U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ilOstNubi1.1

Organism name:
Ostrinia nubilalis (European corn borer)
BioSample:
SAMEA7701321
BioProject:
PRJEB71127
Submitter:
WELLCOME SANGER INSTITUTE
Date:
2023/12/15
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_963855985.1 (latest)
RefSeq assembly accession:
GCF_963855985.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
CAWLCS01
Assembly method:
various
Genome coverage:
44x
Sequencing technology:
PacBio,Arima2
Linked assembly:
GCA_963856005.1 (alternate pseudohaplotype of diploid)

IDs: 20245511 [UID] 51234378 [GenBank] 55194248 [RefSeq]

See Genome Information for Ostrinia nubilalis

Pathogen Detection Resources

There are 3 assemblies for this organism

See more

History (Show revision history)

Comment

The assembly ilOstNubi1.1 is based on 44x PacBio data and Arima2 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, and Hi-C based scaffolding with YaHS. The mitochondrial genome was assembled using MitoHiFi. Finally, the primary assembly was analysed and manually improved using rapid curation. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size. The HiC data was from a male sample, so the exact order of the W chromosome contigs is unknown. The sex chromosomes were identified by coverage.  more

Global statistics

Total sequence length495,500,553
Total ungapped length495,497,153
Gaps between scaffolds0
Number of scaffolds52
Scaffold N5016,461,208
Scaffold L5014
Number of contigs69
Contig N5015,546,852
Contig L5014
Total number of chromosomes and plasmids32
Number of component sequences (WGS or clone)52

Supplemental Content

Access the data

Assembly Information

Related Information

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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_963855984.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1OY979734.1=NC_087088.10
Chromosome 2OY979736.1=NC_087089.10
Chromosome 3OY979737.1=NC_087090.10
Chromosome 4OY979738.1=NC_087091.10
Chromosome 5OY979739.1=NC_087092.10
Chromosome 6OY979740.1=NC_087093.10
Chromosome 7OY979741.1=NC_087094.10
Chromosome 8OY979742.1=NC_087095.10
Chromosome 9OY979743.1=NC_087096.10
Chromosome 10OY979744.1=NC_087097.10
Chromosome 11OY979745.1=NC_087098.10
Chromosome 12OY979746.1=NC_087099.10
Chromosome 13OY979747.1=NC_087100.10
Chromosome 14OY979748.1=NC_087101.10
Chromosome 15OY979749.1=NC_087102.10
Chromosome 16OY979750.1=NC_087103.10
Chromosome 17OY979751.1=NC_087104.10
Chromosome 18OY979752.1=NC_087105.10
Chromosome 19OY979753.1=NC_087106.10
Chromosome 20OY979754.1=NC_087107.10
Chromosome 21OY979755.1=NC_087108.10
Chromosome 22OY979756.1=NC_087109.10
Chromosome 23OY979757.1=NC_087110.10
Chromosome 24OY979758.1=NC_087111.10
Chromosome 25OY979759.1=NC_087112.10
Chromosome 26OY979760.1=NC_087113.10
Chromosome 27OY979761.1=NC_087114.10
Chromosome 28OY979762.1=NC_087115.10
Chromosome 29OY979763.1=NC_087116.10
Chromosome 30OY979764.1=NC_087117.10
Chromosome WOY979735.1=NC_087118.111
Chromosome ZOY979733.1=NC_087119.10
unplacedn/an/an/a9

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule495,500,55352495,497,15316,461,208170
Chromosome 1Assembled molecule19,708,000119,708,00019,708,00000
Chromosome 2Assembled molecule18,861,194118,861,19418,861,19400
Chromosome 3Assembled molecule18,820,928118,820,72818,820,92810
Chromosome 4Assembled molecule18,807,334118,806,93418,807,33420
Chromosome 5Assembled molecule18,549,263118,549,26318,549,26300
Chromosome 6Assembled molecule18,355,857118,355,65718,355,85710
Chromosome 7Assembled molecule17,838,519117,838,51917,838,51900
Chromosome 8Assembled molecule17,795,783117,795,78317,795,78300
Chromosome 9Assembled molecule17,373,746117,373,74617,373,74600
Chromosome 10Assembled molecule16,894,606116,894,60616,894,60600
Chromosome 11Assembled molecule16,739,154116,739,15416,739,15400
Chromosome 12Assembled molecule16,567,199116,567,19916,567,19900
Chromosome 13Assembled molecule16,461,208116,460,80816,461,20820
Chromosome 14Assembled molecule16,089,961116,089,56116,089,96120
Chromosome 15Assembled molecule16,031,059116,031,05916,031,05900
Chromosome 16Assembled molecule15,546,852115,546,85215,546,85200
Chromosome 17Assembled molecule15,270,346115,270,34615,270,34600
Chromosome 18Assembled molecule15,240,925115,240,72515,240,92510
Chromosome 19Assembled molecule14,727,637114,727,43714,727,63710
Chromosome 20Assembled molecule14,225,373114,225,17314,225,37310
Chromosome 21Assembled molecule13,821,367113,821,16713,821,36710
Chromosome 22Assembled molecule13,444,475113,444,47513,444,47500
Chromosome 23Assembled molecule12,753,270112,753,27012,753,27000
Chromosome 24Assembled molecule12,565,746112,565,74612,565,74600
Chromosome 25Assembled molecule11,410,941111,410,94111,410,94100
Chromosome 26Assembled molecule11,236,442111,236,24211,236,44210
Chromosome 27Assembled molecule8,943,36718,943,1678,943,36710
Chromosome 28Assembled molecule8,049,86318,049,6638,049,86310
Chromosome 29Assembled molecule7,815,00017,815,0007,815,00000
Chromosome 30Assembled molecule7,497,76217,497,5627,497,76210
Chromosome WAllAssembled moleculeUnlocalized scaffolds19,669,71112,359,0007,310,7111211119,669,51112,359,0007,310,51112,359,00012,359,0004,992,849101000
Chromosome ZAssembled molecule27,762,237127,762,23727,762,23700
unplacedAssembled molecule625,4289625,42868,76200