Index of /download/sequence/C_dubliniensis_CD36

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[DIR] Parent Directory - [DIR] archive/ 01-Aug-2017 09:33 - [DIR] current/ 05-Nov-2017 07:08 -
This directory contains the current version of Candida dubliniensis CD36
genomic sequences.

C. dubliniensis CD36 was sequenced by the Wellcome Trust Sanger
Institute (Jackson et al., 2009, Genome Res. 19:2231-2244). Sequence
and annotation were obtained by CGD from GeneDB on Feb 28, 2013.
Special thanks to Derek Sullivan, Gary Moran, Martin Aslett, and
Matthew Berriman for making it possible for CGD to host these data
when the Sanger's GeneDB resource for C. dubliniensis went offline.

The notation "version_sXX-mYY-rZZ" in the filenames indicates the genome version
to which data in the file corresponds. Detailed explanation about the genome
version notation can be found at: http://www.candidagenome.org/help/SequenceHelp.shtml#versions
Information pertaining to each version update for C. dubliniensis CD36 can be found at:
http://www.candidagenome.org/cgi-bin/genomeVersionHistory.pl?seq_source=C.%20dubliniensis%20CD36

Sequence files with "current" in their names are provided as stable filenames for
automated downloads. They are identical to (technically, symbolic links to) the
corresponding versioned sequence files.

These files are updated weekly:

* Chromosomal/contig sequence:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_chromosomes.fasta.gz
  
* Sequence with no introns for all ORFs:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_orf_coding.fasta.gz
   
* Sequence with introns for all ORFs:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_orf_genomic.fasta.gz

* Sequence with introns for all ORFs, plus flanking 1000 bp upstream and downstream:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_orf_genomic_1000.fasta.gz

* Sequences with introns for all ORFs, plus upstream and downstream intergenic sequence:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_orf_plus_intergenic.fasta.gz  

* Translation of all ORFs:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_orf_trans_all.fasta.gz

* Sequence of non-ORF features (tRNA, rRNA, repeat regions, etc.) with any introns removed:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_other_features_no_introns.fasta.gz

* Sequence of non-ORF features including introns:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_other_features_genomic.fasta.gz

* Sequence of non-ORF features including introns and flanking 1000 bp upstream and downstream:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_other_features_genomic_1000.fasta.gz

* Sequence of non-ORF features including introns and upstream and downstream intergenic sequence:
	        C_dubliniensis_CD36_version_sXX-mYY-rZZ_other_features_plus_intergenic.fasta.gz 

* Sequence between annotated chromosomal features:
                C_dubliniensis_CD36_version_sXX-mYY-rZZ_not_features.fasta.gz
        Note: this file contains genomic DNA sequences between (and excluding) the
        following feature types:
                Protein Coding Sequence
                tRNA
                rRNA
                repeat regions

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The files in this directory are in FASTA format.

All files are gzip compressed. There are several freely available
software options for decompressing gzipped files.  The software 
and other useful information is available on these web sites:
- WinZip (http://www.winzip.com/)
- Stuffit (http://www.stuffit.com/)
- Gzip (http://www.gzip.org/

and the gzip user's manual:
http://www.math.utah.edu/docs/info/gzip_toc.html

Additional sequence documentation is found on the CGD web site at:
http://www.candidagenome.org/help/SequenceHelp.shtml

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