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CBA_J_v1

Organism name:
Mus musculus (house mouse)
Infraspecific name:
Strain: CBA/J
Sex:
female
BioSample:
SAMN04489823
BioProject:
PRJNA310854
Submitter:
Wellcome Trust Sanger Institute
Date:
2016/04/26
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_001624475.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
LVXO01
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: 731281 [UID] 3209058 [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 length2,921,727,955
Total ungapped length2,319,172,656
Gaps between scaffolds0
Number of scaffolds5,466
Scaffold N50144,777,665
Scaffold L509
Number of contigs370,463
Contig N5013,074
Contig L5050,552
Total number of chromosomes and plasmids21
Number of component sequences (WGS or clone)42,242

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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_001624485.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004014.1n/an/a0
Chromosome 2CM004015.1n/an/a0
Chromosome 3CM004016.1n/an/a0
Chromosome 4CM004017.1n/an/a0
Chromosome 5CM004018.1n/an/a0
Chromosome 6CM004019.1n/an/a0
Chromosome 7CM004020.1n/an/a0
Chromosome 8CM004021.1n/an/a0
Chromosome 9CM004022.1n/an/a0
Chromosome 10CM004023.1n/an/a0
Chromosome 11CM004024.1n/an/a0
Chromosome 12CM004025.1n/an/a0
Chromosome 13CM004026.1n/an/a0
Chromosome 14CM004027.1n/an/a0
Chromosome 15CM004028.1n/an/a0
Chromosome 16CM004029.1n/an/a0
Chromosome 17CM004030.1n/an/a0
Chromosome 18CM004031.1n/an/a0
Chromosome 19CM004032.1n/an/a0
Chromosome XCM004033.1n/an/a1
unplacedn/an/an/a5,444

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule2,921,711,6555,4652,319,156,356144,777,665364,9970
Chromosome 1Assembled molecule216,633,5111175,645,826216,633,51127,2320
Chromosome 2Assembled molecule201,129,5881163,973,691201,129,58822,9620
Chromosome 3Assembled molecule175,453,8331141,240,311175,453,83322,1670
Chromosome 4Assembled molecule171,407,3301134,689,872171,407,33021,5260
Chromosome 5Assembled molecule170,310,4541134,449,463170,310,45421,6860
Chromosome 6Assembled molecule164,981,1461132,836,432164,981,14619,5790
Chromosome 7Assembled molecule161,487,5921121,342,963161,487,59219,2080
Chromosome 8Assembled molecule142,424,0821115,175,035142,424,08217,2070
Chromosome 9Assembled molecule135,960,0041113,163,045135,960,00414,6840
Chromosome 10Assembled molecule144,777,6651117,393,822144,777,66517,8380
Chromosome 11Assembled molecule135,364,6291113,026,070135,364,62915,5730
Chromosome 12Assembled molecule131,957,0001102,129,792131,957,00015,6040
Chromosome 13Assembled molecule131,261,2131104,890,954131,261,21316,6600
Chromosome 14Assembled molecule132,271,3761104,304,738132,271,37616,3220
Chromosome 15Assembled molecule113,655,413192,777,588113,655,41314,0080
Chromosome 16Assembled molecule107,195,905187,525,463107,195,90513,1060
Chromosome 17Assembled molecule106,111,991183,976,306106,111,99113,9800
Chromosome 18Assembled molecule97,740,765181,142,98297,740,76510,8890
Chromosome 19Assembled molecule66,559,327154,468,77066,559,3277,3720
Chromosome XAllAssembled moleculeUnlocalized scaffolds178,530,964178,099,070431,894211125,713,230125,378,935334,295178,099,070178,099,070431,89426,97126,90170000
unplacedAssembled molecule36,497,8675,44419,290,0039,39310,4230
MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
Mitochondrion MT16,300116,30016,30000
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