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fSolSol10.1

Organism name:
Solea solea (common sole)
BioSample:
SAMEA10984647
BioProject:
PRJEB63669
Submitter:
WELLCOME SANGER INSTITUTE
Date:
2023/07/06
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_958295425.1 (latest)
RefSeq assembly accession:
GCF_958295425.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
CATQIT01
Assembly method:
various
Genome coverage:
32x
Sequencing technology:
PacBio,Arima2
Linked assembly:
GCA_958295035.1 (alternate pseudohaplotype of diploid)

IDs: 17437151 [UID] 44637138 [GenBank] 45840678 [RefSeq]

Pathogen Detection Resources

There are 2 assemblies for this organism

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History (Show revision history)

Comment

The assembly fSolSol10.1 is based on 32x PacBio data and Arima2 Hi-C data generated by the Wellcome Sanger Institute Tree of Life Programme (https://www.sanger.ac.uk/programme/tree-of-life/) as part of the European Reference Genome Atlas pilot project
(https://www.erga-biodiversity.eu/pilot-project). 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. This alternate haplotype assembly combines the haplotigs separated by purge_dups with haplotigs separated from the primary assembly during curation.  more

Global statistics

Total sequence length643,757,955
Total ungapped length643,683,355
Gaps between scaffolds0
Number of scaffolds242
Scaffold N5029,068,826
Scaffold L5010
Number of contigs615
Contig N502,587,297
Contig L5077
Total number of chromosomes and plasmids21
Number of component sequences (WGS or clone)242

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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_958295424.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1OY282534.1=NC_081134.10
Chromosome 2OY282535.1=NC_081135.10
Chromosome 3OY282536.1=NC_081136.10
Chromosome 4OY282537.1=NC_081137.119
Chromosome 5OY282538.1=NC_081138.10
Chromosome 6OY282539.1=NC_081139.10
Chromosome 7OY282540.1=NC_081140.10
Chromosome 8OY282541.1=NC_081141.10
Chromosome 9OY282542.1=NC_081142.10
Chromosome 10OY282543.1=NC_081143.10
Chromosome 11OY282544.1=NC_081144.10
Chromosome 12OY282545.1=NC_081145.10
Chromosome 13OY282546.1=NC_081146.10
Chromosome 14OY282547.1=NC_081147.10
Chromosome 15OY282548.1=NC_081148.10
Chromosome 16OY282549.1=NC_081149.10
Chromosome 17OY282550.1=NC_081150.11
Chromosome 18OY282551.1=NC_081151.10
Chromosome 19OY282552.1=NC_081152.10
Chromosome 20OY282553.1=NC_081153.10
Chromosome 21OY282554.1=NC_081154.10
unplacedn/an/an/a201

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule643,757,955242643,683,35529,068,8263730
Chromosome 1Assembled molecule47,064,963147,059,56347,064,963270
Chromosome 2Assembled molecule40,005,501140,001,10140,005,501220
Chromosome 3Assembled molecule37,300,131137,293,93137,300,131310
Chromosome 4AllAssembled moleculeUnlocalized scaffolds33,010,76026,891,6286,119,1322011933,008,76026,889,6286,119,13226,891,62826,891,628398,00010100000
Chromosome 5Assembled molecule32,354,262132,350,46232,354,262190
Chromosome 6Assembled molecule32,191,605132,189,40532,191,605110
Chromosome 7Assembled molecule31,382,352131,379,95231,382,352120
Chromosome 8Assembled molecule30,088,868130,084,26830,088,868230
Chromosome 9Assembled molecule29,977,148129,973,14829,977,148200
Chromosome 10Assembled molecule29,764,166129,760,16629,764,166200
Chromosome 11Assembled molecule29,068,826129,065,62629,068,826160
Chromosome 12Assembled molecule29,008,568129,005,76829,008,568140
Chromosome 13Assembled molecule28,329,896128,326,49628,329,896170
Chromosome 14Assembled molecule27,384,652127,380,65227,384,652200
Chromosome 15Assembled molecule26,538,643126,535,24326,538,643170
Chromosome 16Assembled molecule26,393,463126,389,86326,393,463180
Chromosome 17AllAssembled moleculeUnlocalized scaffolds26,139,70825,921,026218,68221126,135,90825,917,226218,68225,921,02625,921,026218,68219190000
Chromosome 18Assembled molecule24,495,781124,492,38124,495,781170
Chromosome 19Assembled molecule23,713,038123,711,23823,713,03890
Chromosome 20Assembled molecule23,155,029123,151,82923,155,029160
Chromosome 21Assembled molecule22,351,658122,348,65822,351,658150
unplacedAssembled molecule14,038,93720114,038,937240,91500