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NOD_ShiLtJ_v1

Organism name:
Mus musculus (house mouse)
Infraspecific name:
Strain: NOD/ShiLtJ
Sex:
female
BioSample:
SAMN04489827
BioProject:
PRJNA310854
Submitter:
Wellcome Trust Sanger Institute
Date:
2016/04/26
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_001624675.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
LVXS01
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: 731311 [UID] 3209088 [GenBank]

See Genome Information for Mus musculus

There are 24 assemblies for this organism

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History (Show revision history)

Global statistics

Total sequence length2,982,063,250
Total ungapped length2,297,924,086
Gaps between scaffolds0
Number of scaffolds5,544
Scaffold N50147,352,698
Scaffold L509
Number of contigs539,650
Contig N509,439
Contig L5065,274
Total number of chromosomes and plasmids21
Number of component sequences (WGS or clone)66,154

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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_001624685.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004134.1n/an/a0
Chromosome 2CM004135.1n/an/a0
Chromosome 3CM004136.1n/an/a0
Chromosome 4CM004137.1n/an/a0
Chromosome 5CM004138.1n/an/a0
Chromosome 6CM004139.1n/an/a0
Chromosome 7CM004140.1n/an/a0
Chromosome 8CM004141.1n/an/a0
Chromosome 9CM004142.1n/an/a0
Chromosome 10CM004143.1n/an/a0
Chromosome 11CM004144.1n/an/a0
Chromosome 12CM004145.1n/an/a0
Chromosome 13CM004146.1n/an/a0
Chromosome 14CM004147.1n/an/a0
Chromosome 15CM004148.1n/an/a0
Chromosome 16CM004149.1n/an/a0
Chromosome 17CM004150.1n/an/a0
Chromosome 18CM004151.1n/an/a0
Chromosome 19CM004152.1n/an/a0
Chromosome XCM004153.1n/an/a1
unplacedn/an/an/a5,522

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,982,046,9495,5432,297,907,785147,352,698534,1060
Chromosome 1Assembled molecule223,333,7941173,730,293223,333,79441,6630
Chromosome 2Assembled molecule203,711,1521162,355,189203,711,15233,4450
Chromosome 3Assembled molecule184,313,1011139,933,320184,313,10136,7970
Chromosome 4Assembled molecule174,168,5221133,916,323174,168,52230,5020
Chromosome 5Assembled molecule172,383,4321133,325,999172,383,43230,8650
Chromosome 6Assembled molecule168,629,4721131,590,337168,629,47229,5730
Chromosome 7Assembled molecule162,030,5561119,922,429162,030,55625,1820
Chromosome 8Assembled molecule144,179,3241113,974,439144,179,32424,5620
Chromosome 9Assembled molecule136,762,0981112,909,030136,762,09820,5650
Chromosome 10Assembled molecule147,352,6981116,100,284147,352,69826,8880
Chromosome 11Assembled molecule134,180,2751112,676,850134,180,27519,1220
Chromosome 12Assembled molecule135,254,7941101,368,903135,254,79423,0510
Chromosome 13Assembled molecule132,016,5761104,247,703132,016,57622,4860
Chromosome 14Assembled molecule137,551,9351101,970,638137,551,93526,5900
Chromosome 15Assembled molecule117,338,775191,728,241117,338,77520,7990
Chromosome 16Assembled molecule111,170,031186,116,043111,170,03121,9340
Chromosome 17Assembled molecule106,921,913183,114,461106,921,91319,1300
Chromosome 18Assembled molecule99,767,917180,847,97099,767,91716,8730
Chromosome 19Assembled molecule65,758,034154,307,96065,758,0349,6890
Chromosome XAllAssembled moleculeUnlocalized scaffolds187,303,683186,909,895393,788211121,355,109121,083,783271,326186,909,895186,909,895393,78842,45942,350109000
unplacedAssembled molecule37,918,8675,52222,416,26410,44311,9310
MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Mitochondrion MT16,301116,30116,30100
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