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<div class=Section1>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'>Is anyone aware of any software (not commercial), that can
be used for extraction of portions of the<o:p></o:p></span></font></p>

<p class=MsoNormal><span class=SpellE><span class=GramE><font size=2
face=Arial><span style='font-size:10.0pt;font-family:Arial'>flatfiles</span></font></span></span><span
class=GramE><font size=2 face=Arial><span style='font-size:10.0pt;font-family:
Arial'> ?</span></font></span><font size=2 face=Arial><span style='font-size:
10.0pt;font-family:Arial'> (I think that&#8217;s how they call the <span
class=SpellE>GenBank</span> entries you get after a search<span class=GramE>) .</span>
For example if in a database <span class=SpellE>flatfile</span> entry, <o:p></o:p></span></font></p>

<p class=MsoNormal><span class=GramE><font size=2 face=Arial><span
style='font-size:10.0pt;font-family:Arial'>you</span></font></span><font
size=2 face=Arial><span style='font-size:10.0pt;font-family:Arial'> have a reference
to coding sequence as &#8220; CDS : 235 &#8230;.. 1500 <span class=SpellE>bp</span><span
class=GramE>&#8221; ,</span> is there a software that can find the keyword
&#8220;CDS&#8221; <o:p></o:p></span></font></p>

<p class=MsoNormal><span class=GramE><font size=2 face=Arial><span
style='font-size:10.0pt;font-family:Arial'>in</span></font></span><font size=2
face=Arial><span style='font-size:10.0pt;font-family:Arial'> the <span
class=SpellE>flatfile</span>, and then read and return the string composed of
the letters a c g t, that is between the numbers 235&#8230;..1500 <o:p></o:p></span></font></p>

<p class=MsoNormal><span class=GramE><font size=2 face=Arial><span
style='font-size:10.0pt;font-family:Arial'>in</span></font></span><font size=2
face=Arial><span style='font-size:10.0pt;font-family:Arial'> the sequence at
the end of the file ? I am particularly interested, to extract promoter regions
from whole gene entries of <o:p></o:p></span></font></p>

<p class=MsoNormal><span class=SpellE><span class=GramE><font size=2
face=Arial><span style='font-size:10.0pt;font-family:Arial'>GenBank</span></font></span></span><span
class=GramE><font size=2 face=Arial><span style='font-size:10.0pt;font-family:
Arial'>.</span></font></span><font size=2 face=Arial><span style='font-size:
10.0pt;font-family:Arial'> <o:p></o:p></span></font></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p>&nbsp;</o:p></span></font></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial'><o:p>&nbsp;</o:p></span></font></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial;mso-no-proof:yes'>Constantinos G.&nbsp;Crambis</span></font><span
style='mso-no-proof:yes'><o:p></o:p></span></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial;mso-no-proof:yes'>Agricultural </span></font><st1:place><st1:PlaceType><font
  size=2 face=Arial><span style='font-size:10.0pt;font-family:Arial;mso-no-proof:
  yes'>University</span></font></st1:PlaceType><font size=2 face=Arial><span
 style='font-size:10.0pt;font-family:Arial;mso-no-proof:yes'> of </span></font><st1:PlaceName><font
  size=2 face=Arial><span style='font-size:10.0pt;font-family:Arial;mso-no-proof:
  yes'>Athens</span></font></st1:PlaceName></st1:place><span style='mso-no-proof:
yes'><o:p></o:p></span></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial;mso-no-proof:yes'>Dept. of Agricultural Biotechnology</span></font><span
style='mso-no-proof:yes'><o:p></o:p></span></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial;mso-no-proof:yes'>Molecular Biology Lab</span></font><span
style='mso-no-proof:yes'><o:p></o:p></span></p>

<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt;mso-no-proof:yes'><a href="mailto:agbiotec@agriroot.aua.gr"><font
size=2 face=Arial><span style='font-size:10.0pt;font-family:Arial'>agbiotec@agriroot.aua.gr</span></font></a><o:p></o:p></span></font></p>

<p class=MsoNormal><font size=2 face=Arial><span style='font-size:10.0pt;
font-family:Arial;mso-no-proof:yes'><a href="mailto:agbiotec@yahoo.com">agbiotec@yahoo.com</a></span></font><span
style='mso-no-proof:yes'><o:p></o:p></span></p>

<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt;mso-no-proof:yes'>&nbsp;</span><o:p></o:p></font></p>

<p class=MsoNormal><font size=3 face="Times New Roman"><span style='font-size:
12.0pt'><o:p>&nbsp;</o:p></span></font></p>

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