Pan troglodytes (Oct 2010) chimpanzee (CGSC 2.1.3/panTro3) genome assembly

The files listed below are formatted for visualization in the Integrated Genome Browser, available from BioViz.org.

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 annots.xml meta-data file in this directory for details.

Files with extension .gz were compressed and indexed using bgzip and tabix tools from htslib.org.

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 genome.txt lists sequences and their sizes and was made from P_troglodytes_Oct_2010.2bit sequence file using twoBitInfo.

Both twoBitInfo and twoBitToFa are available from http://hgdownload.cse.ucsc.edu/admin/exe/.

	Name	Last modified	Size	Description
	Parent Directory		-
	P_troglodytes_Oct_2010_all_est.psl.gz	2023-06-16 13:21	784K	PSL (alignments) blat output file
	P_troglodytes_Oct_2010_all_est.psl.gz.tbi	2023-06-16 13:21	85K	Tabix index file
	P_troglodytes_Oct_2010_all_mrna.psl.gz	2023-06-16 13:21	288K	PSL (alignments) blat output file
	P_troglodytes_Oct_2010_all_mrna.psl.gz.tbi	2023-06-16 13:21	36K	Tabix index file
	P_troglodytes_Oct_2010_refGene.bed.gz	2023-06-16 13:21	115K	Data from UCSC refGene table
	P_troglodytes_Oct_2010_refGene.bed.gz.tbi	2023-06-16 13:21	24K	Tabix index file
	annots.xml	2025-03-11 10:01	1.2K	Annotation and data file list
	genome.txt	2023-06-16 13:21	654K	Chromosome lengths and assembly information