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bCygOlo1.pri.v2

Organism name:
Cygnus olor (mute swan)
Isolate:
bCygOlo1
Sex:
male
BioSample:
SAMN12621369
BioProject:
PRJNA561960
Submitter:
Vertebrate Genomes Project
Date:
2021/03/31
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_009769625.2 (latest)
RefSeq assembly accession:
GCF_009769625.2 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Different: chromosome MT.
  • Data displayed for RefSeq version
WGS Project:
WNMI02
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. 2020-11-30; 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_009769485.2 (alternate pseudohaplotype of diploid)

IDs: 9686621 [UID] 25905498 [GenBank] 25946458 [RefSeq]

See Genome Information for Cygnus olor

Pathogen Detection Resources

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

Global statistics

Total sequence length1,134,186,642
Total ungapped length1,124,263,917
Gaps between scaffolds0
Number of scaffolds171
Scaffold N5081,481,363
Scaffold L504
Number of contigs622
Contig N508,308,965
Contig L5039
Total number of chromosomes and plasmids37
Number of component sequences (WGS or clone)171

Supplemental Content

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Assembly Information

Related Information

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_009769645.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM020065.2=NC_049169.11
Chromosome 2CM020066.2=NC_049170.11
Chromosome 3CM020067.2=NC_049171.10
Chromosome 4CM020068.2=NC_049172.10
Chromosome 5CM020069.2=NC_049173.10
Chromosome 6CM020070.2=NC_049174.10
Chromosome 7CM020071.2=NC_049175.10
Chromosome 8CM020072.2=NC_049176.10
Chromosome 9CM020073.2=NC_049177.10
Chromosome 10CM020074.2=NC_049178.10
Chromosome 11CM020075.2=NC_049179.10
Chromosome 12CM020076.2=NC_049180.10
Chromosome 13CM020077.2=NC_049181.10
Chromosome 14CM020078.2=NC_049182.10
Chromosome 15CM020079.2=NC_049183.10
Chromosome 16CM020080.2=NC_049184.10
Chromosome 17CM020081.2=NC_049185.10
Chromosome 18CM020082.2=NC_049186.10
Chromosome 19CM020083.2=NC_049187.10
Chromosome 20CM020084.2=NC_049188.10
Chromosome 21CM020085.2=NC_049189.10
Chromosome 22CM020086.2=NC_049190.10
Chromosome 23CM020087.2=NC_049191.10
Chromosome 24CM020088.2=NC_049192.10
Chromosome 25CM020089.2=NC_049193.11
Chromosome 26CM020090.2=NC_049194.10
Chromosome 27CM020091.2=NC_049195.10
Chromosome 28CM020092.2=NC_049196.10
Chromosome 29CM020093.2=NC_049197.10
Chromosome 30CM030310.1=NC_054087.13
Chromosome 31CM030311.1=NC_054088.11
Chromosome 32CM030312.1=NC_054089.10
Chromosome 33CM030313.1=NC_054090.11
Chromosome 34CM030314.1=NC_054091.11
Chromosome ZCM020094.2=NC_049198.115
Chromosome WCM020095.2=NC_049199.112
unplacedn/an/an/a98

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,134,169,9031701,124,247,17881,481,3634510
Chromosome 1AllAssembled moleculeUnlocalized scaffolds209,539,322209,522,19317,129211208,001,604207,984,47517,129209,522,193209,522,19317,12971710000
Chromosome 2AllAssembled moleculeUnlocalized scaffolds160,854,567160,819,96834,599211159,540,768159,506,16934,599160,819,968160,819,96834,59961610000
Chromosome 3Assembled molecule121,075,6591120,114,084121,075,659230
Chromosome 4Assembled molecule77,817,112177,421,72377,817,112120
Chromosome 5Assembled molecule66,082,187165,870,97266,082,18790
Chromosome 6Assembled molecule40,612,327140,503,28940,612,32730
Chromosome 7Assembled molecule38,448,754138,102,32038,448,75470
Chromosome 8Assembled molecule33,077,122132,974,82633,077,12210
Chromosome 9Assembled molecule26,864,309126,832,04526,864,30910
Chromosome 10Assembled molecule22,537,910122,460,18822,537,91050
Chromosome 11Assembled molecule22,221,292122,221,29222,221,29200
Chromosome 12Assembled molecule21,829,091121,827,12021,829,09110
Chromosome 13Assembled molecule21,471,338121,410,20221,471,33840
Chromosome 14Assembled molecule20,171,002120,171,00220,171,00200
Chromosome 15Assembled molecule18,038,157118,027,26818,038,15710
Chromosome 16Assembled molecule16,306,521116,257,29716,306,52110
Chromosome 17Assembled molecule15,555,256115,480,71315,555,25640
Chromosome 18Assembled molecule13,183,618113,163,40313,183,61820
Chromosome 19Assembled molecule12,197,728112,197,72812,197,72800
Chromosome 20Assembled molecule12,179,482112,179,48212,179,48200
Chromosome 21Assembled molecule9,108,45518,822,7229,108,45520
Chromosome 22Assembled molecule7,827,90017,827,9007,827,90000
Chromosome 23Assembled molecule7,742,83617,742,8367,742,83600
Chromosome 24Assembled molecule7,030,56717,030,5677,030,56700
Chromosome 25AllAssembled moleculeUnlocalized scaffolds6,743,5406,703,95739,5832116,705,4896,666,40539,0846,703,9576,703,95739,583981000
Chromosome 26Assembled molecule5,979,54115,818,3665,979,54140
Chromosome 27Assembled molecule5,774,74315,756,4165,774,74320
Chromosome 28Assembled molecule3,113,52013,100,4503,113,52090
Chromosome 29Assembled molecule2,612,54612,610,4462,612,54690
Chromosome 30AllAssembled moleculeUnlocalized scaffolds1,253,713834,663419,050413973,404554,853418,551834,663834,663120,266541000
Chromosome 31AllAssembled moleculeUnlocalized scaffolds860,324609,777250,547211857,927608,080249,847609,777609,777250,547743000
Chromosome 32Assembled molecule744,8931744,893744,89300
Chromosome 33AllAssembled moleculeUnlocalized scaffolds819,888727,36192,527211818,892726,86192,031727,361727,36192,527211000
Chromosome 34AllAssembled moleculeUnlocalized scaffolds1,135,510739,387396,123211814,381471,619342,762739,387739,387396,123422000
Chromosome ZAllAssembled moleculeUnlocalized scaffolds82,768,51681,481,3631,287,1531611580,001,23978,714,5851,286,65481,481,36381,481,363109,4751531521000
Chromosome WAllAssembled moleculeUnlocalized scaffolds16,870,8024,360,45312,510,3491311216,149,6604,266,42411,883,2361,872,0544,360,4531,734,84927720000
unplacedAssembled molecule3,719,855983,714,26467,884120
MoleculeTotal
Length
Mitochondrion MT16,739