<html xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
<meta name="Generator" content="Microsoft Word 15 (filtered medium)">
<style><!--
/* Font Definitions */
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
@font-face
{font-family:Menlo;
panose-1:2 11 6 9 3 8 4 2 2 4;}
@font-face
{font-family:Monaco;
panose-1:0 0 0 0 0 0 0 0 0 0;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0in;
margin-bottom:.0001pt;
font-size:12.0pt;
font-family:"Calibri",sans-serif;}
a:link, span.MsoHyperlink
{mso-style-priority:99;
color:#0563C1;
text-decoration:underline;}
a:visited, span.MsoHyperlinkFollowed
{mso-style-priority:99;
color:#954F72;
text-decoration:underline;}
pre
{mso-style-priority:99;
mso-style-link:"HTML Preformatted Char";
margin:0in;
margin-bottom:.0001pt;
font-size:10.0pt;
font-family:"Courier New";}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri",sans-serif;
color:windowtext;}
span.HTMLPreformattedChar
{mso-style-name:"HTML Preformatted Char";
mso-style-priority:99;
mso-style-link:"HTML Preformatted";
font-family:"Courier New";}
span.s1
{mso-style-name:s1;}
p.p1, li.p1, div.p1
{mso-style-name:p1;
margin:0in;
margin-bottom:.0001pt;
background:black;
font-size:8.5pt;
font-family:Menlo;
color:white;}
.MsoChpDefault
{mso-style-type:export-only;
font-family:"Calibri",sans-serif;}
@page WordSection1
{size:8.5in 11.0in;
margin:1.0in 1.0in 1.0in 1.0in;}
div.WordSection1
{page:WordSection1;}
--></style>
</head>
<body lang="EN-US" link="#0563C1" vlink="#954F72">
<div class="WordSection1">
<p class="MsoNormal"><span style="font-size:11.0pt">Looking at the following file:
<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"><o:p> </o:p></span></p>
<div style="mso-element:para-border-div;border:solid #C7CDD1 1.0pt;padding:7.0pt 7.0pt 7.0pt 7.0pt;background:whitesmoke">
<p class="MsoNormal" style="margin-bottom:9.0pt;background:whitesmoke;word-break:break-all;border:none;padding:0in">
<span style="font-size:10.0pt;font-family:Monaco;color:#2D3B45">ftp.ensembl.org/pub/release-97/fasta/homo_sapiens/dna/Homo_sapiens.GRCh38.dna.chromosome.X.fa.gz<o:p></o:p></span></p>
</div>
<p class="MsoNormal">Lists the number of nucleotides as:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<div style="mso-element:para-border-div;border:solid #C7CDD1 1.0pt;padding:7.0pt 7.0pt 7.0pt 7.0pt;background:whitesmoke">
<pre style="margin-bottom:9.0pt;background:whitesmoke;word-break:break-all;border:none;padding:0in"><span class="s1"><span style="font-family:Monaco;color:#2D3B45">>X dna:chromosome chromosome:GRCh38:X:1:<b>156040895</b>:1 REF</span></span><span style="font-family:Monaco;color:#2D3B45"><o:p></o:p></span></pre>
</div>
<p class="MsoNormal">Stating that there are <span class="s1"><span style="color:#2D3B45">156,040,895 nucleotides in this sequence<b>.
<o:p></o:p></b></span></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">However, the number of nucleotides doesn’t match the number of characters:<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<div style="mso-element:para-border-div;border:solid #C7CDD1 1.0pt;padding:7.0pt 7.0pt 7.0pt 7.0pt;background:whitesmoke">
<pre style="margin-bottom:9.0pt;background:whitesmoke;word-break:break-all;border:none;padding:0in"><span style="font-family:Monaco;color:#2D3B45">grep -v “>” GRCh38X.fa | grep [A,T,C,G,N] | wc -c <o:p></o:p></span></pre>
<pre style="margin-bottom:9.0pt;background:whitesmoke;word-break:break-all;border:none;padding:0in"><span style="font-family:Monaco;color:#2D3B45">158,641,577<o:p></o:p></span></pre>
</div>
<p class="MsoNormal">Stating that there are <span class="s1"><span style="color:#2D3B45">158,641,577 nucleotides in this sequence</span></span><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">It appears that the headers might be recycled from previous releases?<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">If I am correct in my conclusion, I just wanted to make sure that people at Ensembl were aware of this for future / past releases…<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Andrew<o:p></o:p></p>
</div>
</body>
</html>