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<html> <body> <h1>Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3) 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 P_troglodytes_Oct_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 P_troglodytes_Oct_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 | 11-Nov-2018 18:40 | 1.0K | Annotation and data file list |
| P_troglodytes_Oct_2010_refGene.bed.gz.tbi | 11-Nov-2018 18:40 | 24K | Tabix index file |
| P_troglodytes_Oct_2010_all_mrna.psl.gz.tbi | 11-Nov-2018 18:40 | 36K | Tabix index file |
| P_troglodytes_Oct_2010_all_est.psl.gz.tbi | 11-Nov-2018 18:40 | 85K | Tabix index file |
| P_troglodytes_Oct_2010_refGene.bed.gz | 11-Nov-2018 18:40 | 115K | Data from UCSC refGene table |
| P_troglodytes_Oct_2010_all_mrna.psl.gz | 11-Nov-2018 18:40 | 288K | PSL (alignments) blat output file |
| genome.txt | 11-Nov-2018 18:40 | 654K | Chromosome lengths and assembly information |
| P_troglodytes_Oct_2010_all_est.psl.gz | 11-Nov-2018 18:40 | 784K | PSL (alignments) blat output file |
| P_troglodytes_Oct_2010.2bit | 11-Nov-2018 18:40 | 822M | Sequence data in blat 2bit format |