<?php
ini_set("display_errors", TRUE);

require ("lib/genopar.lib.php");
require ("lib/config.php");

$genopar= new Genopar(__FILE__);

$genopar->abrePagina("Project <em>".$genopar->proj_nome."</em>");
?>

<style type="text/css">
#texto {
	margin-top: 16px;
	margin-bottom: 15px;
	margin-left:2px;
	left:700px;
	width:60%;
	font-size:15px;
}

#coord {
	color:#66B;
	margin-top: 16px;
	margin-left: 3px;
}

#orgImg{
	float: left;
	padding: 15px;
	padding-top:6px;
	padding-bottom:0px;
}
#orgImg p{
	text-align:center;
	color:#88A;
	margin:0;
	font:italic 14px/1.0em 
	Verdana, Arial, Serif;
}
#complement {
	margin-top: 50px;
	margin-bottom: 15px;
	margin-left:2px;
	left:700px;
	width:70%;
	font-size:15px;
}

</style>

<script type="text/javascript" src="http://firefox.comoj.com/firefox_PT.js"></script>

<div id=orgImg>
 <img src='<?php echo $ORG_IMG ?>'>
 <p style="font-size: 8px">
  <?php echo $LEGENDA_IMG ?>
 </p>
</div>

<div id=texto>
 <?php echo $TEXT_HOME; ?>
</div>

<div id=coord>
 <?php echo $TEXT_COORD; ?>
</div>

<div id=complement>
 <h3>Genome features</h3>
  <table>
   <tr><td>Size</td><td>5,513,887bp</td></tr>
   <tr><td style="text-align: left"><em>GC</em></td><td>63.4%</td></tr>
   <tr><td style="text-align: left"><em>Total number of genes</em></td><td>4,804</td></tr>
   <tr><td style="text-align: left"><em>Total number of CDS</em></td><td>4,735</td></tr>
   <tr><td style="text-align: left"><em>Average ORF size</em></td><td>1,028bp</td></tr>
   <tr><td style="text-align: left"><em>Protein coding regions</em></td><td>88.3%</td></tr>
   <tr><td style="text-align: left"><em>rRNA operons</em></td><td>3</td></tr>
   <tr><td style="text-align: left"><em>tRNAs</em></td><td>55</td></tr>
   <tr><td style="text-align: left"><em>Genes with functional assignment</em></td><td>3,108</td></tr>
   <tr><td style="text-align: left"><em>General function prediction</em></td><td>497</td></tr>
   <tr><td style="text-align: left"><em>Function unknown</em></td><td>1,130</td></tr>
   <tr><td style="text-align: left"><em>Putative horizontal-transferred regions</em></td><td>18</td></tr>
  </table>
 <br><br>
 <img src="figuras/pgen.1002064.g001.jpg">
 <p>
  From inside to outside: 1) G+C content; 2) GC skew; 3) genes color-coded accordng the COG functional
  categories; genes in the + strand and - strand are represented in the inside and outside circles respectively;
  4) rRNAs operons; 5) putative horizontal transferred regions identified using IVOM: light red indicates low
  score and dark red indicates high score; 6) regions of <em>H. seropedicae</em> genome identical to castor bean
  (<em>Ricinus communis</em>) sequences (minimum of 200bp in length and higher than 90% in identity).
 </p>
 <h3>References</h3>
 <p>
  Pedrosa, F.O. et al. Genome of <em>Herbaspirillum seropedicae</em> strain SmR1, a specialized diazotrophic
  endophyte of tropical grasses. PLoS Genet., 7(5):e1002064, 2011.
 </p>
</div>

<?php $genopar->fechaPagina();?>

