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ASM14940v2

Organism name:
Thalassiosira pseudonana CCMP1335
Infraspecific name:
Strain: CCMP1335
BioSample:
SAMN02744045
Submitter:
Diatom Consortium
Date:
2009/01/16
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative-genome
GenBank Assembly ID:
GCA_000149405.2 (latest)
RefSeq Assembly ID:
GCF_000149405.2 (latest)
RefSeq Assembly and GenBank Assembly Identical:
yes
WGS Project:
AAFD02

IDs: 429138 [UID] 429148 [GenBank] 429138 [RefSeq]

See Genome Information for Thalassiosira pseudonana

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov/thalassiosira
JGI Project ID: 2662235
Contacts: E. Virginia Armbrust (armbrust@u.washington.edu)
Igor Grigoriev (ivgrigoriev@lbl.gov)
The clone of P. pseudonana that was sequenced is CCMP1335 and is available from the Center for Culture of Marine Phytoplankton (http://ccmp.bigelow.org). This clone was collected in
... 1958 from Moriches Bay (Long Island, New York) and has been maintained continuously in culture.
Annotation was done by the JGI Annotation team and the Diatom Consortium.
Chromosomes 7 and 18 are complete and present in GenBank records CP001160 and CP001159, respectively.
The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376)
Annotated scaffolds were added in January 2009.
more

Global statistics

Total sequence length32,437,365
Total assembly gap length164,736
Gaps between scaffolds0
Number of scaffolds64
Scaffold N501,992,434
Number of contigs115
Contig N501,267,198
Total number of chromosomes and plasmids23

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Assembly Unit: Primary Assembly (GCF_000149415.2)
Molecule nameGenBank IDRefSeq IDUnlocalized
sequences count
Chromosome 1CM000638.1=NC_012064.10
Chromosome 2CM000639.1=NC_012065.10
Chromosome 3CM000640.1=NC_012066.10
Chromosome 4CM000641.1=NC_012067.10
Chromosome 5CM000642.1=NC_012068.10
Chromosome 6CM000643.1=NC_012069.10
Chromosome 7CP001160.1=NC_012070.10
Chromosome 8CM000644.1=NC_012071.10
Chromosome 9CM000645.1=NC_012072.10
Chromosome 10CM000646.1=NC_012073.10
Chromosome 11n/an/an/a2
Chromosome 12CM000647.1=NC_012075.10
Chromosome 13CM000648.1=NC_012076.10
Chromosome 14CM000649.1=NC_012077.10
Chromosome 15CM000650.1=NC_012078.10
Chromosome 16n/an/an/a2
Chromosome 17CM000651.1=NC_012080.10
Chromosome 18CP001159.1=NC_012081.10
Chromosome 19n/an/an/a3
Chromosome 20CM000652.1=NC_012083.10
Chromosome 22CM000653.1=NC_012085.10
Chromosome 23CM000654.1=NC_012086.10
Chromosome 24CM000655.1=NC_012087.10
unplacedn/an/an/a37

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Chromosome 1Assembled molecule3,042,58513,031,2293,042,58510
Chromosome 2Assembled molecule2,707,19512,707,1452,707,19510
Chromosome 3Assembled molecule2,440,05212,440,0522,440,05200
Chromosome 4Assembled molecule2,402,32312,401,2862,402,32320
Chromosome 5Assembled molecule2,305,97212,305,9722,305,97200
Chromosome 6Assembled molecule2,071,48012,071,4802,071,48000
Chromosome 7Assembled molecule1,992,43411,992,4341,992,43400
Chromosome 8Assembled molecule1,267,19811,267,1981,267,19800
Chromosome 9Assembled molecule1,191,06011,191,0601,191,06000
Chromosome 10Assembled molecule1,105,66811,105,6681,105,66800
Chromosome 11AllAssembled moleculeUnlocalized scaffolds888,9850888,985202887,2860887,286806,1420806,142101000
Chromosome 12Assembled molecule1,128,38211,102,7911,128,38250
Chromosome 13Assembled molecule1,052,19611,052,1961,052,19600
Chromosome 14Assembled molecule998,6431998,643998,64300
Chromosome 15Assembled molecule931,2681919,589931,26810
Chromosome 16AllAssembled moleculeUnlocalized scaffolds629,1520629,152202629,1520629,152459,7760459,776000000
Chromosome 17Assembled molecule659,9241659,924659,92400
Chromosome 18Assembled molecule827,0531827,053827,05300
Chromosome 19AllAssembled moleculeUnlocalized scaffolds1,050,11001,050,1103031,047,55301,047,553607,2390607,239303000
Chromosome 20Assembled molecule800,2341786,595800,23410
Chromosome 22Assembled molecule1,057,56511,022,6851,057,56530
Chromosome 23Assembled molecule454,9541454,954454,95400
Chromosome 24Assembled molecule297,3491297,349297,34900
unplacedAssembled molecule1,135,583371,073,33563,870330
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