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<html> <body> <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>. </p> </body> </html>
| Name | Last modified | Size | Description |
|---|---|---|---|---|
| Parent Directory | - | ||
| annots.xml | 2023-06-16 14:25 | 1.0K | Annotation and data file list |
| D_rerio_Jul_2010_refGene.bed.gz | 2023-06-16 14:25 | 1.2M | Data from UCSC refGene table |
| genome.txt | 2023-06-16 14:25 | 18K | Chromosome lengths and assembly information |
| D_rerio_Jul_2010_all_est.psl.gz.tbi | 2023-06-16 14:25 | 604K | Tabix index file |
| D_rerio_Jul_2010_all_mrna.psl.gz.tbi | 2023-06-16 14:25 | 144K | Tabix index file |
| D_rerio_Jul_2010.2bit | 2023-06-16 14:25 | 355M | Sequence data in blat 2bit format |
| D_rerio_Jul_2010_all_est.psl.gz | 2023-06-16 14:25 | 69M | PSL (alignments) blat output file |
| D_rerio_Jul_2010_refGene.bed.gz.tbi | 2023-06-16 14:25 | 122K | Tabix index file |
| D_rerio_Jul_2010_all_mrna.psl.gz | 2023-06-16 14:25 | 2.4M | PSL (alignments) blat output file |