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Hi Michael, Sarah<br>
<br>
That is right, C. elegans and S. cereviciae's genomes have no
assembly gaps.<br>
<br>
I guess this answers your query, Sarah.<br>
<br>
Kind regards<br>
<br>
Javier<br>
<br>
<div class="moz-cite-prefix">On 18/04/13 14:58, Michael Paulini
wrote:<br>
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<blockquote cite="mid:516FFBF6.6060006@sanger.ac.uk" type="cite">
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<div class="moz-cite-prefix">Hi Sarah,<br>
<br>
you will be happy to know that for Caenorhabditis elegans we
(WormBase) removed the last 4 Ns in 2004 and the last real gaps
were filled over a decade ago.<br>
But I cannot speak for other "finished" genome assemblies.<br>
<br>
best regards,<br>
<br>
Michael<br>
<br>
On 18/04/13 14:17, Sarah Djebali wrote:<br>
</div>
<blockquote
cite="mid:CAMLQFOVB_+TO87q3Qm9VaAkRNyi087aNQo9S2fp6xgREtKdW8w@mail.gmail.com"
type="cite">
<pre wrap="">Dear developpers,
I am doing a transcriptome analysis of different species over the time (ie
for different ensembl versions), and I need to know where the gaps are
located for different assemblies of different species, is there an easy way
to do this automatically?
I would need in particular the gaps for:
- Caenorhabditis_elegans WBcel215
- Caenorhabditis_elegans WS220
- Saccharomyces_cerevisiae EF2
- Saccharomyces_cerevisiae EF3
- Saccharomyces_cerevisiae EF4
thanks!
Sarah
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<br>
<pre class="moz-signature" cols="72">--
Javier Herrero, PhD
Ensembl Coordinator and Ensembl Compara Project Leader
European Bioinformatics Institute (EMBL-EBI)
Wellcome Trust Genome Campus, Hinxton
Cambridge - CB10 1SD - UK</pre>
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