grc/css/grc.css" />
|
|
<style>
|
|
#menu ul#primary a#dataMenuItem {
|
|
border: 1px solid #666;
|
|
border-bottom: none;
|
|
background: #333;
|
|
padding-bottom: 6px;
|
|
margin-top: 0;
|
|
color: #ff9933;
|
|
text-decoration: none;
|
|
}
|
|
|
|
|
|
#menu ul#secondary li a#data-assemblyDataMenuItem {
|
|
color: #EFEFEF;
|
|
}
|
|
</style>
|
|
|
|
<link rel="stylesheet" type="text/css" href="/core/jig/1.14.8/css/jig.min.css" />
|
|
|
|
<script type="text/javascript" src="/core/jig/1.14.8/js/jig.min.js"></script>
|
|
|
|
<script type="text/javascript" src="/grc/static/grc/js/grc.js"></script>
|
|
|
|
|
|
</head>
|
|
<body>
|
|
<noscript>
|
|
<p>
|
|
<b>Warning:</b> this web site requires JavaScript to function. <a href="/guide/browsers#js_settings">more...</a>
|
|
</p>
|
|
</noscript>
|
|
<div id="header-container">
|
|
<a href="/grc">
|
|
<div id="header">
|
|
<img alt="GRC logo" src="/grc/static/grc/img/GRC_logo_reasonably_small.png" /><img src="/grc/static/grc/img/TitleBanner.png" alt="Genome Reference Consortium" /></a>
|
|
</div>
|
|
</div>
|
|
<div id="page">
|
|
<a id="skipnav" href="#main">Skip navigation and go to main content</a>
|
|
<div id="menu">
|
|
<ul id="primary">
|
|
<li><a href="/grc" title="GRC home" id="homeMenuItem">GRC Home</a></li>
|
|
<li><a href="/grc/data" title="Data" id="dataMenuItem">Data</a>
|
|
|
|
<ul id="secondary">
|
|
<li><a href="/grc/chicken" id="organismOverviewMenuItem">Chicken Overview</a></li>
|
|
<li><a href="/grc/chicken/issues" id="issueListMenuItem">Chicken Genome Issues</a></li>
|
|
<li><a href="/grc/chicken/data" id="assemblyDataMenuItem">Chicken Assembly Data</a></li>
|
|
<!-- <li><a href="/chicken/report-an-issue">Report a Problem</a></li> -->
|
|
</ul>
|
|
|
|
|
|
</li>
|
|
<li><a href="/grc/help" title="Information and help" id="helpMenuItem">Help</a></li>
|
|
<li><a href="/grc/report-an-issue" title="Report a problem" id="reportAnIssueMenuItem">Report an Issue</a></li>
|
|
<li><a href="/grc/contact-us" title="contact us" id="contactUsMenuItem">Contact Us</a></li>
|
|
<li><a href="/grc/credits" title="credits" id="creditsMenuItem">Credits</a></li>
|
|
|
|
<li><a href="/projects/genome/assembly/grc/curation/other" title="Curators only, authentication required" id="curatorsOnlyMenuItem">Curators Only</a></li>
|
|
|
|
</ul>
|
|
</div><!--end menu-->
|
|
<div id="main"><a name="main"></a>
|
|
<div id="assemblyDataPage">
|
|
<div id="contents" style="overflow:hidden;">
|
|
|
|
|
|
<h1>Chicken Genome Assembly GRCg6a</h1>
|
|
<p>
|
|
Information on tiling path files (TPFs) for the
|
|
assembly is available at
|
|
<a href="/grc/tpf">TPF Overview</a>.
|
|
</p>
|
|
|
|
|
|
Other assembly versions:
|
|
<select id="assembly_select" name="assembly_select">
|
|
<option>Select one</option>
|
|
|
|
|
|
|
|
|
|
<option value="Gallus_gallus-5.0">Gallus_gallus-5.0</option>
|
|
|
|
|
|
</select>
|
|
|
|
|
|
<div class="cleaner"></div>
|
|
|
|
<div id="tabs" class="ui-tabs ui-widget ui-widget-content ui-corner-all">
|
|
<ul class="ui-tabs-nav ui-helper-reset ui-helper-clearfix ui-widget-header ui-corner-all">
|
|
<li class="ui-state-default ui-corner-top ui-tabs-selected ui-state-active ui-tabs-active"><a class="ui-tabs-anchor" href="#chromosome_lengths">Chromosome lengths</a></li>
|
|
<li class="ui-state-default ui-corner-top"><a class="ui-tabs-anchor" href="#total_lengths">Total lengths</a></li>
|
|
<li class="ui-state-default ui-corner-top"><a class="ui-tabs-anchor" href="#ungapped_lengths">Ungapped lengths</a></li>
|
|
<li class="ui-state-default ui-corner-top"><a class="ui-tabs-anchor" href="#n50s">N50s</a></li>
|
|
<li class="ui-state-default ui-corner-top"><a class="ui-tabs-anchor" href="#gaps">Gaps</a></li>
|
|
<li class="ui-state-default ui-corner-top"><a class="ui-tabs-anchor" href="#counts">Counts</a></li>
|
|
</ul>
|
|
|
|
<div id="chromosome_lengths" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
Chromosome lengths are calculated by summing the length of the placed scaffolds and estimated gaps.
|
|
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table
|
|
class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
isSortable: true, columnTypes: [null, 'numComma', 'str', null, 'numComma', 'numComma', 'str'], sortFunctions: [sortChromosomeIDs, null, null, null, null, null, null]">
|
|
<thead>
|
|
<tr>
|
|
<th>Chromosome</th>
|
|
<th>Total length (bp)</th>
|
|
<th>GenBank accession</th>
|
|
<th>RefSeq accession</th>
|
|
</tr>
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>197,608,386</td>
|
|
<td><a href="/nucleotide/CM000093.5">CM000093.5</a></td>
|
|
<td><a href="/nucleotide/NC_006088.5">NC_006088.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>149,682,049</td>
|
|
<td><a href="/nucleotide/CM000094.5">CM000094.5</a></td>
|
|
<td><a href="/nucleotide/NC_006089.5">NC_006089.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>110,838,418</td>
|
|
<td><a href="/nucleotide/CM000095.5">CM000095.5</a></td>
|
|
<td><a href="/nucleotide/NC_006090.5">NC_006090.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>91,315,245</td>
|
|
<td><a href="/nucleotide/CM000096.5">CM000096.5</a></td>
|
|
<td><a href="/nucleotide/NC_006091.5">NC_006091.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>59,809,098</td>
|
|
<td><a href="/nucleotide/CM000097.5">CM000097.5</a></td>
|
|
<td><a href="/nucleotide/NC_006092.5">NC_006092.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>36,374,701</td>
|
|
<td><a href="/nucleotide/CM000098.5">CM000098.5</a></td>
|
|
<td><a href="/nucleotide/NC_006093.5">NC_006093.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>36,742,308</td>
|
|
<td><a href="/nucleotide/CM000099.5">CM000099.5</a></td>
|
|
<td><a href="/nucleotide/NC_006094.5">NC_006094.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>30,219,446</td>
|
|
<td><a href="/nucleotide/CM000100.5">CM000100.5</a></td>
|
|
<td><a href="/nucleotide/NC_006095.5">NC_006095.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>24,153,086</td>
|
|
<td><a href="/nucleotide/CM000101.5">CM000101.5</a></td>
|
|
<td><a href="/nucleotide/NC_006096.5">NC_006096.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>21,119,840</td>
|
|
<td><a href="/nucleotide/CM000102.5">CM000102.5</a></td>
|
|
<td><a href="/nucleotide/NC_006097.5">NC_006097.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>20,200,042</td>
|
|
<td><a href="/nucleotide/CM000103.5">CM000103.5</a></td>
|
|
<td><a href="/nucleotide/NC_006098.5">NC_006098.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>20,387,278</td>
|
|
<td><a href="/nucleotide/CM000104.5">CM000104.5</a></td>
|
|
<td><a href="/nucleotide/NC_006099.5">NC_006099.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>19,166,714</td>
|
|
<td><a href="/nucleotide/CM000105.5">CM000105.5</a></td>
|
|
<td><a href="/nucleotide/NC_006100.5">NC_006100.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>16,219,308</td>
|
|
<td><a href="/nucleotide/CM000106.5">CM000106.5</a></td>
|
|
<td><a href="/nucleotide/NC_006101.5">NC_006101.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>13,062,184</td>
|
|
<td><a href="/nucleotide/CM000107.5">CM000107.5</a></td>
|
|
<td><a href="/nucleotide/NC_006102.5">NC_006102.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>2,844,601</td>
|
|
<td><a href="/nucleotide/CM000108.5">CM000108.5</a></td>
|
|
<td><a href="/nucleotide/NC_006103.5">NC_006103.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>10,762,512</td>
|
|
<td><a href="/nucleotide/CM000109.5">CM000109.5</a></td>
|
|
<td><a href="/nucleotide/NC_006104.5">NC_006104.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>11,373,140</td>
|
|
<td><a href="/nucleotide/CM000110.5">CM000110.5</a></td>
|
|
<td><a href="/nucleotide/NC_006105.5">NC_006105.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>10,323,212</td>
|
|
<td><a href="/nucleotide/CM000111.5">CM000111.5</a></td>
|
|
<td><a href="/nucleotide/NC_006106.5">NC_006106.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>13,897,287</td>
|
|
<td><a href="/nucleotide/CM000112.5">CM000112.5</a></td>
|
|
<td><a href="/nucleotide/NC_006107.5">NC_006107.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>6,844,979</td>
|
|
<td><a href="/nucleotide/CM000113.5">CM000113.5</a></td>
|
|
<td><a href="/nucleotide/NC_006108.5">NC_006108.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>5,459,462</td>
|
|
<td><a href="/nucleotide/CM000114.5">CM000114.5</a></td>
|
|
<td><a href="/nucleotide/NC_006109.5">NC_006109.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>6,149,580</td>
|
|
<td><a href="/nucleotide/CM000115.5">CM000115.5</a></td>
|
|
<td><a href="/nucleotide/NC_006110.5">NC_006110.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>6,491,222</td>
|
|
<td><a href="/nucleotide/CM000116.5">CM000116.5</a></td>
|
|
<td><a href="/nucleotide/NC_006111.5">NC_006111.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>3,980,610</td>
|
|
<td><a href="/nucleotide/CM000124.5">CM000124.5</a></td>
|
|
<td><a href="/nucleotide/NC_006112.4">NC_006112.4</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>6,055,710</td>
|
|
<td><a href="/nucleotide/CM000117.5">CM000117.5</a></td>
|
|
<td><a href="/nucleotide/NC_006113.5">NC_006113.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>8,080,432</td>
|
|
<td><a href="/nucleotide/CM000118.5">CM000118.5</a></td>
|
|
<td><a href="/nucleotide/NC_006114.5">NC_006114.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>5,116,882</td>
|
|
<td><a href="/nucleotide/CM000119.5">CM000119.5</a></td>
|
|
<td><a href="/nucleotide/NC_006115.5">NC_006115.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>1,818,525</td>
|
|
<td><a href="/nucleotide/CM003637.2">CM003637.2</a></td>
|
|
<td><a href="/nucleotide/NC_028739.2">NC_028739.2</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>6,153,034</td>
|
|
<td><a href="/nucleotide/CM003638.2">CM003638.2</a></td>
|
|
<td><a href="/nucleotide/NC_028740.2">NC_028740.2</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>725,831</td>
|
|
<td><a href="/nucleotide/CM000120.4">CM000120.4</a></td>
|
|
<td><a href="/nucleotide/NC_006119.4">NC_006119.4</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>7,821,666</td>
|
|
<td><a href="/nucleotide/CM000123.5">CM000123.5</a></td>
|
|
<td><a href="/nucleotide/NC_008465.4">NC_008465.4</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>6,813,114</td>
|
|
<td><a href="/nucleotide/CM000121.5">CM000121.5</a></td>
|
|
<td><a href="/nucleotide/NC_006126.5">NC_006126.5</a></td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>82,529,921</td>
|
|
<td><a href="/nucleotide/CM000122.5">CM000122.5</a></td>
|
|
<td><a href="/nucleotide/NC_006127.5">NC_006127.5</a></td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
|
|
</div>
|
|
|
|
<div id="total_lengths" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
|
|
Total lengths are calculated by summing the length of the sequenced bases and estimated gaps.
|
|
|
|
|
|
<div id="total_lengths_inner_tabs" data-jig="ncbitabs">
|
|
|
|
|
|
<div id="total_lengths_primary" >
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
isSortable: true, columnTypes: [null, 'numComma', 'str', null, 'numComma', 'numComma', 'str'], sortFunctions: [sortChromosomeIDs, null, null, null, null, null, null]">
|
|
<thead>
|
|
|
|
<th>Chromosome</th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>197,677,740</td>
|
|
<td>197,608,386</td>
|
|
<td>69,354</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>149,682,049</td>
|
|
<td>149,682,049</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>110,854,228</td>
|
|
<td>110,838,418</td>
|
|
<td>15,810</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>91,315,245</td>
|
|
<td>91,315,245</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>59,809,098</td>
|
|
<td>59,809,098</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>36,428,957</td>
|
|
<td>36,374,701</td>
|
|
<td>54,256</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>36,742,308</td>
|
|
<td>36,742,308</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>30,219,446</td>
|
|
<td>30,219,446</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>24,181,049</td>
|
|
<td>24,153,086</td>
|
|
<td>27,963</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>21,119,840</td>
|
|
<td>21,119,840</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>20,200,042</td>
|
|
<td>20,200,042</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>20,387,278</td>
|
|
<td>20,387,278</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>19,168,871</td>
|
|
<td>19,166,714</td>
|
|
<td>2,157</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>16,220,073</td>
|
|
<td>16,219,308</td>
|
|
<td>765</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>13,064,218</td>
|
|
<td>13,062,184</td>
|
|
<td>2,034</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>2,994,104</td>
|
|
<td>2,844,601</td>
|
|
<td>149,503</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>10,762,512</td>
|
|
<td>10,762,512</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>11,373,140</td>
|
|
<td>11,373,140</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>10,324,343</td>
|
|
<td>10,323,212</td>
|
|
<td>1,131</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>13,897,287</td>
|
|
<td>13,897,287</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>6,844,979</td>
|
|
<td>6,844,979</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>5,460,380</td>
|
|
<td>5,459,462</td>
|
|
<td>918</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>6,202,910</td>
|
|
<td>6,149,580</td>
|
|
<td>53,330</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>6,491,222</td>
|
|
<td>6,491,222</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>3,982,494</td>
|
|
<td>3,980,610</td>
|
|
<td>1,884</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>6,055,710</td>
|
|
<td>6,055,710</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>8,080,432</td>
|
|
<td>8,080,432</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>5,118,401</td>
|
|
<td>5,116,882</td>
|
|
<td>1,519</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>1,818,525</td>
|
|
<td>1,818,525</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>6,185,160</td>
|
|
<td>6,153,034</td>
|
|
<td>32,126</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>725,831</td>
|
|
<td>725,831</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>7,821,848</td>
|
|
<td>7,821,666</td>
|
|
<td>182</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>7,488,053</td>
|
|
<td>6,813,114</td>
|
|
<td>674,939</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>82,545,508</td>
|
|
<td>82,529,921</td>
|
|
<td>15,587</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Un</td>
|
|
<td>14,105,369</td>
|
|
<td>na</td>
|
|
<td>14,105,369</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Genome</td>
|
|
<td>1,065,348,650</td>
|
|
<td>1,050,139,823</td>
|
|
<td>15,208,827</td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
<div id="n50s" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
|
|
N50 is a measure of contiguity. 50% of the bases reside in a scaffold of this length or greater.
|
|
|
|
|
|
<div id="n50s_inner_tabs" data-jig="ncbitabs">
|
|
|
|
|
|
<div id="n50s_primary" >
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
isSortable: true, columnTypes: [null, 'numComma', 'str', null, 'numComma', 'numComma', 'str'], sortFunctions: [sortChromosomeIDs, null, null, null, null, null, null]">
|
|
<thead>
|
|
|
|
<th>Chromosome</th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>26,445,461</td>
|
|
<td>26,445,461</td>
|
|
<td>21,511</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>77,922,350</td>
|
|
<td>77,922,350</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>88,985,370</td>
|
|
<td>88,985,370</td>
|
|
<td>6,272</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>72,053,441</td>
|
|
<td>72,053,441</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>42,721,696</td>
|
|
<td>42,721,696</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>20,451,862</td>
|
|
<td>20,451,862</td>
|
|
<td>10,928</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>28,910,775</td>
|
|
<td>28,910,775</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>20,392,703</td>
|
|
<td>20,392,703</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>23,063,781</td>
|
|
<td>23,063,781</td>
|
|
<td>27,963</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>20,619,840</td>
|
|
<td>20,619,840</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>16,969,298</td>
|
|
<td>16,969,298</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>20,387,278</td>
|
|
<td>20,387,278</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>18,666,714</td>
|
|
<td>18,666,714</td>
|
|
<td>2,157</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>15,478,998</td>
|
|
<td>15,478,998</td>
|
|
<td>765</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>13,062,184</td>
|
|
<td>13,062,184</td>
|
|
<td>2,034</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>1,519,699</td>
|
|
<td>1,519,699</td>
|
|
<td>149,503</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>10,262,512</td>
|
|
<td>10,262,512</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>11,373,140</td>
|
|
<td>11,373,140</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>10,323,212</td>
|
|
<td>10,323,212</td>
|
|
<td>1,131</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>13,897,287</td>
|
|
<td>13,897,287</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>6,844,979</td>
|
|
<td>6,844,979</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>3,070,996</td>
|
|
<td>3,070,996</td>
|
|
<td>918</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>6,149,580</td>
|
|
<td>6,149,580</td>
|
|
<td>16,157</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>6,491,222</td>
|
|
<td>6,491,222</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>576,389</td>
|
|
<td>576,389</td>
|
|
<td>1,884</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>5,555,710</td>
|
|
<td>5,555,710</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>8,008,924</td>
|
|
<td>8,008,924</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>5,116,882</td>
|
|
<td>5,116,882</td>
|
|
<td>1,519</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>379,495</td>
|
|
<td>379,495</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>6,153,034</td>
|
|
<td>6,153,034</td>
|
|
<td>11,305</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>408,423</td>
|
|
<td>408,423</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>1,769,446</td>
|
|
<td>1,769,446</td>
|
|
<td>182</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>6,813,114</td>
|
|
<td>6,813,114</td>
|
|
<td>16,320</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>11,090,205</td>
|
|
<td>11,090,205</td>
|
|
<td>15,587</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Un</td>
|
|
<td>1,222,195</td>
|
|
<td>na</td>
|
|
<td>1,222,195</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Genome</td>
|
|
<td>20,785,086</td>
|
|
<td>20,785,086</td>
|
|
<td>900,507</td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
<div id="ungapped_lengths" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
|
|
Ungapped lengths are calculated by summing the length of sequenced bases only. 'Ns' are excluded.
|
|
|
|
|
|
<div id="ungapped_lengths_inner_tabs" data-jig="ncbitabs">
|
|
|
|
|
|
<div id="ungapped_lengths_primary" >
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
isSortable: true, columnTypes: [null, 'numComma', 'str', null, 'numComma', 'numComma', 'str'], sortFunctions: [sortChromosomeIDs, null, null, null, null, null, null]">
|
|
<thead>
|
|
|
|
<th>Chromosome</th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>197,166,990</td>
|
|
<td>197,097,636</td>
|
|
<td>69,354</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>149,178,239</td>
|
|
<td>149,178,239</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>110,352,808</td>
|
|
<td>110,336,998</td>
|
|
<td>15,810</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>90,814,345</td>
|
|
<td>90,814,345</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>59,308,188</td>
|
|
<td>59,308,188</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>35,925,747</td>
|
|
<td>35,871,491</td>
|
|
<td>54,256</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>36,241,908</td>
|
|
<td>36,241,908</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>29,717,146</td>
|
|
<td>29,717,146</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>23,680,539</td>
|
|
<td>23,652,576</td>
|
|
<td>27,963</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>20,618,240</td>
|
|
<td>20,618,240</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>19,699,342</td>
|
|
<td>19,699,342</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>20,385,978</td>
|
|
<td>20,385,978</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>18,666,071</td>
|
|
<td>18,663,914</td>
|
|
<td>2,157</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>15,718,573</td>
|
|
<td>15,717,808</td>
|
|
<td>765</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>13,062,518</td>
|
|
<td>13,060,484</td>
|
|
<td>2,034</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>2,491,684</td>
|
|
<td>2,342,281</td>
|
|
<td>149,403</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>10,262,412</td>
|
|
<td>10,262,412</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>11,371,440</td>
|
|
<td>11,371,440</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>10,323,243</td>
|
|
<td>10,322,112</td>
|
|
<td>1,131</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>13,897,287</td>
|
|
<td>13,897,287</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>6,844,979</td>
|
|
<td>6,844,979</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>4,959,470</td>
|
|
<td>4,958,552</td>
|
|
<td>918</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>6,201,810</td>
|
|
<td>6,148,480</td>
|
|
<td>53,330</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>6,490,922</td>
|
|
<td>6,490,922</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>3,478,634</td>
|
|
<td>3,476,750</td>
|
|
<td>1,884</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>5,555,310</td>
|
|
<td>5,555,310</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>8,076,222</td>
|
|
<td>8,076,222</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>5,118,201</td>
|
|
<td>5,116,682</td>
|
|
<td>1,519</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>1,815,385</td>
|
|
<td>1,815,385</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>6,178,160</td>
|
|
<td>6,146,034</td>
|
|
<td>32,126</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>725,311</td>
|
|
<td>725,311</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>7,815,208</td>
|
|
<td>7,815,026</td>
|
|
<td>182</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>7,246,520</td>
|
|
<td>6,571,581</td>
|
|
<td>674,939</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>82,087,991</td>
|
|
<td>82,072,404</td>
|
|
<td>15,587</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Un</td>
|
|
<td>14,087,369</td>
|
|
<td>na</td>
|
|
<td>14,087,369</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Genome</td>
|
|
<td>1,055,564,190</td>
|
|
<td>1,040,373,463</td>
|
|
<td>15,190,727</td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
<div id="gaps" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
Spanned gaps are found within scaffolds and there is some evidence suggesting linkage
|
|
between the two sequences flanking the gap. Unspanned gaps are found between scaffolds and
|
|
there is no evidence of linkage.
|
|
|
|
<div id="gaps_inner_tabs" data-jig="ncbitabs">
|
|
|
|
|
|
<div id="gaps_primary" >
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
">
|
|
|
|
<thead>
|
|
<tr>
|
|
<th></th>
|
|
<th colspan="3">Spanned gaps</th>
|
|
<th colspan="3">Unspanned gaps</th>
|
|
</tr>
|
|
<tr>
|
|
<th>Chromosome </th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
</tr>
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>106</td>
|
|
<td>106</td>
|
|
<td>0</td>
|
|
<td>16</td>
|
|
<td>16</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>38</td>
|
|
<td>38</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>14</td>
|
|
<td>14</td>
|
|
<td>0</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>9</td>
|
|
<td>9</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>9</td>
|
|
<td>9</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>32</td>
|
|
<td>32</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>23</td>
|
|
<td>23</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>5</td>
|
|
<td>5</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>16</td>
|
|
<td>16</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>7</td>
|
|
<td>7</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>13</td>
|
|
<td>13</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>28</td>
|
|
<td>28</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>15</td>
|
|
<td>15</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>17</td>
|
|
<td>17</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>24</td>
|
|
<td>23</td>
|
|
<td>1</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>17</td>
|
|
<td>17</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>11</td>
|
|
<td>11</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>9</td>
|
|
<td>9</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>11</td>
|
|
<td>11</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>38</td>
|
|
<td>38</td>
|
|
<td>0</td>
|
|
<td>7</td>
|
|
<td>7</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>42</td>
|
|
<td>42</td>
|
|
<td>0</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>31</td>
|
|
<td>31</td>
|
|
<td>0</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>70</td>
|
|
<td>70</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>5</td>
|
|
<td>5</td>
|
|
<td>0</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>66</td>
|
|
<td>66</td>
|
|
<td>0</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>24</td>
|
|
<td>24</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
<td>0</td>
|
|
<td>9</td>
|
|
<td>9</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Un</td>
|
|
<td>180</td>
|
|
<td>na</td>
|
|
<td>180</td>
|
|
<td>0</td>
|
|
<td>na</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Genome</td>
|
|
<td>878</td>
|
|
<td>697</td>
|
|
<td>181</td>
|
|
<td>68</td>
|
|
<td>68</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
<div id="counts" class="ui-tabs-panel ui-widget-content ui-corner-bottom">
|
|
|
|
|
|
Scaffold counts.
|
|
|
|
|
|
<div id="counts_inner_tabs" data-jig="ncbitabs">
|
|
|
|
|
|
<div id="counts_primary" >
|
|
<div class="ui-ncbigrid-outer-div caption-exists" role="grid" tabindex="0">
|
|
<div class="ui-ncbigrid-inner-div" tabindex="0">
|
|
<table class="ui-ncbigrid"
|
|
data-jig="ncbigrid"
|
|
data-jigconfig="
|
|
isPageToolbarHideable: false,
|
|
isSortable: true, columnTypes: [null, 'numComma', 'str', null, 'numComma', 'numComma', 'str'], sortFunctions: [sortChromosomeIDs, null, null, null, null, null, null]">
|
|
<thead>
|
|
|
|
<th>Chromosome</th>
|
|
<th>All scaffolds</th>
|
|
<th>Placed scaffolds</th>
|
|
<th>Unplaced scaffolds</th>
|
|
|
|
</thead>
|
|
<tbody>
|
|
|
|
<tr>
|
|
<td>1</td>
|
|
<td>24</td>
|
|
<td>17</td>
|
|
<td>7</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>2</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>3</td>
|
|
<td>8</td>
|
|
<td>4</td>
|
|
<td>4</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>4</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>5</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>6</td>
|
|
<td>8</td>
|
|
<td>2</td>
|
|
<td>6</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>7</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>8</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>9</td>
|
|
<td>3</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>10</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>11</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>12</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>13</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>14</td>
|
|
<td>3</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>15</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>16</td>
|
|
<td>4</td>
|
|
<td>3</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>17</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>18</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>19</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>20</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>21</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>22</td>
|
|
<td>4</td>
|
|
<td>3</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>23</td>
|
|
<td>7</td>
|
|
<td>1</td>
|
|
<td>6</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>24</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>25</td>
|
|
<td>9</td>
|
|
<td>8</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>26</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>27</td>
|
|
<td>2</td>
|
|
<td>2</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>28</td>
|
|
<td>2</td>
|
|
<td>1</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>30</td>
|
|
<td>5</td>
|
|
<td>5</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>31</td>
|
|
<td>4</td>
|
|
<td>1</td>
|
|
<td>3</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>32</td>
|
|
<td>3</td>
|
|
<td>3</td>
|
|
<td>0</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>33</td>
|
|
<td>6</td>
|
|
<td>5</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>W</td>
|
|
<td>53</td>
|
|
<td>1</td>
|
|
<td>52</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Z</td>
|
|
<td>11</td>
|
|
<td>10</td>
|
|
<td>1</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Un</td>
|
|
<td>340</td>
|
|
<td>na</td>
|
|
<td>340</td>
|
|
</tr>
|
|
|
|
<tr>
|
|
<td>Genome</td>
|
|
<td>524</td>
|
|
<td>95</td>
|
|
<td>429</td>
|
|
</tr>
|
|
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
</div>
|
|
|
|
<div id="global_stats">
|
|
<table>
|
|
<thead>
|
|
<tr><th colspan="2">General</th></tr>
|
|
</thead>
|
|
<tbody>
|
|
<tr><td>Assembly name</td><td>GRCg6a</td></tr>
|
|
<tr><td>Release date</td><td>2018-03-27</td></tr>
|
|
<tr><td>Assembly type</td><td>haploid</td></tr>
|
|
<tr><td>Release type</td><td>major</td></tr>
|
|
<tr><td>Assembly units</td><td>1</td></tr>
|
|
<tr><td>Total bases</td><td>1,065,348,650</td></tr>
|
|
<tr><td>Total non-N bases</td><td>1,055,564,190</td></tr>
|
|
<tr><td>Primary assembly N50</td><td>20,785,086</td></tr>
|
|
</tbody>
|
|
</table>
|
|
<table>
|
|
<thead>
|
|
<tr><th colspan="2">Regions</th></tr>
|
|
</thead>
|
|
<tbody>
|
|
<tr><td>Total regions</td><td>0</td></tr>
|
|
<tr><td>Regions with alternate loci</td><td>0</td></tr>
|
|
<tr><td>Regions with FIX patches</td><td>0</td></tr>
|
|
<tr><td>Regions with NOVEL patches</td><td>0</td></tr>
|
|
<tr><td>Regions as PAR</td><td>0</td></tr>
|
|
</tbody>
|
|
<table>
|
|
<thead>
|
|
<tr><th colspan="2">Alternate loci and patches</th></tr>
|
|
</thead>
|
|
<tbody>
|
|
<tr><td>Alternate loci</td><td>0</td></tr>
|
|
<tr><td>Alternate loci aligned to primary assembly</td><td>0</td></tr>
|
|
<tr><td>FIX patches</td><td>0</td></tr>
|
|
<tr><td>FIX patches aligned to primary assembly</td><td>0</td></tr>
|
|
<tr><td>NOVEL patches</td><td>0</td></tr>
|
|
<tr><td>NOVEL patches aligned to primary assembly</td><td>0</td></tr>
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
<script type="text/javascript">
|
|
|
|
jQuery(function(){
|
|
jQuery("#tabs").tabs();
|
|
});
|
|
|
|
</script>
|
|
|
|
|
|
</div>
|
|
</div>
|
|
<div class="cleaner"></div>
|
|
<div id="footer">
|
|
<ul>
|
|
<li><a title="Get GRC data via FTP" href="https://ftp.ncbi.nlm.nih.gov/pub/grc/">FTP</a></li>
|
|
<li><a target="_blank" href="https://www.genome.gov">NHGRI</a></li>
|
|
<li><a target="_blank" href="http://www.wellcome.ac.uk">Wellcome Sanger Institute</a></li>
|
|
<li><a target="_blank" href="https://www.hhs.gov">HHS</a></li>
|
|
<li><a target="_blank" href="https://www.nih.gov">NIH</a></li>
|
|
<li><a target="_blank" href="https://www.nih.gov/web-policies-notices">Accessibility</a></li>
|
|
<li class="last"><a target="_blank" href="https://www.hhs.gov/vulnerability-disclosure-policy/index.html">HHS Vulnerability Disclosure</a></li>
|
|
</ul>
|
|
</div>
|
|
</div>
|
|
</div><!-- end page -->
|
|
|
|
|
|
<script type="text/javascript" src="/grc/static/grc/js/stats.js"></script>
|
|
|
|
|
|
<script type="text/javascript" src="/portal/portal3rc.fcgi/rlib/js/InstrumentNCBIBaseJS/InstrumentPageStarterJS.js"></script>
|
|
</body>
|
|
</html>
|