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Source database (GenBank or RefSeq) File type

fPlePla1.1

Organism name:

Pleuronectes platessa (European plaice)

BioSample:

SAMEA13853390

BioProject:

PRJEB57577

Submitter:

WELLCOME SANGER INSTITUTE

Date:

2022/11/29

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_947347685.1 (latest)

RefSeq assembly accession:

GCF_947347685.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for RefSeq version

WGS Project:

CANAFI01

Assembly method:

various

Genome coverage:

35x

Sequencing technology:

PacBio,Arima2

Linked assembly:

GCA_947347695.1 (alternate pseudohaplotype of diploid)

IDs: 14620921 [UID] 37886518 [GenBank] 40270228 [RefSeq]

See Genome Information for Pleuronectes platessa

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_947347685.1	≠	GCF_947347685.1	fPlePla1.1	Chromosome	Latest GenBank, Latest RefSeq

Comment

The assembly fPlePla1.1 is based on 35x 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	687,388,084
Total ungapped length	687,173,684
Gaps between scaffolds	0
Number of scaffolds	355
Scaffold N50	26,648,505
Scaffold L50	12
Number of contigs	1,427
Contig N50	1,477,112
Contig L50	118
Total number of chromosomes and plasmids	24
Number of component sequences (WGS or clone)	355

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	OX374648.1	=	NC_070626.1	2
Chromosome 2	OX374649.1	=	NC_070627.1	2
Chromosome 3	OX374650.1	=	NC_070628.1	0
Chromosome 4	OX374651.1	=	NC_070629.1	0
Chromosome 5	OX374652.1	=	NC_070630.1	0
Chromosome 6	OX374653.1	=	NC_070631.1	1
Chromosome 7	OX374654.1	=	NC_070632.1	0
Chromosome 8	OX374655.1	=	NC_070633.1	0
Chromosome 9	OX374656.1	=	NC_070634.1	0
Chromosome 10	OX374657.1	=	NC_070635.1	0
Chromosome 11	OX374658.1	=	NC_070636.1	0
Chromosome 12	OX374659.1	=	NC_070637.1	0
Chromosome 13	OX374660.1	=	NC_070638.1	0
Chromosome 14	OX374661.1	=	NC_070639.1	0
Chromosome 15	OX374662.1	=	NC_070640.1	0
Chromosome 16	OX374663.1	=	NC_070641.1	0
Chromosome 17	OX374664.1	=	NC_070642.1	0
Chromosome 18	OX374665.1	=	NC_070643.1	0
Chromosome 19	OX374666.1	=	NC_070644.1	0
Chromosome 20	OX374667.1	=	NC_070645.1	0
Chromosome 21	OX374668.1	=	NC_070646.1	0
Chromosome 22	OX374669.1	=	NC_070647.1	1
Chromosome 23	OX374670.1	=	NC_070648.1	0
Chromosome 24	OX374671.1	=	NC_070649.1	0
unplaced	n/a	n/a	n/a	325

Molecule	Sequence Role	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	Assembled molecule	687,388,084	355	687,173,684	26,648,505	1,072	0
Chromosome 1	AllAssembled moleculeUnlocalized scaffolds	33,935,87933,765,178170,701	312	33,926,87933,756,178170,701	33,765,17833,765,178109,701	45450	000
Chromosome 2	AllAssembled moleculeUnlocalized scaffolds	33,315,67432,747,945567,729	312	33,304,67432,736,945567,729	32,747,94532,747,945506,862	55550	000
Chromosome 3	Assembled molecule	31,709,139	1	31,700,139	31,709,139	45	0
Chromosome 4	Assembled molecule	31,251,866	1	31,243,866	31,251,866	40	0
Chromosome 5	Assembled molecule	30,705,721	1	30,695,321	30,705,721	52	0
Chromosome 6	AllAssembled moleculeUnlocalized scaffolds	30,174,72930,126,68448,045	211	30,164,92930,116,88448,045	30,126,68430,126,68448,045	49490	000
Chromosome 7	Assembled molecule	30,015,915	1	30,008,915	30,015,915	35	0
Chromosome 8	Assembled molecule	29,489,201	1	29,476,801	29,489,201	62	0
Chromosome 9	Assembled molecule	28,268,554	1	28,258,354	28,268,554	51	0
Chromosome 10	Assembled molecule	27,621,514	1	27,610,114	27,621,514	57	0
Chromosome 11	Assembled molecule	26,962,148	1	26,951,748	26,962,148	52	0
Chromosome 12	Assembled molecule	26,648,505	1	26,641,705	26,648,505	34	0
Chromosome 13	Assembled molecule	26,539,869	1	26,531,869	26,539,869	40	0
Chromosome 14	Assembled molecule	25,769,264	1	25,761,664	25,769,264	38	0
Chromosome 15	Assembled molecule	25,567,048	1	25,558,048	25,567,048	45	0
Chromosome 16	Assembled molecule	25,330,512	1	25,322,112	25,330,512	42	0
Chromosome 17	Assembled molecule	23,435,974	1	23,426,774	23,435,974	46	0
Chromosome 18	Assembled molecule	23,104,348	1	23,093,748	23,104,348	53	0
Chromosome 19	Assembled molecule	21,672,863	1	21,665,863	21,672,863	35	0
Chromosome 20	Assembled molecule	21,403,895	1	21,396,495	21,403,895	37	0
Chromosome 21	Assembled molecule	20,730,867	1	20,721,667	20,730,867	46	0
Chromosome 22	AllAssembled moleculeUnlocalized scaffolds	19,220,97819,168,74652,232	211	19,211,77819,159,54652,232	19,168,74619,168,74652,232	46460	000
Chromosome 23	Assembled molecule	17,312,707	1	17,305,307	17,312,707	37	0
Chromosome 24	Assembled molecule	17,067,268	1	17,061,468	17,067,268	29	0
unplaced	Assembled molecule	60,133,646	325	60,133,446	619,000	1	0

Assembly

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fPlePla1.1

See Genome Information for Pleuronectes platessa

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

Comment

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