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Source database (GenBank or RefSeq) File type

fAcaLat1.1

Organism name:

Acanthopagrus latus (yellowfin seabream)

Isolate:

v.2019

BioSample:

SAMN16236878

BioProject:

PRJEB40700

Submitter:

Date:

2020/10/12

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_904848185.1 (latest)

RefSeq assembly accession:

GCF_904848185.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

CAJHBW01

Genome coverage:

60x

Linked assembly:

GCA_904848175.1 (alternate pseudohaplotype of diploid)

IDs: 8245011 [UID] 22519528 [GenBank] 22692388 [RefSeq]

See Genome Information for Acanthopagrus latus

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_904848185.1	≠	GCF_904848185.1	fAcaLat1.1	Chromosome	Latest GenBank, Latest RefSeq

Comment

The assembly fAcaLat1.1 is based on 60x Illumina genome survey data, 106x Illumina Hi-C data, 282x PacBio data, and 100x Illumina transcriptome data generated at Nextomics Biosciences. The assembly process included the following sequence of steps: initial PacBio assembly ... generation with Falcon-unzip, retained haplotig separation with purge_dups, 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 GCA_900880675.1 assembly of Sparus aurata.  more

Global statistics

Total sequence length	685,144,197
Total ungapped length	685,129,297
Gaps between scaffolds	0
Number of scaffolds	66
Scaffold N50	30,717,905
Scaffold L50	11
Number of contigs	215
Contig N50	14,880,455
Contig L50	18
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	66

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	LR884460.1	=	NC_051039.1	0
Chromosome 2	LR884461.1	=	NC_051040.1	0
Chromosome 3	LR884462.1	=	NC_051041.1	0
Chromosome 4	LR884463.1	=	NC_051042.1	0
Chromosome 5	LR884464.1	=	NC_051043.1	0
Chromosome 6	LR884465.1	=	NC_051044.1	0
Chromosome 7	LR884466.1	=	NC_051045.1	0
Chromosome 8	LR884467.1	=	NC_051046.1	0
Chromosome 9	LR884468.1	=	NC_051047.1	0
Chromosome 10	LR884469.1	=	NC_051048.1	0
Chromosome 11	LR884470.1	=	NC_051049.1	0
Chromosome 12	LR884471.1	=	NC_051050.1	0
Chromosome 13	LR884472.1	=	NC_051051.1	0
Chromosome 14	LR884473.1	=	NC_051052.1	0
Chromosome 15	LR884474.1	=	NC_051053.1	0
Chromosome 16	LR884475.1	=	NC_051054.1	0
Chromosome 17	LR884476.1	=	NC_051055.1	0
Chromosome 18	LR884477.1	=	NC_051056.1	0
Chromosome 19	LR884478.1	=	NC_051057.1	0
Chromosome 20	LR884479.1	=	NC_051058.1	0
Chromosome 21	LR884480.1	=	NC_051059.1	0
Chromosome 22	LR884481.1	=	NC_051060.1	0
Chromosome 23	LR884482.1	=	NC_051061.1	0
Chromosome 24	LR884483.1	=	NC_051062.1	0
unplaced	n/a	n/a	n/a	41

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	685,127,588	65	685,112,688	30,717,905	149
Chromosome 1	33,527,824	1	33,527,224	33,527,824	6
Chromosome 2	32,017,321	1	32,016,821	32,017,321	5
Chromosome 3	26,361,780	1	26,361,480	26,361,780	3
Chromosome 4	35,910,746	1	35,910,146	35,910,746	6
Chromosome 5	31,400,991	1	31,400,591	31,400,991	4
Chromosome 6	34,040,639	1	34,039,539	34,040,639	11
Chromosome 7	31,194,941	1	31,194,341	31,194,941	6
Chromosome 8	31,340,161	1	31,339,361	31,340,161	8
Chromosome 9	30,717,905	1	30,717,105	30,717,905	8
Chromosome 10	22,406,376	1	22,405,576	22,406,376	8
Chromosome 11	31,321,781	1	31,320,681	31,321,781	11
Chromosome 12	26,679,254	1	26,678,454	26,679,254	8
Chromosome 13	28,107,325	1	28,106,525	28,107,325	8
Chromosome 14	22,160,155	1	22,159,855	22,160,155	3
Chromosome 15	28,960,280	1	28,959,680	28,960,280	6
Chromosome 16	25,616,698	1	25,616,398	25,616,698	3
Chromosome 17	31,841,870	1	31,841,170	31,841,870	7
Chromosome 18	31,735,906	1	31,735,306	31,735,906	6
Chromosome 19	24,955,350	1	24,954,650	24,955,350	7
Chromosome 20	24,488,360	1	24,487,760	24,488,360	6
Chromosome 21	28,391,644	1	28,390,844	28,391,644	8
Chromosome 22	26,170,885	1	26,170,685	26,170,885	2
Chromosome 23	25,352,080	1	25,351,580	25,352,080	5
Chromosome 24	16,042,954	1	16,042,554	16,042,954	4
unplaced	4,384,362	41	4,384,362	162,772	0

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fAcaLat1.1

See Genome Information for Acanthopagrus latus

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

Comment

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Assembly statistics

Assembly Unit Name
Primary Assembly
non-nuclear