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<h1>Danio rerio (Jul 2010) zebrafish (Zv9/danRer7) 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>
Annotation (bed) and alignment (psl) files (if available) were downloaded from the UCSC Genome
Bioinformatics Table Browser. Each file is named for its corresponding table in the
UCSC Genome database. See the <a href="annots.xml">annots.xml</a> meta-data file in
this directory for details.
</p>
<p>
Files with extension .gz were compressed and indexed using bgzip and
tabix tools from <a href="https://www.htslib.org">htslib.org</a>.
</p>
<p>
The file named D_rerio_Jul_2010.2bit contains sequence data and is from the UCSC Genome
Bioinformatics Web site. To convert a .2bit to fasta, use twoBitToFa. The file
<a href="genome.txt">genome.txt</a> lists sequences and their sizes and was made from 
D_rerio_Jul_2010.2bit sequence file using twoBitInfo.
</p>
<p>
Both twoBitInfo and twoBitToFa are
available from <a href="http://hgdownload.cse.ucsc.edu/admin/exe/">http://hgdownload.cse.ucsc.edu/admin/exe/</a>.
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[ICO]NameLast modifiedSizeDescription
[PARENTDIR]Parent Directory  -  
[ ]annots.xml2023-06-16 14:25 1.0KAnnotation and data file list
[TXT]genome.txt2023-06-16 14:25 18KChromosome lengths and assembly information
[ ]D_rerio_Jul_2010_refGene.bed.gz2023-06-16 14:25 1.2MData from UCSC refGene table
[ ]D_rerio_Jul_2010_all_est.psl.gz2023-06-16 14:25 69MPSL (alignments) blat output file
[ ]D_rerio_Jul_2010_all_mrna.psl.gz2023-06-16 14:25 2.4MPSL (alignments) blat output file
[ ]D_rerio_Jul_2010.2bit2023-06-16 14:25 355MSequence data in blat 2bit format
[ ]D_rerio_Jul_2010_all_est.psl.gz.tbi2023-06-16 14:25 604KTabix index file
[ ]D_rerio_Jul_2010_all_mrna.psl.gz.tbi2023-06-16 14:25 144KTabix index file
[ ]D_rerio_Jul_2010_refGene.bed.gz.tbi2023-06-16 14:25 122KTabix index file
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