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Source database (GenBank or RefSeq) File type

fLimLim1.1

Organism name:

Limanda limanda (common dab)

BioSample:

SAMEA112765706

BioProject:

PRJEB68099

Submitter:

WELLCOME SANGER INSTITUTE

Date:

2023/11/03

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_963576545.1 (latest)

RefSeq assembly accession:

GCF_963576545.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for RefSeq version

WGS Project:

CAUYVP01

Assembly method:

various

Genome coverage:

114x

Sequencing technology:

PacBio,Arima2

Linked assembly:

GCA_963576525.1 (alternate pseudohaplotype of diploid)

IDs: 19558271 [UID] 49698968 [GenBank] 50121728 [RefSeq]

See Genome Information for Limanda limanda

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_963576545.1	≠	GCF_963576545.1	fLimLim1.1	Chromosome	Latest GenBank, Latest RefSeq

Comment

The assembly fLimLim1.1 is based on 114x 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.  more

Global statistics

Total sequence length	717,580,706
Total ungapped length	717,525,706
Gaps between scaffolds	0
Number of scaffolds	338
Scaffold N50	28,632,645
Scaffold L50	12
Number of contigs	613
Contig N50	3,420,448
Contig L50	55
Total number of chromosomes and plasmids	23
Number of component sequences (WGS or clone)	338

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	OY754992.1	=	NC_083636.1	0
Chromosome 2	OY754993.1	=	NC_083637.1	0
Chromosome 3	OY754994.1	=	NC_083638.1	0
Chromosome 4	OY754995.1	=	NC_083639.1	0
Chromosome 5	OY754996.1	=	NC_083640.1	0
Chromosome 6	OY754997.1	=	NC_083641.1	0
Chromosome 7	OY754998.1	=	NC_083642.1	0
Chromosome 8	OY754999.1	=	NC_083643.1	0
Chromosome 9	OY755000.1	=	NC_083644.1	0
Chromosome 10	OY755001.1	=	NC_083645.1	0
Chromosome 11	OY755002.1	=	NC_083646.1	0
Chromosome 12	OY755003.1	=	NC_083647.1	0
Chromosome 13	OY755004.1	=	NC_083648.1	0
Chromosome 14	OY755005.1	=	NC_083649.1	0
Chromosome 15	OY755006.1	=	NC_083650.1	0
Chromosome 16	OY755007.1	=	NC_083651.1	0
Chromosome 17	OY755008.1	=	NC_083652.1	0
Chromosome 18	OY755009.1	=	NC_083653.1	0
Chromosome 19	OY755010.1	=	NC_083654.1	0
Chromosome 20	OY755011.1	=	NC_083655.1	0
Chromosome 21	OY755012.1	=	NC_083656.1	0
Chromosome 22	OY755013.1	=	NC_083657.1	0
Chromosome 23	OY755014.1	=	NC_083658.1	0
unplaced	n/a	n/a	n/a	315

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	717,580,706	338	717,525,706	28,632,645	275
Chromosome 1	41,843,667	1	41,840,667	41,843,667	15
Chromosome 2	34,255,533	1	34,253,733	34,255,533	9
Chromosome 3	33,908,540	1	33,905,740	33,908,540	14
Chromosome 4	32,724,059	1	32,722,459	32,724,059	8
Chromosome 5	31,300,886	1	31,298,686	31,300,886	11
Chromosome 6	31,084,078	1	31,081,278	31,084,078	14
Chromosome 7	30,923,850	1	30,920,450	30,923,850	17
Chromosome 8	30,286,159	1	30,283,759	30,286,159	12
Chromosome 9	29,637,728	1	29,633,928	29,637,728	19
Chromosome 10	29,099,254	1	29,096,854	29,099,254	12
Chromosome 11	29,023,871	1	29,022,071	29,023,871	9
Chromosome 12	28,632,645	1	28,630,445	28,632,645	11
Chromosome 13	28,278,933	1	28,275,933	28,278,933	15
Chromosome 14	26,939,970	1	26,938,370	26,939,970	8
Chromosome 15	26,927,212	1	26,924,212	26,927,212	15
Chromosome 16	26,641,247	1	26,638,847	26,641,247	12
Chromosome 17	24,826,697	1	24,824,497	24,826,697	11
Chromosome 18	23,701,040	1	23,699,440	23,701,040	8
Chromosome 19	23,298,610	1	23,295,810	23,298,610	14
Chromosome 20	22,531,203	1	22,528,203	22,531,203	15
Chromosome 21	22,408,033	1	22,406,033	22,408,033	10
Chromosome 22	18,249,265	1	18,247,065	18,249,265	11
Chromosome 23	12,288,357	1	12,287,557	12,288,357	4
unplaced	78,769,869	315	78,769,669	435,691	1

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fLimLim1.1

See Genome Information for Limanda limanda

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

Comment

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