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Source database (GenBank or RefSeq) File type

ASM223467v1

Organism name:

Oryzias latipes (Japanese medaka)

Infraspecific name:

Strain: Hd-rR

Sex:

male

BioSample:

SAMN06689957

BioProject:

PRJNA325079

Submitter:

The University of Tokyo

Date:

2017/07/27

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_002234675.1 (latest)

RefSeq assembly accession:

GCF_002234675.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

Assembly method:

FALCON v. MAY-2015

Expected final version:

yes

Genome coverage:

0.99x

Sequencing technology:

PacBio

IDs: 1161541 [UID] 4843688 [GenBank] 5973118 [RefSeq]

See Genome Information for Oryzias latipes

Pathogen Detection Resources

There are 32 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_002234675.1	≠	GCF_002234675.1	ASM223467v1	Chromosome	Latest GenBank, Latest RefSeq

Comment

Genome-Annotation-Data

##Genome-Annotation-Data-START##Annotation Provider::NCBI
Annotation Status::Full annotation
Annotation Name::Oryzias latipes Annotation Release 103
Annotation Version::103
Annotation Pipeline::NCBI eukaryotic genome annotation pipeline
Annotation Software Version::8.0
Annotation Method::Best-placed RefSeq; Gnomon
Features Annotated::Gene; mRNA; CDS; ncRNA
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	734,057,086
Total ungapped length	733,566,086
Gaps between scaffolds	0
Number of scaffolds	25
Scaffold N50	31,218,526
Scaffold L50	11
Number of contigs	516
Contig N50	2,530,934
Contig L50	88
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	25

Molecule name	GenBank sequence		RefSeq sequence
Chromosome 1	CP020665.1	=	NC_019859.2
Chromosome 2	CP020666.1	=	NC_019860.2
Chromosome 3	CP020667.1	=	NC_019861.2
Chromosome 4	CP020668.1	=	NC_019862.2
Chromosome 5	CP020669.1	=	NC_019863.2
Chromosome 6	CP020670.1	=	NC_019864.2
Chromosome 7	CP020671.1	=	NC_019865.2
Chromosome 8	CP020672.1	=	NC_019866.2
Chromosome 9	CP020673.1	=	NC_019867.2
Chromosome 10	CP020674.1	=	NC_019868.2
Chromosome 11	CP020675.1	=	NC_019869.2
Chromosome 12	CP020676.1	=	NC_019870.2
Chromosome 13	CP020677.1	=	NC_019871.2
Chromosome 14	CP020678.1	=	NC_019872.2
Chromosome 15	CP020679.1	=	NC_019873.2
Chromosome 16	CP020680.1	=	NC_019874.2
Chromosome 17	CP020681.1	=	NC_019875.2
Chromosome 18	CP020682.1	=	NC_019876.2
Chromosome 19	CP020683.1	=	NC_019877.2
Chromosome 20	CP020684.1	=	NC_019878.2
Chromosome 21	CP020685.1	=	NC_019879.2
Chromosome 22	CP020686.1	=	NC_019880.2
Chromosome 23	CP020687.1	=	NC_019881.2
Chromosome 24	CP020688.1	=	NC_019882.2

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	734,040,372	24	733,549,372	31,218,526	491
Chromosome 1	37,713,152	1	37,689,152	37,713,152	24
Chromosome 2	25,379,070	1	25,358,070	25,379,070	21
Chromosome 3	38,248,663	1	38,223,663	38,248,663	25
Chromosome 4	32,868,862	1	32,848,862	32,868,862	20
Chromosome 5	33,205,099	1	33,186,099	33,205,099	19
Chromosome 6	32,246,747	1	32,234,747	32,246,747	12
Chromosome 7	34,573,382	1	34,548,382	34,573,382	25
Chromosome 8	26,239,357	1	26,216,357	26,239,357	23
Chromosome 9	33,399,407	1	33,377,407	33,399,407	22
Chromosome 10	31,218,526	1	31,196,526	31,218,526	22
Chromosome 11	28,210,532	1	28,196,532	28,210,532	14
Chromosome 12	30,543,476	1	30,520,476	30,543,476	23
Chromosome 13	33,825,776	1	33,804,776	33,825,776	21
Chromosome 14	30,598,983	1	30,581,983	30,598,983	17
Chromosome 15	30,476,034	1	30,456,034	30,476,034	20
Chromosome 16	32,958,677	1	32,929,677	32,958,677	29
Chromosome 17	31,792,230	1	31,771,230	31,792,230	21
Chromosome 18	30,918,796	1	30,888,796	30,918,796	30
Chromosome 19	25,472,880	1	25,459,880	25,472,880	13
Chromosome 20	25,942,153	1	25,924,153	25,942,153	18
Chromosome 21	31,148,813	1	31,120,813	31,148,813	28
Chromosome 22	28,976,614	1	28,960,614	28,976,614	16
Chromosome 23	24,400,806	1	24,384,806	24,400,806	16
Chromosome 24	23,682,337	1	23,670,337	23,682,337	12

Assembly

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ASM223467v1

See Genome Information for Oryzias latipes

Pathogen Detection Resources

There are 32 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear