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bColLiv1.pat.W.v2

Organism name:
Columba livia (rock pigeon)
Infraspecific name:
Breed: racing homer
Isolate:
bColLiv1
Sex:
female
BioSample:
SAMN38891892
BioProject:
PRJNA1054131
Submitter:
Vertebrate Genomes Project
Date:
2024/04/08
Assembly type:
haploid (paternal haplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_036013475.2 (latest)
RefSeq assembly accession:
GCF_036013475.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAYMZD02
Assembly method:
Hifiasm + trio phasing v. 0.19.7 + galaxy1; purge_dups v. 1.2.6 + galaxy0; yahs v. 1.2a.2 + galaxy0; mitoHiFi 3.0 v. galaxy0
Expected final version:
no
Genome coverage:
55.0x
Sequencing technology:
PacBio Sequel II HiFi; Arima Hi-C v2
Linked assembly:
GCA_036010775.2 (maternal haplotype of diploid)

IDs: 22303221 [UID] 56103038 [GenBank] 57738908 [RefSeq]

See Genome Information for Columba livia

Pathogen Detection Resources

There are 7 assemblies for this organism

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History (Show revision history)

Comment

The order and orientation of scaffolds is uncertain in the W chromosome due to contiguity dropouts

Global statistics

Total sequence length1,325,566,026
Total ungapped length1,325,519,126
Gaps between scaffolds0
Number of scaffolds869
Scaffold N5068,980,706
Scaffold L506
Number of contigs1,118
Contig N5014,042,120
Contig L5028
Total number of chromosomes and plasmids41
Number of component sequences (WGS or clone)869

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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_036013485.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM070349.1=NC_088602.10
Chromosome 2CM070350.1=NC_088603.10
Chromosome 3CM070351.1=NC_088604.10
Chromosome 4CM070352.1=NC_088605.10
Chromosome 5CM070353.1=NC_088606.10
Chromosome 6CM070354.1=NC_088607.10
Chromosome 7CM070355.1=NC_088608.10
Chromosome 8CM070356.1=NC_088609.10
Chromosome 9CM070357.1=NC_088610.10
Chromosome 10CM070358.1=NC_088611.10
Chromosome 11CM070359.1=NC_088612.10
Chromosome 12CM070360.1=NC_088613.10
Chromosome 13CM070361.1=NC_088614.10
Chromosome 14CM070362.1=NC_088615.10
Chromosome 15CM070363.1=NC_088616.10
Chromosome 16CM070364.1=NC_088617.10
Chromosome 17CM070365.1=NC_088618.10
Chromosome 18CM070366.1=NC_088619.10
Chromosome 19CM070367.2=NC_088620.10
Chromosome 20CM070368.2=NC_088621.10
Chromosome 21CM070369.2=NC_088622.10
Chromosome 22CM070370.2=NC_088623.10
Chromosome 23CM070371.1=NC_088624.10
Chromosome 24CM070372.2=NC_088625.10
Chromosome 25CM070373.2=NC_088626.10
Chromosome 26CM070374.2=NC_088627.10
Chromosome 27CM070375.2=NC_088628.10
Chromosome 28CM070376.1=NC_088629.10
Chromosome 29CM070377.1=NC_088630.10
Chromosome 30CM070379.1=NC_088631.10
Chromosome 31CM070380.1=NC_088632.10
Chromosome 32CM070381.1=NC_088633.10
Chromosome 33CM070382.1=NC_088634.10
Chromosome 34CM070383.1=NC_088635.10
Chromosome 35CM070384.2=NC_088636.10
Chromosome 36CM070385.2=NC_088637.10
Chromosome 37CM070386.1=NC_088638.10
Chromosome 38CM070387.1=NC_088639.10
Chromosome 39CM070388.1=NC_088640.10
Chromosome WCM070389.2=NC_088641.114
Chromosome ZCM070378.1=NC_088642.10
unplacedn/an/an/a814

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule1,325,566,0268691,325,519,12668,980,7062490
Chromosome 1Assembled molecule212,386,2021212,378,402212,386,202400
Chromosome 2Assembled molecule163,726,5721163,721,172163,726,572270
Chromosome 3Assembled molecule122,092,2911122,089,891122,092,291120
Chromosome 4Assembled molecule78,855,516178,854,61678,855,51650
Chromosome 5Assembled molecule68,980,706168,979,50668,980,70660
Chromosome 6Assembled molecule41,865,730141,865,53041,865,73010
Chromosome 7Assembled molecule41,451,919141,451,91941,451,91900
Chromosome 8Assembled molecule34,522,999134,522,69934,522,99920
Chromosome 9Assembled molecule29,946,398129,946,39829,946,39800
Chromosome 10Assembled molecule23,263,835123,263,83523,263,83500
Chromosome 11Assembled molecule22,349,698122,349,69822,349,69800
Chromosome 12Assembled molecule21,496,342121,496,34221,496,34200
Chromosome 13Assembled molecule21,485,835121,485,83521,485,83500
Chromosome 14Assembled molecule20,651,115120,651,01520,651,11510
Chromosome 15Assembled molecule17,800,093117,799,99317,800,09310
Chromosome 16Assembled molecule15,524,004115,523,70415,524,00420
Chromosome 17Assembled molecule14,482,990114,482,99014,482,99000
Chromosome 18Assembled molecule14,042,120114,042,12014,042,12000
Chromosome 19Assembled molecule11,817,371111,817,17111,817,37110
Chromosome 20Assembled molecule11,100,612111,100,61211,100,61200
Chromosome 21Assembled molecule9,002,46919,002,4699,002,46900
Chromosome 22Assembled molecule7,344,92617,344,9267,344,92600
Chromosome 23Assembled molecule6,871,26416,870,7646,871,26430
Chromosome 24Assembled molecule6,290,11816,290,1186,290,11800
Chromosome 25Assembled molecule6,129,80716,129,3076,129,80730
Chromosome 26Assembled molecule5,959,47015,959,4705,959,47000
Chromosome 27Assembled molecule4,741,84114,741,4414,741,84120
Chromosome 28Assembled molecule3,632,74513,632,2453,632,74530
Chromosome 29Assembled molecule3,051,46113,049,8613,051,46180
Chromosome 30Assembled molecule1,359,80511,358,6051,359,80560
Chromosome 31Assembled molecule1,272,59211,271,5921,272,59250
Chromosome 32Assembled molecule689,6831688,183689,68380
Chromosome 33Assembled molecule564,2551562,955564,25570
Chromosome 34Assembled molecule538,1171536,817538,11770
Chromosome 35Assembled molecule489,9141489,014489,91450
Chromosome 36Assembled molecule459,0571458,057459,05750
Chromosome 37Assembled molecule302,3721301,872302,37230
Chromosome 38Assembled molecule276,0541275,654276,05420
Chromosome 39Assembled molecule204,3281203,528204,32840
Chromosome WAllAssembled moleculeUnlocalized scaffolds36,935,30323,867,76813,067,5351511436,931,10323,863,76813,067,33523,867,76823,867,7682,499,81928271000
Chromosome ZAssembled molecule84,824,678184,819,07884,824,678280
unplacedAssembled molecule156,783,419814156,778,619435,844240