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C3H_HeJ_v1

Organism name:
Mus musculus (house mouse)
Infraspecific name:
Strain: C3H/HeJ
Sex:
female
BioSample:
SAMN04489818
BioProject:
PRJNA310854
Submitter:
Wellcome Trust Sanger Institute
Date:
2016/05/09
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_001632575.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
LVXL01
Assembly method:
SGA v. 0.9.19; SOAP denovo2 v. r240; Ragout v. 2.0b
Expected final version:
no
Reference guided assembly:
GCA_000001635.2
Genome coverage:
60.0x
Sequencing technology:
Illumina

IDs: 738461 [UID] 3227868 [GenBank]

See Genome Information for Mus musculus

Pathogen Detection Resources

There are 24 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length2,701,131,316
Total ungapped length2,319,090,104
Gaps between scaffolds0
Number of scaffolds4,069
Scaffold N50133,067,396
Scaffold L509
Number of contigs333,188
Contig N5014,540
Contig L5046,364
Total number of chromosomes and plasmids21
Number of component sequences (WGS or clone)37,497

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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
Assembly Unit: Primary Assembly (GCA_001632585.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004235.1n/an/a0
Chromosome 2CM004236.1n/an/a0
Chromosome 3CM004237.1n/an/a0
Chromosome 4CM004238.1n/an/a0
Chromosome 5CM004239.1n/an/a0
Chromosome 6CM004240.1n/an/a0
Chromosome 7CM004241.1n/an/a0
Chromosome 8CM004242.1n/an/a0
Chromosome 9CM004243.1n/an/a0
Chromosome 10CM004244.1n/an/a0
Chromosome 11CM004245.1n/an/a0
Chromosome 12CM004246.1n/an/a0
Chromosome 13CM004247.1n/an/a0
Chromosome 14CM004248.1n/an/a0
Chromosome 15CM004249.1n/an/a0
Chromosome 16CM004250.1n/an/a0
Chromosome 17CM004251.1n/an/a0
Chromosome 18CM004252.1n/an/a0
Chromosome 19CM004253.1n/an/a0
Chromosome XCM004254.1n/an/a1
unplacedn/an/an/a4,047

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,701,115,0154,0682,319,073,803133,067,396329,1200
Chromosome 1Assembled molecule200,880,6501176,017,305200,880,65024,5420
Chromosome 2Assembled molecule186,646,3541164,194,338186,646,35420,4860
Chromosome 3Assembled molecule162,714,7371142,023,513162,714,73719,8690
Chromosome 4Assembled molecule158,643,8611135,274,466158,643,86119,3890
Chromosome 5Assembled molecule156,653,5471134,806,364156,653,54720,1670
Chromosome 6Assembled molecule153,125,2111132,866,064153,125,21118,0300
Chromosome 7Assembled molecule150,256,1431120,897,019150,256,14318,3400
Chromosome 8Assembled molecule131,879,2731115,262,132131,879,27315,6230
Chromosome 9Assembled molecule126,529,3911113,288,728126,529,39113,8250
Chromosome 10Assembled molecule133,067,3961117,248,437133,067,39615,9850
Chromosome 11Assembled molecule124,828,3621112,882,721124,828,36213,3070
Chromosome 12Assembled molecule122,406,6571102,203,485122,406,65714,0790
Chromosome 13Assembled molecule121,221,3671104,718,255121,221,36714,6060
Chromosome 14Assembled molecule121,724,6921104,318,326121,724,69214,3230
Chromosome 15Assembled molecule104,892,358192,974,322104,892,35812,3670
Chromosome 16Assembled molecule98,287,430187,580,04998,287,43011,6190
Chromosome 17Assembled molecule97,964,386183,923,33197,964,38612,2130
Chromosome 18Assembled molecule90,729,280181,235,00390,729,2809,9440
Chromosome 19Assembled molecule61,067,434154,359,22061,067,4346,9720
Chromosome XAllAssembled moleculeUnlocalized scaffolds168,934,798168,548,779386,019211125,952,848125,643,737309,111168,548,779168,548,779386,01924,09324,03459000
unplacedAssembled molecule28,661,6884,04717,047,87711,4349,3410
MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Mitochondrion MT16,301116,30116,30100
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