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bCygOlo1.pri

Organism name:
Cygnus olor (mute swan)
Isolate:
bCygOlo1
Sex:
male
BioSample:
SAMN12621369
BioProject:
PRJNA561960
Submitter:
Vertebrate Genomes Project
Date:
2019/12/23
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_009769625.1 (replaced)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
WNMI01
Assembly method:
FALCON v. 2018.31.08-03.06; FALCON-Unzip v. 6.0.0.47841; purge_haplotigs v. 1.0.3+ 1.Nov.2018; scaff10x v. 4.1.0; Bionano solve v. 3.2.1_04122018; Salsa HiC v. 2.2; Arrow smrtanalysis Pacbio polishing & gap filling v. 6.0.0.47841; longranger align v. 2.2.2; freebayes Illumina polishing v. 1.3.1; gEVAL manual curation v. 2019-09-26; VGP assembly pipeline individual v. 1.5
Expected final version:
no
Genome coverage:
60.23x
Sequencing technology:
PacBio Sequel 1 CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS
Linked assembly:
GCA_009769485.1 (alternate pseudohaplotype of diploid)

IDs: 5410011 [UID] 15675258 [GenBank]

See Genome Information for Cygnus olor

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

This assembly represents the principal haplotype of the diploid genome Cygnus olor and includes the chromosomes. The alternate haplotype sequences are in WGS project WNMJ00000000

Global statistics

Total sequence length1,135,009,278
Total ungapped length1,124,366,810
Gaps between scaffolds0
Number of scaffolds181
Scaffold N5081,035,313
Scaffold L504
Number of contigs626
Contig N507,743,145
Contig L5041
Total number of chromosomes and plasmids32
Number of component sequences (WGS or clone)181

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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
non-nuclear
Assembly Unit: Primary Assembly (GCA_009769645.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM020065.1n/an/a0
Chromosome 2CM020066.1n/an/a0
Chromosome 3CM020067.1n/an/a0
Chromosome 4CM020068.1n/an/a0
Chromosome 5CM020069.1n/an/a0
Chromosome 6CM020070.1n/an/a0
Chromosome 7CM020071.1n/an/a0
Chromosome 8CM020072.1n/an/a0
Chromosome 9CM020073.1n/an/a0
Chromosome 10CM020074.1n/an/a0
Chromosome 11CM020075.1n/an/a0
Chromosome 12CM020076.1n/an/a0
Chromosome 13CM020077.1n/an/a0
Chromosome 14CM020078.1n/an/a0
Chromosome 15CM020079.1n/an/a0
Chromosome 16CM020080.1n/an/a0
Chromosome 17CM020081.1n/an/a0
Chromosome 18CM020082.1n/an/a0
Chromosome 19CM020083.1n/an/a0
Chromosome 20CM020084.1n/an/a0
Chromosome 21CM020085.1n/an/a0
Chromosome 22CM020086.1n/an/a0
Chromosome 23CM020087.1n/an/a0
Chromosome 24CM020088.1n/an/a0
Chromosome 25CM020089.1n/an/a0
Chromosome 26CM020090.1n/an/a0
Chromosome 27CM020091.1n/an/a0
Chromosome 28CM020092.1n/an/a0
Chromosome 29CM020093.1n/an/a0
Chromosome ZCM020094.1n/an/a0
Chromosome WCM020095.1n/an/a6
unplacedn/an/an/a143

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,134,992,5451801,124,350,07781,035,3134450
Chromosome 1Assembled molecule209,740,8031207,824,248209,740,803670
Chromosome 2Assembled molecule161,160,9151159,539,356161,160,915630
Chromosome 3Assembled molecule121,161,4051120,199,500121,161,405260
Chromosome 4Assembled molecule77,806,539177,411,22577,806,539110
Chromosome 5Assembled molecule66,085,727165,874,20466,085,727110
Chromosome 6Assembled molecule40,597,510140,488,46940,597,51030
Chromosome 7Assembled molecule38,445,481138,099,04638,445,48170
Chromosome 8Assembled molecule33,098,480132,996,17033,098,48020
Chromosome 9Assembled molecule26,863,093126,830,82926,863,09310
Chromosome 10Assembled molecule22,536,196122,458,47322,536,19650
Chromosome 11Assembled molecule22,219,367122,219,36722,219,36700
Chromosome 12Assembled molecule21,853,640121,851,46621,853,64020
Chromosome 13Assembled molecule21,469,910121,408,76921,469,91040
Chromosome 14Assembled molecule20,170,086120,170,08620,170,08600
Chromosome 15Assembled molecule18,104,235118,093,33118,104,23520
Chromosome 16Assembled molecule16,327,272116,278,03516,327,27220
Chromosome 17Assembled molecule15,594,031115,518,78515,594,03160
Chromosome 18Assembled molecule13,182,687113,162,47013,182,68720
Chromosome 19Assembled molecule12,196,948112,196,94812,196,94800
Chromosome 20Assembled molecule12,179,101112,179,10112,179,10100
Chromosome 21Assembled molecule9,107,98118,822,2489,107,98120
Chromosome 22Assembled molecule7,827,65617,827,6567,827,65600
Chromosome 23Assembled molecule7,743,14517,743,1457,743,14500
Chromosome 24Assembled molecule7,030,75417,030,7547,030,75400
Chromosome 25Assembled molecule6,682,84616,645,5896,682,84660
Chromosome 26Assembled molecule5,979,44615,818,2685,979,44640
Chromosome 27Assembled molecule5,774,40415,756,0765,774,40420
Chromosome 28Assembled molecule3,067,53013,054,8583,067,53070
Chromosome 29Assembled molecule2,501,78812,499,8882,501,78880
Chromosome ZAssembled molecule81,035,313178,099,18281,035,3131450
Chromosome WAllAssembled moleculeUnlocalized scaffolds16,100,9324,360,21411,740,71871615,445,8704,266,28111,179,5893,846,2764,360,2141,734,82022616000
unplacedAssembled molecule11,347,32414310,806,665204,688350
MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Mitochondrion MT16,733116,73316,73300