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Source database (GenBank or RefSeq) File type

fMegCyp1.pri

Organism name:

Megalops cyprinoides (Indo-Pacific tarpon)

Isolate:

fMegCyp1

BioSample:

SAMN12623619

BioProject:

PRJNA561967

Submitter:

Vertebrate Genomes Project

Date:

2020/06/23

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_013368585.1 (latest)

RefSeq assembly accession:

GCF_013368585.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Different: chromosome MT.

Data displayed for RefSeq version

WGS Project:

JABWDM01

Assembly method:

FALCON v. DX 2.0.0; FALCON-Unzip v. DX 1.1.0; purge_dups v. DX 19-08-10; scaff10X v. DX 2.0.3; bionano Solve v. DX 3.4.0; Salsa2 HiC v. DX 2.2.0; Arrow polishing and gap filling v. DX 7.0.1.1; Longranger Align v. DX 2.2.2.1; freebayes v. DX 19-07-11; gEVAL manual curation v. 2020-04-24; VGP assembly pipeline v. 1.6

Expected final version:

Genome coverage:

104.34x

Sequencing technology:

PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS

Linked assembly:

GCA_013368575.1 (alternate pseudohaplotype of diploid)

IDs: 7293011 [UID] 20129708 [GenBank] 22475728 [RefSeq]

See Genome Information for Megalops cyprinoides

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_013368585.1	≠	GCF_013368585.1	fMegCyp1.pri	Chromosome	Latest GenBank, Latest RefSeq

Comment

This assembly represents the principal haplotype of the diploid genome Megalops cyprinoides and includes the chromosomes. The alternate haplotype sequences are in WGS project JABWDN000000000

Global statistics

Total sequence length	959,258,046
Total ungapped length	958,974,948
Gaps between scaffolds	0
Number of scaffolds	207
Scaffold N50	38,251,172
Scaffold L50	10
Number of contigs	270
Contig N50	26,850,664
Contig L50	13
Total number of chromosomes and plasmids	26
Number of component sequences (WGS or clone)	207

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM023707.1	=	NC_050583.1	0
Chromosome 2	CM023708.1	=	NC_050584.1	0
Chromosome 3	CM023709.1	=	NC_050585.1	0
Chromosome 4	CM023710.1	=	NC_050586.1	0
Chromosome 5	CM023711.1	=	NC_050587.1	0
Chromosome 6	CM023712.1	=	NC_050588.1	0
Chromosome 7	CM023713.1	=	NC_050589.1	0
Chromosome 8	CM023714.1	=	NC_050590.1	0
Chromosome 9	CM023715.1	=	NC_050591.1	0
Chromosome 10	CM023716.1	=	NC_050592.1	0
Chromosome 11	CM023717.1	=	NC_050593.1	0
Chromosome 12	CM023718.1	=	NC_050594.1	0
Chromosome 13	CM023719.1	=	NC_050595.1	0
Chromosome 14	CM023720.1	=	NC_050596.1	0
Chromosome 15	CM023721.1	=	NC_050597.1	0
Chromosome 16	CM023722.1	=	NC_050598.1	0
Chromosome 17	CM023723.1	=	NC_050599.1	0
Chromosome 18	CM023724.1	=	NC_050600.1	0
Chromosome 19	CM023725.1	=	NC_050601.1	0
Chromosome 20	CM023726.1	=	NC_050602.1	0
Chromosome 21	CM023727.1	=	NC_050603.1	0
Chromosome 22	CM023728.1	=	NC_050604.1	0
Chromosome 23	CM023729.1	=	NC_050605.1	0
Chromosome 24	CM023730.1	=	NC_050606.1	0
Chromosome 25	CM023731.1	=	NC_050607.1	0
unplaced	n/a	n/a	n/a	181

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	959,241,634	206	958,958,536	38,251,172	63
Chromosome 1	74,015,632	1	74,014,832	74,015,632	7
Chromosome 2	70,001,344	1	70,001,131	70,001,344	3
Chromosome 3	55,203,283	1	55,203,070	55,203,283	3
Chromosome 4	47,001,600	1	47,001,600	47,001,600	0
Chromosome 5	41,873,896	1	41,873,896	41,873,896	0
Chromosome 6	41,381,886	1	41,381,886	41,381,886	0
Chromosome 7	40,507,214	1	40,507,114	40,507,214	1
Chromosome 8	40,246,399	1	40,208,515	40,246,399	4
Chromosome 9	39,133,747	1	39,133,647	39,133,747	1
Chromosome 10	38,251,172	1	38,249,158	38,251,172	4
Chromosome 11	37,986,697	1	37,913,016	37,986,697	2
Chromosome 12	37,498,192	1	37,498,092	37,498,192	1
Chromosome 13	35,068,607	1	35,068,107	35,068,607	3
Chromosome 14	34,633,793	1	34,633,593	34,633,793	2
Chromosome 15	34,497,453	1	34,497,353	34,497,453	1
Chromosome 16	33,928,989	1	33,928,389	33,928,989	3
Chromosome 17	31,541,435	1	31,541,135	31,541,435	3
Chromosome 18	31,241,604	1	31,240,704	31,241,604	4
Chromosome 19	29,990,318	1	29,990,118	29,990,318	1
Chromosome 20	28,667,512	1	28,667,512	28,667,512	0
Chromosome 21	28,234,707	1	28,234,507	28,234,707	2
Chromosome 22	27,865,698	1	27,865,198	27,865,698	4
Chromosome 23	25,163,115	1	25,127,982	25,163,115	3
Chromosome 24	24,589,123	1	24,588,823	24,589,123	3
Chromosome 25	20,413,686	1	20,285,626	20,413,686	6
unplaced	10,304,532	181	10,303,532	66,507	2

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fMegCyp1.pri

See Genome Information for Megalops cyprinoides

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear