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OchPri4.0

Organism name:
Ochotona princeps (American pika)
Isolate:
UAM:Mamm:113957
Sex:
male
BioSample:
SAMN15664588
BioProject:
PRJNA649356
Submitter:
University of British Columbia Okanagan
Date:
2020/09/21
Assembly level:
Chromosome
Genome representation:
full
Excluded from RefSeq:
  • superseded by newer assembly for species
GenBank assembly accession:
GCA_014633375.1 (latest)
RefSeq assembly accession:
GCF_014633375.1 (suppressed) see latest RefSeq assembly for this species
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for GenBank version
WGS Project:
JACJUE01
Assembly method:
Dovetail HiRise v. 2017
Expected final version:
yes
Reference guided assembly:
GCA_000292845.1
Genome coverage:
23.68x
Sequencing technology:
Illumina HiSeq

IDs: 8126641 [UID] 22229678 [GenBank] 22416758 [RefSeq]

See Genome Information for Ochotona princeps

Pathogen Detection Resources

There are 5 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length2,231,476,247
Total ungapped length1,943,970,835
Gaps between scaffolds0
Number of scaffolds9,350
Scaffold N5075,838,078
Scaffold L5011
Number of contigs134,291
Contig N5042,119
Contig L5012,529
Total number of chromosomes and plasmids34
Number of component sequences (WGS or clone)9,350

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Assembly Information

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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
Assembly Unit: Primary Assembly (GCA_014633405.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM025721.1=NC_050536.10
Chromosome 1ACM025746.1=NC_050558.10
Chromosome 1BCM025747.1=NC_050559.10
Chromosome 2CM025722.1=NC_050537.10
Chromosome 2ACM025748.1=NC_050560.10
Chromosome 3CM025723.1=NC_050538.10
Chromosome 3ACM025749.1=NC_050561.10
Chromosome 4CM025724.1=NC_050539.10
Chromosome 4ACM025750.1=NC_050562.10
Chromosome 5CM025725.1=NC_050540.10
Chromosome 6CM025726.1=NC_050541.10
Chromosome 7CM025727.1=NC_050542.10
Chromosome 7ACM025751.1=NC_050563.10
Chromosome 8CM025728.1=NC_050543.10
Chromosome 8ACM025752.1=NC_050564.10
Chromosome 9CM025729.1=NC_050544.10
Chromosome 9ACM025753.1=NC_050565.10
Chromosome 10CM025730.1=NC_050545.10
Chromosome 11CM025731.1=NC_050546.10
Chromosome 11ACM025743.1=NC_050566.10
Chromosome 12CM025732.1=NC_050547.10
Chromosome 13CM025733.1=NC_050548.10
Chromosome 13ACM025744.1=NC_050567.10
Chromosome 14CM025734.1=NC_050549.10
Chromosome 14ACM025745.1=NC_050568.10
Chromosome 15CM025735.1=NC_050550.10
Chromosome 16CM025736.1=NC_050551.10
Chromosome 17CM025737.1=NC_050552.10
Chromosome 18CM025738.1=NC_050553.10
Chromosome 19CM025739.1=NC_050554.10
Chromosome 20CM025740.1=NC_050555.10
Chromosome 21CM025741.1=NC_050556.10
Chromosome 22CM025742.1=NC_050557.10
Chromosome Xn/an/an/a3
unplacedn/an/an/a9,314

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,231,476,2479,3501,943,970,83575,838,078124,9410
Chromosome 1Assembled molecule114,327,589198,937,574114,327,5896,5500
Chromosome 1AAssembled molecule66,364,200158,378,80766,364,2003,5810
Chromosome 1BAssembled molecule14,260,483112,732,82614,260,4837200
Chromosome 2Assembled molecule85,135,690175,315,62285,135,6904,3370
Chromosome 2AAssembled molecule75,838,078166,392,55875,838,0784,0210
Chromosome 3Assembled molecule83,011,612173,058,52483,011,6124,3040
Chromosome 3AAssembled molecule52,962,515147,914,18452,962,5152,3160
Chromosome 4Assembled molecule58,076,380151,571,59458,076,3803,0420
Chromosome 4AAssembled molecule39,143,389135,482,30539,143,3891,7670
Chromosome 5Assembled molecule51,621,823145,738,91651,621,8232,8210
Chromosome 6Assembled molecule35,738,790130,510,19135,738,7902,3410
Chromosome 7Assembled molecule118,371,1471101,204,520118,371,1477,2170
Chromosome 7AAssembled molecule32,364,212128,737,74632,364,2121,6500
Chromosome 8Assembled molecule74,871,712165,405,15274,871,7124,0610
Chromosome 8AAssembled molecule29,766,811126,176,46729,766,8111,6920
Chromosome 9Assembled molecule54,733,587149,257,04554,733,5872,4990
Chromosome 9AAssembled molecule42,283,564137,761,47942,283,5642,0410
Chromosome 10Assembled molecule44,027,612139,153,00744,027,6122,2370
Chromosome 11Assembled molecule38,759,177134,497,26838,759,1771,8530
Chromosome 11AAssembled molecule27,066,813124,446,23427,066,8131,2230
Chromosome 12Assembled molecule153,665,5491130,427,473153,665,5499,5390
Chromosome 13Assembled molecule134,597,9831115,103,412134,597,9838,0680
Chromosome 13AAssembled molecule14,987,928112,869,05214,987,9289460
Chromosome 14Assembled molecule122,983,7441103,771,403122,983,7447,8660
Chromosome 14AAssembled molecule22,973,622120,314,20522,973,6221,1770
Chromosome 15Assembled molecule91,180,513177,311,36291,180,5135,6080
Chromosome 16Assembled molecule81,456,354172,973,50181,456,3543,7690
Chromosome 17Assembled molecule93,149,495181,955,79393,149,4954,9230
Chromosome 18Assembled molecule71,983,838163,240,44671,983,8383,8990
Chromosome 19Assembled molecule54,783,706148,785,69754,783,7062,8730
Chromosome 20Assembled molecule34,660,828131,050,95434,660,8281,7630
Chromosome 21Assembled molecule25,465,481122,342,35525,465,4811,5260
Chromosome 22Assembled molecule14,010,701112,731,35314,010,7016450
Chromosome XAllAssembled moleculeUnlocalized scaffolds110,261,7920110,261,79230397,920,298097,920,29868,973,000068,973,0004,90504,905000
unplacedAssembled molecule66,589,5299,31450,501,51242,3657,1610