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Source database (GenBank or RefSeq) File type

fAloSap1.pri

Organism name:

Alosa sapidissima (American shad)

Isolate:

fAloSap1

Sex:

male

BioSample:

SAMN18857608

BioProject:

PRJNA728145

Submitter:

Vertebrate Genomes Project

Date:

2021/05/25

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_018492685.1 (latest)

RefSeq assembly accession:

GCF_018492685.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

JAHDTN01

Assembly method:

Hifisam v. 0.14; Purge_dups v. 1.0.1; Salsa v. 2.2; Scaff10X v. 3.2.1; Bionano Solve v. 3.6.1; VGP pipeline v. 2.0; gEVAL manual curation v. 2021-04-21

Expected final version:

Genome coverage:

33.0x

Sequencing technology:

PacBio Sequel II HiFi; 10X Genomics linked reads; Bionano Genomics DLS; Arima Genomics Hi-C

Linked assembly:

GCA_018492705.1 (alternate pseudohaplotype of diploid)

IDs: 10117431 [UID] 26892258 [GenBank] 27280478 [RefSeq]

See Genome Information for Alosa sapidissima

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_018492685.1	≠	GCF_018492685.1	fAloSap1.pri	Chromosome	Latest GenBank, Latest RefSeq

Comment

Global statistics

Total sequence length	903,581,644
Total ungapped length	898,585,832
Gaps between scaffolds	0
Number of scaffolds	74
Scaffold N50	38,440,066
Scaffold L50	11
Number of contigs	1,713
Contig N50	1,565,278
Contig L50	165
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	74

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM031716.1	=	NC_055957.1	0
Chromosome 2	CM031717.1	=	NC_055958.1	0
Chromosome 3	CM031718.1	=	NC_055959.1	0
Chromosome 4	CM031719.1	=	NC_055960.1	0
Chromosome 5	CM031720.1	=	NC_055961.1	0
Chromosome 6	CM031721.1	=	NC_055962.1	1
Chromosome 7	CM031722.1	=	NC_055963.1	0
Chromosome 8	CM031723.1	=	NC_055964.1	0
Chromosome 9	CM031724.1	=	NC_055965.1	0
Chromosome 10	CM031725.1	=	NC_055966.1	0
Chromosome 11	CM031726.1	=	NC_055967.1	0
Chromosome 12	CM031727.1	=	NC_055968.1	0
Chromosome 13	CM031728.1	=	NC_055969.1	0
Chromosome 14	CM031729.1	=	NC_055970.1	0
Chromosome 15	CM031730.1	=	NC_055971.1	0
Chromosome 16	CM031731.1	=	NC_055972.1	0
Chromosome 17	CM031732.1	=	NC_055973.1	0
Chromosome 18	CM031733.1	=	NC_055974.1	0
Chromosome 19	CM031734.1	=	NC_055975.1	1
Chromosome 20	CM031735.1	=	NC_055976.1	0
Chromosome 21	CM031736.1	=	NC_055977.1	0
Chromosome 22	CM031737.1	=	NC_055978.1	0
Chromosome 23	CM031738.1	=	NC_055979.1	0
Chromosome 24	CM031739.1	=	NC_055980.1	2
unplaced	n/a	n/a	n/a	45

Molecule	Sequence Role	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	Assembled molecule	903,564,947	73	898,569,135	38,440,066	1,639	0
Chromosome 1	Assembled molecule	56,504,578	1	56,319,689	56,504,578	60	0
Chromosome 2	Assembled molecule	44,392,265	1	44,105,499	44,392,265	84	0
Chromosome 3	Assembled molecule	41,744,500	1	41,503,791	41,744,500	43	0
Chromosome 4	Assembled molecule	40,364,483	1	40,209,714	40,364,483	52	0
Chromosome 5	Assembled molecule	40,211,269	1	40,080,047	40,211,269	59	0
Chromosome 6	AllAssembled moleculeUnlocalized scaffolds	39,837,10339,814,91122,192	211	39,480,53339,458,34122,192	39,814,91139,814,91122,192	61610	000
Chromosome 7	Assembled molecule	39,350,476	1	39,238,837	39,350,476	73	0
Chromosome 8	Assembled molecule	38,912,301	1	38,705,165	38,912,301	67	0
Chromosome 9	Assembled molecule	38,593,806	1	38,328,062	38,593,806	80	0
Chromosome 10	Assembled molecule	38,583,819	1	38,487,407	38,583,819	67	0
Chromosome 11	Assembled molecule	38,440,066	1	38,240,049	38,440,066	55	0
Chromosome 12	Assembled molecule	38,278,902	1	37,934,979	38,278,902	66	0
Chromosome 13	Assembled molecule	37,159,020	1	37,042,719	37,159,020	50	0
Chromosome 14	Assembled molecule	36,832,652	1	36,718,001	36,832,652	52	0
Chromosome 15	Assembled molecule	35,536,770	1	35,354,784	35,536,770	85	0
Chromosome 16	Assembled molecule	35,201,806	1	35,038,099	35,201,806	77	0
Chromosome 17	Assembled molecule	34,941,941	1	34,481,269	34,941,941	41	0
Chromosome 18	Assembled molecule	32,793,614	1	32,500,724	32,793,614	91	0
Chromosome 19	AllAssembled moleculeUnlocalized scaffolds	32,502,17032,206,363295,807	211	32,422,12232,126,315295,807	32,206,36332,206,363295,807	61610	000
Chromosome 20	Assembled molecule	32,252,668	1	32,050,742	32,252,668	83	0
Chromosome 21	Assembled molecule	32,081,259	1	31,847,472	32,081,259	90	0
Chromosome 22	Assembled molecule	31,742,902	1	31,481,848	31,742,902	81	0
Chromosome 23	Assembled molecule	31,227,213	1	31,005,892	31,227,213	71	0
Chromosome 24	AllAssembled moleculeUnlocalized scaffolds	30,893,97530,811,94382,032	312	30,806,80230,725,27081,532	30,811,94330,811,94349,702	89881	000
unplaced	Assembled molecule	5,185,389	45	5,184,889	233,926	1	0

Assembly

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fAloSap1.pri

See Genome Information for Alosa sapidissima

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Information

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Global assembly definition

Assembly statistics

Assembly Unit Name
Primary Assembly
non-nuclear