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bAmaOch1.hap1

Organism name:
Amazona ochrocephala (yellow-crowned parrot)
Isolate:
bAmaOch1
Sex:
female
BioSample:
SAMN41018448
BioProject:
PRJNA1102367
Submitter:
Vertebrate Genomes Project
Date:
2024/05/24
Assembly type:
haploid (haplotype 1)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_039720435.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
JBCFXG01
Assembly method:
Hifiasm + Hi-C phasing v. 0.19.3 + galaxy0; yahs v. 1.2a.2 + galaxy1
Expected final version:
no
Genome coverage:
37.4x
Sequencing technology:
PacBio Sequel II HiFi; Arima Hi-C v2
Linked assembly:
GCA_039720425.1 (haplotype 2)

IDs: 22693791 [UID] 59088048 [GenBank]

See Genome Information for Amazona ochrocephala

Pathogen Detection Resources

There are 3 assemblies for this organism

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History (Show revision history)

Comment

Global statistics

Total sequence length1,361,915,838
Total ungapped length1,361,880,138
Gaps between scaffolds0
Number of scaffolds1,679
Scaffold N5092,674,118
Scaffold L506
Number of contigs1,877
Contig N5014,879,228
Contig L5026
Total number of chromosomes and plasmids35
Number of component sequences (WGS or clone)1,679

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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_039720455.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM077876.1n/an/a0
Chromosome 2CM077877.1n/an/a0
Chromosome 3CM077878.1n/an/a0
Chromosome 4CM077879.1n/an/a3
Chromosome 5CM077880.1n/an/a0
Chromosome 6CM077881.1n/an/a0
Chromosome 7CM077882.1n/an/a0
Chromosome 8CM077883.1n/an/a0
Chromosome 9CM077884.1n/an/a8
Chromosome 10CM077885.1n/an/a0
Chromosome 11CM077886.1n/an/a0
Chromosome 12CM077887.1n/an/a0
Chromosome 13CM077888.1n/an/a0
Chromosome 14CM077889.1n/an/a0
Chromosome 15CM077890.1n/an/a0
Chromosome 16CM077891.1n/an/a0
Chromosome 17CM077892.1n/an/a1
Chromosome 18CM077893.1n/an/a0
Chromosome 19CM077894.1n/an/a0
Chromosome 20CM077895.1n/an/a0
Chromosome 21CM077896.1n/an/a0
Chromosome 22CM077897.1n/an/a0
Chromosome 23CM077898.1n/an/a0
Chromosome 24CM077899.1n/an/a0
Chromosome 25CM077900.1n/an/a0
Chromosome 26CM077901.1n/an/a0
Chromosome 27CM077902.1n/an/a0
Chromosome 28CM077903.1n/an/a0
Chromosome 29CM077904.1n/an/a0
Chromosome 30CM077905.1n/an/a0
Chromosome 31CM077906.1n/an/a0
Chromosome 32CM077907.1n/an/a0
Chromosome WCM077908.1n/an/a9
Chromosome ZCM077909.1n/an/a10
unplacedn/an/an/a1,613

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,361,896,7921,6781,361,861,09292,674,1181980
Chromosome 1Assembled molecule138,638,1341138,636,234138,638,134100
Chromosome 2Assembled molecule132,313,5561132,310,356132,313,556160
Chromosome 3Assembled molecule127,092,8761127,090,676127,092,876130
Chromosome 4AllAssembled moleculeUnlocalized scaffolds98,258,43995,369,0172,889,42241398,256,53995,367,1172,889,42295,369,01795,369,0171,978,46811110000
Chromosome 5Assembled molecule92,674,118192,673,71892,674,11820
Chromosome 6Assembled molecule86,165,597186,164,59786,165,59750
Chromosome 7Assembled molecule74,041,890174,040,49074,041,89070
Chromosome 8Assembled molecule46,543,370146,543,17046,543,37010
Chromosome 9AllAssembled moleculeUnlocalized scaffolds45,786,51740,931,2474,855,27091845,785,51740,930,2474,855,27040,931,24740,931,247631,289550000
Chromosome 10Assembled molecule32,066,214132,065,81432,066,21420
Chromosome 11Assembled molecule26,408,818126,408,81826,408,81800
Chromosome 12Assembled molecule25,175,707125,175,70725,175,70700
Chromosome 13Assembled molecule24,537,226124,537,22624,537,22600
Chromosome 14Assembled molecule21,197,407121,197,40721,197,40700
Chromosome 15Assembled molecule17,616,512117,616,51217,616,51200
Chromosome 16Assembled molecule15,685,961115,685,96115,685,96100
Chromosome 17AllAssembled moleculeUnlocalized scaffolds13,098,68712,933,089165,59821113,098,58712,932,989165,59812,933,08912,933,089165,598110000
Chromosome 18Assembled molecule12,103,471112,103,47112,103,47100
Chromosome 19Assembled molecule10,118,578110,117,87810,118,57840
Chromosome 20Assembled molecule8,452,61618,452,6168,452,61600
Chromosome 21Assembled molecule8,171,87018,171,8708,171,87000
Chromosome 22Assembled molecule5,947,16615,946,7665,947,16620
Chromosome 23Assembled molecule5,719,30215,719,2025,719,30210
Chromosome 24Assembled molecule4,027,74714,026,9474,027,74740
Chromosome 25Assembled molecule3,063,00113,061,7013,063,00170
Chromosome 26Assembled molecule1,103,91011,102,5101,103,91080
Chromosome 27Assembled molecule594,6801593,180594,68080
Chromosome 28Assembled molecule582,7301580,830582,730100
Chromosome 29Assembled molecule498,5681497,768498,56840
Chromosome 30Assembled molecule439,0631438,863439,06310
Chromosome 31Assembled molecule339,2991338,499339,29940
Chromosome 32Assembled molecule323,4711322,871323,47130
Chromosome WAllAssembled moleculeUnlocalized scaffolds38,040,31128,878,2799,162,032101938,037,81128,875,7799,162,03228,878,27928,878,2791,409,77120200000
Chromosome ZAllAssembled moleculeUnlocalized scaffolds129,308,983120,227,9549,081,02911110129,302,183120,221,1549,081,029120,227,954120,227,9541,227,39638380000
unplacedAssembled molecule115,760,9971,613115,758,79794,843110
MoleculeTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
Mitochondrion MT19,046119,04619,04600