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v1.0

  • Anomalous assembly.
Organism name:
Amphimedon queenslandica (sponges)
BioSample:
SAMN02743868
BioProject:
PRJNA39517
Submitter:
US DOE Joint Genome Institute (JGI-PGF)
Date:
2010/05/28
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
GenBank assembly accession:
GCA_000090795.1 (replaced)
RefSeq assembly accession:
GCF_000090795.1 (replaced)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
ACUQ01
Assembly method:
PHRAPATTACK v. Feb 2007
Genome coverage:
8x
Sequencing technology:
Sanger

IDs: 293608 [UID] 111438 [GenBank] 293608 [RefSeq]

See Genome Information for Amphimedon queenslandica

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov/sequencing/why/3161.html
JGI Project ID: 4000635
Source DNA and organism available from Bernard Degnan (bdegnan@zen.uq.edu.au)
Contacts: Bernard Degnan (bdegnan@zen.uq.edu.au)
 Mansi Srivastava (msrivast@gmail.com)
 Daniel S. Rokhsar (dsrokhsar@yahoo.com)
The genomic DNA was isolated from embryos derived from a single parent sponge collected from Heron ... Island Reef, southern Great Barrier Reef, Australia (23.45 S, 151.92 E).
This is a draft assembly based on approximately 8-fold shotgun sequence of a sponge population with more than two haplotypes. As with any draft assembly it contains gaps and may contain assembly errors, and users should exercise caution.  more

Global statistics

Total sequence length166,699,561
Total ungapped length144,866,729
Gaps between scaffolds0
Number of scaffolds13,398
Scaffold N50120,365
Scaffold L50309
Number of contigs27,972
Contig N5011,817
Contig L502,515
Total number of chromosomes and plasmids1
Number of component sequences (WGS or clone)27,972

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced166,679,60113,397144,846,769120,36514,5740
MoleculeTotal
Length
Mitochondrion MT19,960