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This genome assembly Astyanax_mexicanus-1.0.2 of the Pachon cavefish isolate was originally released as GCA_000372685.1, wgs project APWO00000000.1. However, the genome assembly of a different fish (Rio Sabinas/Rio Valles surface sample; Astyanax_mexicanus-2.0) was inadvertently handled as an update and released ... as assembly GCA_000372685.2 and wgs project APWO00000000.2. Therefore, the Astyanax_mexicanus-1.0.2 genome assembly of the cavefish isolate was re-released as an independent genome assembly, GCA_004802775.1, wgs project SAAA00000000.1.
Background: The Astyanax mexicanus DNA sample was obtained from Dr. William Jeffery, University of Maryland. This heart, liver and a part of gill was obtained from a 7year old adult female which was 2nd or 3rd generation from wild caught from PachUn cave near the Sierra de el Abra in northeastern Mexico. Genomic DNA was prepared by Dr. William Jeffery's lab, University of Maryland from this single individual. Total assembled sequence coverage of Illumina reads was 
70X (fragments, 3, and 8kb) using a genome size estimate of 1Gb. The combined sequence reads were assembled using the ALLPATHS software (Broad Institute). This draft assembly was referred to as Astyanax mexicanus 1.0.2. This version has been gap filled and cleaned of contaminating contigs. The assembly is made up of a total of 10,735 scaffolds with an N50 scaffold length of over 1491kb (N50 contig length was 14.7kb). The assembly spans 1.225 Gb.
 This work was supported by NIH grant R24 RR032658-01 to WCW, The Genome Institute at Washington University School of Medicine.
 For questions regarding this Astyanax mexicanus 1.0.2 assembly please contact Dr. Wesley Warren, Washington University School of Medicine (wwarren@genome.wustl.edu). Funding for the sequence characterization of the Astyanax mexicanus genome was provided by the Office of Director, National Institutes of Health (NIH).
The sequenced individual was the offspring of two wild-caught Pachon cavefish captured in 2001 and bred in 2004. The wild caught fish were originally from Pachon cave, San Luis Potosi, Mexico. Source DNA can be obtained from William Jeffery (address below under DNA source).
 Credits:
 Astyanax mexicanus - Dr. William Jeffery, Dept. of Biology, 2272 Bio-Psych Bldg, University of Maryland, College Park, MD, USA.
 DNA source - Dr. William Jeffery, Dept. of Biology, 2272 Bio-Psych Bldg, University of Maryland, College Park, MD, USA.
 Sequencing - The Genome Institute, Washington University School of Medicine, St Louis, MO, USA. 
 Sequence assembly - The Genome Institute, Washington University School of Medicine, St Louis, MO, USA..
 Citation upon use of this assembly in a manuscript: 

 Please refer to the Genome Institute Data Use Policy (http://genome.wustl.edu/data/data_use_policy) for further information.
 Assembly Stats
 *** Contiguity: Contig *** Total contig number: 121345 Total contig bases: 964248246 bp Average contig length: 7946 bp Maximum contig length: 179788 bp N50 contig length: 14739 bp N50 contig number: 16919
 *** Contiguity: Supercontig *** Total supercontig number: 10735 Average supercontig length: 89823 bp Maximum supercontig length: 8469069 bp N50 supercontig length: 1491643 bp N50 supercontig number: 173

 *** Scaffold Distribution *** Scaffolds > 1M: 265 Scaffold 250K--1M: 465 Scaffold 100K--250K: 340 Scaffold 10--100K: 1493 Scaffold 5--10K: 1475 Scaffold 2--5K: 2821 Scaffold 0--2K: 3876  more

Global statistics