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ilParAegt1.1

Organism name:
Pararge aegeria (speckled wood butterfly)
BioSample:
SAMEA7532732
BioProject:
PRJEB42039
Submitter:
Wellcome Sanger Institute
Date:
2021/01/28
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_905163445.1 (latest)
RefSeq assembly accession:
GCF_905163445.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
CAJHZN01
Genome coverage:
42x
Linked assembly:
GCA_905163545.1 (alternate pseudohaplotype of diploid)

IDs: 9298051 [UID] 25032738 [GenBank] 25327878 [RefSeq]

See Genome Information for Pararge aegeria

Pathogen Detection Resources

There are 5 assemblies for this organism

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History (Show revision history)

Comment

The assembly ilParAegt1.1 is based on 42x PacBio data, 10X Genomics Chromium data, and Arima Hi-C data generated by the Darwin Tree of Life Project (https://www.darwintreeoflife.org/). The assembly process included the following sequence of steps: initial PacBio assembly generation ... with Hifiasm, retained haplotig separation with purge_dups, short-read polishing using FreeBayes-called variants from 10X Genomics Chromium reads aligned with LongRanger, and Hi-C based scaffolding with SALSA2. The mitochondrial genome was assembled using MitoHifi. Finally, the assembly was analysed and manually improved using gEVAL. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size.  more

Global statistics

Total sequence length516,571,003
Total ungapped length516,569,005
Gaps between scaffolds0
Number of scaffolds70
Scaffold N5019,375,358
Scaffold L5013
Number of contigs81
Contig N5019,375,358
Contig L5013
Total number of chromosomes and plasmids29
Number of component sequences (WGS or clone)70

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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_905163444.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1LR990895.1=NC_053180.110
Chromosome 2LR990892.1=NC_053181.10
Chromosome 3LR990893.1=NC_053182.10
Chromosome 4LR990894.1=NC_053183.10
Chromosome 5LR990896.1=NC_053184.10
Chromosome 6LR990897.1=NC_053185.10
Chromosome 7LR990899.1=NC_053186.12
Chromosome 8LR990898.1=NC_053187.10
Chromosome 9LR990900.1=NC_053188.10
Chromosome 10LR990901.1=NC_053189.10
Chromosome 11LR990902.1=NC_053190.10
Chromosome 12LR990903.1=NC_053191.10
Chromosome 13LR990904.1=NC_053192.10
Chromosome 14LR990905.1=NC_053193.10
Chromosome 15LR990906.1=NC_053194.10
Chromosome 16LR990907.1=NC_053195.10
Chromosome 17LR990908.1=NC_053196.10
Chromosome 18LR990909.1=NC_053197.10
Chromosome 19LR990910.1=NC_053198.10
Chromosome 20LR990911.1=NC_053199.10
Chromosome 21LR990912.1=NC_053200.10
Chromosome 22LR990913.1=NC_053201.10
Chromosome 23LR990914.1=NC_053202.10
Chromosome 24LR990915.1=NC_053203.10
Chromosome 25LR990916.1=NC_053204.10
Chromosome 26LR990917.1=NC_053205.10
Chromosome 27LR990918.1=NC_053206.10
Chromosome WLR990919.1=NC_053207.18
Chromosome ZLR990891.1=NC_053208.10
unplacedn/an/an/a21

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule516,571,00370516,569,00519,375,358110
Chromosome 1AllAssembled moleculeUnlocalized scaffolds22,308,68521,295,4811,013,2041111022,308,48521,295,2811,013,20421,295,48121,295,481213,546110000
Chromosome 2Assembled molecule22,235,516122,235,51622,235,51600
Chromosome 3Assembled molecule21,656,862121,656,86221,656,86200
Chromosome 4Assembled molecule21,559,079121,559,07921,559,07900
Chromosome 5Assembled molecule20,978,392120,978,39220,978,39200
Chromosome 6Assembled molecule20,779,476120,779,27620,779,47610
Chromosome 7AllAssembled moleculeUnlocalized scaffolds20,588,93220,310,676278,25631220,588,23220,310,476277,75620,310,67620,310,676154,489211000
Chromosome 8Assembled molecule20,387,885120,387,85320,387,88510
Chromosome 9Assembled molecule19,838,782119,838,78219,838,78200
Chromosome 10Assembled molecule19,543,518119,543,51819,543,51800
Chromosome 11Assembled molecule19,417,568119,417,56819,417,56800
Chromosome 12Assembled molecule19,375,358119,375,35819,375,35800
Chromosome 13Assembled molecule18,562,731118,562,73118,562,73100
Chromosome 14Assembled molecule18,514,894118,514,89418,514,89400
Chromosome 15Assembled molecule18,474,722118,474,69018,474,72210
Chromosome 16Assembled molecule18,405,481118,405,48118,405,48100
Chromosome 17Assembled molecule17,724,597117,724,59717,724,59700
Chromosome 18Assembled molecule17,526,884117,526,88417,526,88400
Chromosome 19Assembled molecule17,516,122117,515,92217,516,12210
Chromosome 20Assembled molecule17,491,101117,491,10117,491,10100
Chromosome 21Assembled molecule17,150,347117,149,94717,150,34720
Chromosome 22Assembled molecule15,154,462115,154,46215,154,46200
Chromosome 23Assembled molecule13,181,978113,181,97813,181,97800
Chromosome 24Assembled molecule13,052,829113,052,82913,052,82900
Chromosome 25Assembled molecule11,599,638111,599,63811,599,63800
Chromosome 26Assembled molecule9,871,87319,871,6739,871,87310
Chromosome 27Assembled molecule8,980,19618,980,1968,980,19600
Chromosome WAllAssembled moleculeUnlocalized scaffolds5,904,3042,084,3833,819,9219185,904,3042,084,3833,819,9211,336,1132,084,383721,200000000
Chromosome ZAssembled molecule27,171,456127,171,42227,171,45610
unplacedAssembled molecule1,617,335211,617,33599,20200