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<h1>Arabidopsis lyrata (Apr 2011) version 1.0 (Aryl1) genome assembly</h1>
<p>
The files listed below are formatted for visualization in the Integrated Genome
Browser, available from <a href="https://bioviz.org">BioViz.org</a>.
</p>
<p>
The gene model annotation file (A_lyrata_Apr_2011.bed.gz) was made from GFF and gene information files from Phytozome. 
</p>
<p>
The file named annotation.gtf.gz is from iPlant. It has been sorted, compressed with bgzip, and indexed using tabix for faster loading into IGB.
</p>
<p>
The file named A_lyrata_Apr_2011.2bit contains sequence data. It
was made from fasta file from iPlant/Ensembl. To convert it back
to fasta, use twoBitToFa. 
</p>
The file
<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from the 2bit sequence file using twoBitInfo.
</p>
<p>
You can get twoBitInfo, twoBitToFa, faToTwoBit, and related programs from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
</p>
<p>
For more information about the sequence and annotation files, see the
repository
named <a href="https://bitbucket.org/aloraine/alyrata">Alyrata hosted
at BitBucket</a>. Also
see <a href="https://www.biostars.org/p/147826/">this Biostars
post</a>.
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[ ]annotation.gtf.gz2023-06-16 14:26 5.0M 
[ ]annots.xml2023-06-16 14:26 801 Annotation and data file list
[ ]A_lyrata_Apr_2011.bed.gz2023-06-16 14:26 1.8MAnnotation or junction file
[TXT]genome.txt2023-06-16 14:26 12KChromosome lengths and assembly information
[ ]A_lyrata_Apr_2011.2bit2023-06-16 14:26 49MSequence data in blat 2bit format
[ ]A_lyrata_Apr_2011.bed.gz.tbi2023-06-16 14:26 105KTabix index file
[ ]annotation.gtf.gz.tbi2023-06-16 14:26 111KTabix index file
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