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MicOch1.0

Organism name:
Microtus ochrogaster (prairie vole)
Isolate:
Prairie Vole_2
Sex:
female
BioSample:
SAMN00727831
BioProject:
PRJNA72443
Submitter:
Broad Institute
Date:
2012/12/07
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000317375.1 (latest)
RefSeq assembly accession:
GCF_000317375.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AHZW01
Assembly method:
allpaths v. R41985 HAPLOIDIFY=True SPRS_WRITE_SEPS=True
Genome coverage:
94x
Sequencing technology:
Illumina Hi-Seq

IDs: 504458 [UID] 504458 [GenBank] 753838 [RefSeq]

See Genome Information for Microtus ochrogaster

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

Sequenced and assembled at the Broad Institute. Samples were provided by Drs. Larry Young, Lisa McGraw and James Thomas, Yerkes National Primate Research Center, Emory University, Atlanta, GA.

Global statistics

Total sequence length2,287,340,943
Total ungapped length2,104,321,675
Gaps between scaffolds115
Number of scaffolds6,450
Scaffold N5017,270,019
Scaffold L5042
Number of contigs187,012
Contig N5021,250
Contig L5029,205
Total number of chromosomes and plasmids29
Number of component sequences (WGS or clone)187,012

Supplemental Content

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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 (GCF_000317385.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM001672.1=NC_022009.10
Chromosome 2CM001673.1=NC_022010.10
Chromosome 4CM001674.1=NC_022011.10
Chromosome 5CM001675.1=NC_022012.10
Chromosome 6CM001676.1=NC_022013.11
Chromosome 7CM001677.1=NC_022014.10
Chromosome 8CM001678.1=NC_022015.10
Chromosome 10CM001679.1=NC_022016.10
Chromosome 14n/an/an/a3
Chromosome 15CM001680.1=NC_022017.10
Chromosome 16CM001681.1=NC_022018.10
Chromosome 17CM001682.1=NC_022019.10
Chromosome 18CM001683.1=NC_022020.10
Chromosome 19CM001684.1=NC_022021.10
Chromosome 21CM001685.1=NC_022022.10
Chromosome 22CM001686.1=NC_022023.10
Chromosome 24CM001687.1=NC_022024.10
Chromosome 26CM001688.1=NC_022025.10
Chromosome XCM001689.1=NC_022026.10
Linkage Group LG1CM001690.1=NC_022027.10
Linkage Group LG2CM001691.1=NC_022028.10
Linkage Group LG3CM001692.1=NC_022029.10
Linkage Group LG4CM001693.1=NC_022030.10
Linkage Group LG5CM001694.1=NC_022031.10
Linkage Group LG7_11CM001695.1=NC_022032.10
Linkage Group LG8CM001696.1=NC_022033.10
Linkage Group LG9CM001697.1=NC_022034.10
Linkage Group LG10CM001698.1=NC_022035.10
Linkage Group LG12CM001699.1=NC_022036.10
unplacedn/an/an/a6,303

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,287,340,9436,4502,104,321,67517,270,019180,562115
Chromosome 1Assembled molecule126,672,6277117,826,61335,096,2859,9206
Chromosome 2Assembled molecule98,408,8281291,603,07213,642,7218,33311
Chromosome 4Assembled molecule92,994,323588,358,70661,676,1365,8174
Chromosome 5Assembled molecule96,435,083589,513,79424,232,8797,1354
Chromosome 6AllAssembled moleculeUnlocalized scaffolds102,650,17888,288,23014,361,948109195,078,58781,781,79513,296,79218,148,48218,148,48214,361,9487,4906,554936880
Chromosome 7Assembled molecule85,103,860680,450,00751,612,6066,1205
Chromosome 8Assembled molecule88,571,779683,057,28624,171,7136,5865
Chromosome 10Assembled molecule86,001,432578,434,08123,536,5507,7864
Chromosome 14AllAssembled moleculeUnlocalized scaffolds68,466,533068,466,53330362,690,200062,690,20037,003,552037,003,5525,41005,410000
Chromosome 15Assembled molecule46,045,664443,148,89412,936,6063,6593
Chromosome 16Assembled molecule62,639,585658,962,45613,529,9434,8255
Chromosome 17Assembled molecule35,846,924633,692,0977,338,9282,7825
Chromosome 18Assembled molecule69,618,829465,467,81754,680,0265,4033
Chromosome 19Assembled molecule65,020,687360,616,19624,940,6074,6772
Chromosome 21Assembled molecule51,076,971648,507,84329,090,3263,1575
Chromosome 22Assembled molecule34,839,539433,419,77710,651,8382,2223
Chromosome 24Assembled molecule37,156,218335,110,74427,829,6343,1842
Chromosome 26Assembled molecule15,434,760114,461,63915,434,7601,2110
Chromosome XAssembled molecule61,813,736853,519,94911,399,5794,6267
Linkage Group LG1Assembled molecule58,015,819853,665,20613,613,4574,9237
Linkage Group LG2Assembled molecule54,861,783551,598,82520,136,2774,5264
Linkage Group LG3Assembled molecule48,041,176844,781,2609,521,9773,4467
Linkage Group LG4Assembled molecule66,536,3441061,523,01512,603,1535,1479
Linkage Group LG5Assembled molecule66,490,022362,099,59155,651,2124,8722
Linkage Group LG7_11Assembled molecule27,267,610125,760,91827,267,6102,2500
Linkage Group LG8Assembled molecule26,584,176225,082,56424,168,5852,4601
Linkage Group LG9Assembled molecule41,355,009437,942,76011,407,7333,6623
Linkage Group LG10Assembled molecule18,700,958117,858,43318,700,9581,0430
Linkage Group LG12Assembled molecule5,561,53514,907,1935,561,5353750
unplacedAssembled molecule549,128,9556,303485,182,1525,327,89847,5150