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Stegastes partitus (Bicolor damselfish) Sequence Assembly Release Notes
 Background:
 DNA used for sequencing the Bicolor damselfish, Stegastes partitus, provided courtesy of Dr. Michael C. Schmale, was derived from a single male animal (25-593) collected on 8/16/2005 at Emerald Reef, ... Florida (25deg40.49' N, 80deg05.89' W). The sequencing plan followed the recommendations provided in the AllPAths-LG assembler manual. This model requires 45x sequence coverage each of overlapping Illumina reads (frags) and 3kb Illumina paired end reads as well as 5x coverage of 8kb PE Illumina reads. 
 Total assembled sequence coverage of Illumina instrument reads was 121x (including 81.8x frags, 35.1x 3kbs, and 3.8x 8kbs) using a genome size estimate of 750Mb. The first draft assembly was performed with AllPaths-LG (Gnerre et al 2010) and was referred to as S. partitus 1.0. In the S. partitus 1.0 assembly small scaffold gaps were closed with Illumina read mapping and local assembly. Contaminating contigs, trimmed vector in the form of X's and ambiguous bases as N's in the sequence were removed. NCBI requires that all contigs 200bp and smaller be removed. Removing these contigs was the last step in preparation for submitting the final 1.0.2 assembly. The S. partitus 1.0.2 assembly is made up of a total of 5818 scaffolds with an N50 scaffold length over 388Kb (N50 contig length was 43Kb). The total scaffold assembly spans over 790Mb. 
 For questions regarding this Bicolor damselfish assembly please contact Dr. Wesley Warren, Washington University School of Medicine (wwarren@genome.wustl.edu). Downloads of the sequence data are available via the NCBI SRA database. 
 This work was supported by NIH grant R24 RR032658-01 to Dr. Warren, Washington University School of Medicine.
 DNA samples can be obtained from:
 Dr. Michael Schmale RSMAS/MBF University of Miami 4600 Rickenbacker Causeway Miami, FL 33149

 Credits:
 DNA source - Michael C. Schmale, PhD, Rosenstiel School of Marine and Atmospheric Science, University of Miami, Miami, FL. 33149
 Sequencing - The Genome Institute, Washington University School of Medicine, St Louis, MO. 
 Sequence assembly - The Genome Institute, Washington University School of Medicine, St Louis, MO.
 Citation upon use of this assembly in a manuscript: 
 It is requested that users of this Stegastes partitus sequence assembly acknowledge Dr. Wesley Warren and The Genome Institute, Washington University School of Medicine in any publications that result from use of this sequence assembly.
 Assembly stats:
 *** Contiguity: Contig *** Total contig number: 42060 Total contig bases: 749737413 bp Average contig length: 17825 bp Maximum contig length: 482565 bp N50 contig length: 43010 bp N50 contig number: 4606
 *** Contiguity: Supercontig *** Total supercontig number: 5818 Average supercontig length: 128865 bp Maximum supercontig length: 3181456 bp N50 supercontig length: 388271 bp N50 supercontig number: 555
 *** Scaffold Distribution *** Scaffolds > 1M: 68 Scaffold 250K--1M: 989 Scaffold 100K--250K: 974 Scaffold 10--100K: 941 Scaffold 5--10K: 239 Scaffold 2--5K: 709 Scaffold 0--2K: 1898  more

Global statistics