fDanAes4.1

Organism name:: Danio aesculapii (bony fishes)
BioSample:: SAMEA104240212
BioProject:: PRJEB38583
Submitter:: SC
Date:: 2020/06/27
Assembly type:: haploid (principal pseudohaplotype of diploid)
Assembly level:: Chromosome
Genome representation:: full
RefSeq category:: representative genome
GenBank assembly accession:: GCA_903798145.1 (latest)
RefSeq assembly accession:: GCF_903798145.1 (latest)
RefSeq assembly and GenBank assembly identical:: yes
WGS Project:: CAIGQR01
Genome coverage:: 52x

IDs: 7304321 [UID] 20180748 [GenBank] 42844348 [RefSeq]

See Genome Information for Danio aesculapii

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_903798145.1	=	GCF_903798145.1	fDanAes4.1	Chromosome	Latest GenBank, Latest RefSeq

Comment

The assembly fDanAes4.1 is based on 52x PacBio data, 71x 10X Genomics Chromium data, BioNano data and 32x Dovetail Hi-C data generated at the Wellcome Sanger Institute. The assembly process included the following sequence of steps: initial PacBio assembly ... generation with Falcon-unzip, retained haplotig separation with purge_dups, 10X based scaffolding with scaff10x, BioNano hybrid-scaffolding with Solve, Hi-C based scaffolding with SALSA2, Arrow polishing, and two rounds of FreeBayes polishing. Finally, the assembly was analysed and manually improved using gEVAL. Chromosome-scale scaffolds are named by synteny to the GRCz11 assembly of Danio rerio.  more

Global statistics

Total sequence length	1,381,485,597
Total ungapped length	1,365,168,914
Gaps between scaffolds	0
Number of scaffolds	342
Scaffold N50	55,996,547
Scaffold L50	12
Number of contigs	2,163
Contig N50	1,517,104
Contig L50	252
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	342

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	LR812505.1	=	NC_079435.1	0
Chromosome 2	LR812511.1	=	NC_079436.1	0
Chromosome 3	LR812517.1	=	NC_079437.1	0
Chromosome 4	LR812500.1	=	NC_079438.1	0
Chromosome 5	LR812498.1	=	NC_079439.1	0
Chromosome 6	LR812515.1	=	NC_079440.1	0
Chromosome 7	LR812512.1	=	NC_079441.1	0
Chromosome 8	LR812495.1	=	NC_079442.1	0
Chromosome 9	LR812510.1	=	NC_079443.1	0
Chromosome 10	LR812508.1	=	NC_079444.1	0
Chromosome 11	LR812506.1	=	NC_079445.1	0
Chromosome 12	LR812518.1	=	NC_079446.1	0
Chromosome 13	LR812503.1	=	NC_079447.1	0
Chromosome 14	LR812497.1	=	NC_079448.1	0
Chromosome 15	LR812516.1	=	NC_079449.1	0
Chromosome 16	LR812499.1	=	NC_079450.1	0
Chromosome 17	LR812496.1	=	NC_079451.1	0
Chromosome 18	LR812514.1	=	NC_079452.1	0
Chromosome 19	LR812507.1	=	NC_079453.1	0
Chromosome 20	LR812504.1	=	NC_079454.1	0
Chromosome 21	LR812501.1	=	NC_079455.1	0
Chromosome 22	LR812494.1	=	NC_079456.1	0
Chromosome 23	LR812513.1	=	NC_079457.1	0
Chromosome 24	LR812509.1	=	NC_079458.1	0
Chromosome 25	LR812502.1	=	NC_079459.1	0
unplaced	n/a	n/a	n/a	317

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	1,381,485,597	342	1,365,168,914	55,996,547	1,821
Chromosome 1	63,561,195	1	62,746,682	63,561,195	96
Chromosome 2	60,050,756	1	59,685,349	60,050,756	75
Chromosome 3	62,918,972	1	62,231,191	62,918,972	65
Chromosome 4	60,163,563	1	57,903,439	60,163,563	153
Chromosome 5	74,595,647	1	73,507,191	74,595,647	85
Chromosome 6	63,313,467	1	62,915,359	63,313,467	86
Chromosome 7	74,246,351	1	73,828,657	74,246,351	79
Chromosome 8	55,069,896	1	54,877,774	55,069,896	67
Chromosome 9	58,433,418	1	57,413,571	58,433,418	76
Chromosome 10	46,123,639	1	45,819,233	46,123,639	50
Chromosome 11	47,054,533	1	46,799,082	47,054,533	60
Chromosome 12	51,374,999	1	49,969,344	51,374,999	69
Chromosome 13	53,678,629	1	52,926,307	53,678,629	72
Chromosome 14	56,859,170	1	55,167,317	56,859,170	81
Chromosome 15	48,490,790	1	47,792,295	48,490,790	72
Chromosome 16	57,624,524	1	56,776,290	57,624,524	79
Chromosome 17	53,950,911	1	53,774,026	53,950,911	60
Chromosome 18	56,436,977	1	56,059,084	56,436,977	70
Chromosome 19	51,623,449	1	51,608,804	51,623,449	64
Chromosome 20	55,996,547	1	55,390,197	55,996,547	56
Chromosome 21	46,978,008	1	46,897,701	46,978,008	64
Chromosome 22	38,983,038	1	37,967,524	38,983,038	50
Chromosome 23	50,119,185	1	49,419,894	50,119,185	57
Chromosome 24	42,963,501	1	42,948,681	42,963,501	55
Chromosome 25	37,515,819	1	37,395,456	37,515,819	46
unplaced	13,358,613	317	13,348,466	50,255	34

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fDanAes4.1

See Genome Information for Danio aesculapii

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

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