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Source database (GenBank or RefSeq) File type

aPelFus1.pri

Organism name:

Pelobates fuscus (common spadefoot toad)

Isolate:

aPelFus1

Sex:

male

BioSample:

SAMN39244120

BioProject:

PRJNA1060730

Submitter:

Vertebrate Genomes Project

Date:

2024/01/26

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_036172605.1 (latest)

RefSeq assembly accession:

GCF_036172605.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for RefSeq version

WGS Project:

JAYKPC01

Assembly method:

deepconsensus v. 1.1; HiFiasm + Hi-C phasing v. 0.18.7-r519; purge_dups v. 1.2.5; yahs v. 1.2a.2; deepVariant polishing v. 1.4; MitoHiFi v. 3.0.0

Expected final version:

Genome coverage:

25.0x

Sequencing technology:

PacBio Sequel II HiFi; Arima Hi-C v2

IDs: 21134701 [UID] 53171518 [GenBank] 54103248 [RefSeq]

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_036172605.1	≠	GCF_036172605.1	aPelFus1.pri	Chromosome	Latest GenBank, Latest RefSeq

Comment

This assembly is different than others from the VGP, in that we are including a more complete primary haplotype that has the original assembly before more complete phasing of haplotypes 1 and 2. Only the primary haplotype was curated ... for structural errors and naming of chromosomes  more

Global statistics

Total sequence length	3,606,456,729
Total ungapped length	3,606,387,103
Gaps between scaffolds	0
Number of scaffolds	159
Scaffold N50	387,735,018
Scaffold L50	5
Number of contigs	508
Contig N50	29,412,599
Contig L50	37
Total number of chromosomes and plasmids	13
Number of component sequences (WGS or clone)	159

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM069881.1	=	NC_086317.1	0
Chromosome 2	CM069882.1	=	NC_086318.1	0
Chromosome 3	CM069883.1	=	NC_086319.1	0
Chromosome 4	CM069884.1	=	NC_086320.1	0
Chromosome 5	CM069885.1	=	NC_086321.1	0
Chromosome 6	CM069886.1	=	NC_086322.1	0
Chromosome 7	CM069887.1	=	NC_086323.1	0
Chromosome 8	CM069888.1	=	NC_086324.1	0
Chromosome 9	CM069889.1	=	NC_086325.1	0
Chromosome 10	CM069890.1	=	NC_086326.1	0
Chromosome 11	CM069891.1	=	NC_086327.1	0
Chromosome 12	CM069892.1	=	NC_086328.1	0
Chromosome 13	CM069893.1	=	NC_086329.1	0
unplaced	n/a	n/a	n/a	146

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	3,606,456,729	159	3,606,387,103	387,735,018	349
Chromosome 1	499,470,508	1	499,465,282	499,470,508	27
Chromosome 2	451,963,180	1	451,952,180	451,963,180	55
Chromosome 3	427,915,699	1	427,908,299	427,915,699	37
Chromosome 4	392,841,989	1	392,834,389	392,841,989	38
Chromosome 5	387,735,018	1	387,728,618	387,735,018	32
Chromosome 6	310,995,732	1	310,992,132	310,995,732	18
Chromosome 7	210,561,491	1	210,556,491	210,561,491	25
Chromosome 8	180,456,080	1	180,450,280	180,456,080	29
Chromosome 9	172,974,767	1	172,969,167	172,974,767	28
Chromosome 10	154,470,283	1	154,467,083	154,470,283	16
Chromosome 11	143,806,241	1	143,802,841	143,806,241	17
Chromosome 12	141,677,238	1	141,675,038	141,677,238	11
Chromosome 13	112,922,485	1	112,919,485	112,922,485	15
unplaced	18,666,018	146	18,665,818	404,891	1

Assembly

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aPelFus1.pri

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

Comment

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