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FicAlb1.5

Organism name:
Ficedula albicollis (Collared flycatcher)
Isolate:
OC2
Sex:
male
BioSample:
SAMN02981387
BioProject:
PRJNA75089
Submitter:
Uppsala University
Date:
2013/06/27
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000247815.2 (latest)
RefSeq assembly accession:
GCF_000247815.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AGTO02
Assembly method:
SOAPdenovo v. 1.05
Expected final version:
no
Genome coverage:
60.0x
Sequencing technology:
Illumina GAII; Illumina HiSeq

IDs: 37801 [UID] 716688 [GenBank] 726138 [RefSeq]

See Genome Information for Ficedula albicollis

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

The mitochondrion of this genome assembly is in GenBank accession number KF293721

Global statistics

Total sequence length1,118,343,587
Total ungapped length1,102,325,870
Gaps between scaffolds408
Number of scaffolds21,836
Scaffold N506,542,656
Scaffold L5048
Number of contigs30,843
Contig N50410,964
Contig L50771
Total number of chromosomes and plasmids34
Number of component sequences (WGS or clone)30,843

Supplemental Content

PubMed articles for this assembly

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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 (GCF_000247825.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM001988.1=NC_021671.11
Chromosome 1ACM001989.1=NC_021672.12
Chromosome 2CM001990.1=NC_021673.11
Chromosome 3CM001991.1=NC_021674.10
Chromosome 4CM001992.1=NC_021675.11
Chromosome 4ACM001993.1=NC_021676.11
Chromosome 5CM001994.1=NC_021677.10
Chromosome 6CM001995.1=NC_021678.10
Chromosome 7CM001996.1=NC_021679.10
Chromosome 8CM001997.1=NC_021680.10
Chromosome 9CM001998.1=NC_021681.10
Chromosome 10CM001999.1=NC_021682.10
Chromosome 11CM002000.1=NC_021683.10
Chromosome 12CM002001.1=NC_021684.10
Chromosome 13CM002002.1=NC_021685.10
Chromosome 14CM002003.1=NC_021686.10
Chromosome 15CM002004.1=NC_021687.10
Chromosome 17CM002005.1=NC_021688.10
Chromosome 18CM002006.1=NC_021689.11
Chromosome 19CM002007.1=NC_021690.10
Chromosome 20CM002008.1=NC_021691.10
Chromosome 21CM002009.1=NC_021692.11
Chromosome 22CM002010.1=NC_021693.12
Chromosome 23CM002011.1=NC_021694.10
Chromosome 24CM002012.1=NC_021695.10
Chromosome 25CM002013.1=NC_021696.11
Chromosome 26CM002014.1=NC_021697.11
Chromosome 27CM002015.1=NC_021698.17
Chromosome 28CM002016.1=NC_021699.13
Chromosome ZCM002017.1=NC_021700.17
Linkage Group LG34CM002018.1=NC_021701.16
Linkage Group LG35CM002019.1=NC_021702.15
Linkage Group LGE22CM002020.1=NC_021703.14
unplacedn/an/an/a21,350

Assembly statistics

MoleculeSequence RoleTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
AllAssembled molecule1,118,326,80021,8351,102,309,0836,542,6569,007408
Chromosome 1AllAssembled moleculeUnlocalized scaffolds120,694,097120,002,344691,75344431119,854,231119,174,782679,4497,367,0347,367,034691,753645637842420
Chromosome 1AAllAssembled moleculeUnlocalized scaffolds75,299,07274,947,036352,0364038274,363,33474,029,425333,9098,401,0548,401,054277,483539533637370
Chromosome 2AllAssembled moleculeUnlocalized scaffolds157,764,492157,563,209201,28336351156,956,308156,757,132199,17614,156,67614,156,676201,283776775134340
Chromosome 3Assembled molecule115,844,35328115,257,83710,660,48456027
Chromosome 4AllAssembled moleculeUnlocalized scaffolds72,186,64670,439,5231,747,1232726171,695,39469,976,4941,718,9008,914,1058,914,1051,747,1233553371825250
Chromosome 4AAllAssembled moleculeUnlocalized scaffolds21,335,09821,182,716152,38265121,177,83221,025,568152,2646,579,4576,579,457152,3821291272440
Chromosome 5Assembled molecule64,724,5942264,158,3275,790,91135621
Chromosome 6Assembled molecule37,227,4521137,026,0136,753,98613810
Chromosome 7Assembled molecule39,412,0071439,154,45712,126,96218713
Chromosome 8Assembled molecule32,100,8161231,953,9254,508,44514711
Chromosome 9Assembled molecule26,793,321726,605,04517,670,8601526
Chromosome 10Assembled molecule21,346,7081121,184,9428,151,02410710
Chromosome 11Assembled molecule21,727,166521,642,8855,132,197954
Chromosome 12Assembled molecule21,938,1061121,769,3385,263,85312510
Chromosome 13Assembled molecule18,641,552618,474,9123,088,1831055
Chromosome 14Assembled molecule17,374,186217,290,2699,185,718651
Chromosome 15Assembled molecule14,943,019114,846,22314,943,019680
Chromosome 17Assembled molecule12,378,331412,272,1207,710,169753
Chromosome 18AllAssembled moleculeUnlocalized scaffolds13,230,78613,163,16267,6241413113,043,68212,978,97764,7054,230,1544,230,15467,62410196512120
Chromosome 19Assembled molecule11,933,672611,873,6596,032,475655
Chromosome 20Assembled molecule15,675,940815,577,4844,830,145837
Chromosome 21AllAssembled moleculeUnlocalized scaffolds8,314,1918,073,070241,1216518,187,2187,964,540222,6785,405,3595,405,359241,12185805440
Chromosome 22AllAssembled moleculeUnlocalized scaffolds5,755,9965,733,62122,37510825,525,6985,503,32322,3751,596,3021,596,30217,0731331330770
Chromosome 23Assembled molecule7,944,68357,849,6687,402,447664
Chromosome 24Assembled molecule8,009,35947,946,6256,245,349713
Chromosome 25AllAssembled moleculeUnlocalized scaffolds2,922,6312,802,420120,211201912,585,4972,479,687105,810231,560235,000120,211119113618180
Chromosome 26AllAssembled moleculeUnlocalized scaffolds7,770,0727,653,694116,3787617,663,3727,552,703110,6694,138,4864,138,486116,37895896550
Chromosome 27AllAssembled moleculeUnlocalized scaffolds6,152,4255,572,044580,381261975,688,5795,180,387508,192635,081635,08198,0702061673918180
Chromosome 28AllAssembled moleculeUnlocalized scaffolds6,408,4086,182,350226,058151236,090,9615,919,001171,9601,272,6561,272,65682,9851471252211110
Chromosome ZAllAssembled moleculeUnlocalized scaffolds68,355,97759,856,9988,498,9793932767,497,17959,071,1528,426,0272,887,0333,025,2511,762,0154143585631310
Linkage Group LG34AllAssembled moleculeUnlocalized scaffolds620,388476,164144,2241596431,694345,77485,92040,65193,13539,102514011880
Linkage Group LG35AllAssembled moleculeUnlocalized scaffolds403,170248,039155,131945273,362151,371121,99153,14185,54039,113382513330
Linkage Group LGE22AllAssembled moleculeUnlocalized scaffolds2,504,9372,153,636351,301141042,167,3231,881,208286,115669,850669,850225,81812710720990
unplacedAssembled molecule60,593,14921,35054,223,69048,9622,5820
MoleculeTotal
Length
Mitochondrion MT16,787
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