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Source database (GenBank or RefSeq) File type

USDA_OmykA_1.1

Organism name:

Oncorhynchus mykiss (rainbow trout)

Isolate:

Arlee

Sex:

male

BioSample:

SAMN14537335

BioProject:

PRJNA623027

Submitter:

USDA/ARS

Date:

2020/09/23

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_013265735.3 (latest)

RefSeq assembly accession:

GCF_013265735.2 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

JAAXML02

Assembly method:

canu v. 1.8

Expected final version:

yes

Genome coverage:

111.6x

Sequencing technology:

PacBio Sequel; BioNano; Hi-C

IDs: 8147571 [UID] 22263958 [GenBank] 22454928 [RefSeq]

See Genome Information for Oncorhynchus mykiss

Pathogen Detection Resources

There are 8 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_013265735.3	≠	GCF_013265735.2	USDA_OmykA_1.1	Chromosome	Latest GenBank, Latest RefSeq
GCA_013265735.1	n/a	n/a	USDA_OmykA_1.0	Chromosome	Replaced GenBank

Comment

Global statistics

Total sequence length	2,341,688,614
Total ungapped length	2,335,504,095
Gaps between scaffolds	196
Number of scaffolds	939
Scaffold N50	39,165,350
Scaffold L50	22
Number of contigs	1,229
Contig N50	15,579,713
Contig L50	41
Total number of chromosomes and plasmids	33
Number of component sequences (WGS or clone)	939

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM023219.2	=	NC_048565.1	0
Chromosome 2	CM023220.2	=	NC_048566.1	0
Chromosome 3	CM023221.2	=	NC_048567.1	0
Chromosome 4	CM023222.3	=	NC_048568.1	0
Chromosome 5	CM023223.2	=	NC_048569.1	0
Chromosome 6	CM023224.2	=	NC_048570.1	0
Chromosome 7	CM023225.2	=	NC_048571.1	0
Chromosome 8	CM023226.2	=	NC_048572.1	0
Chromosome 9	CM023227.2	=	NC_048573.1	0
Chromosome 10	CM023228.2	=	NC_048574.1	0
Chromosome 11	CM023229.2	=	NC_048575.1	0
Chromosome 12	CM023230.2	=	NC_048576.1	0
Chromosome 13	CM023231.2	=	NC_048577.1	0
Chromosome 14	CM023232.3	=	NC_048578.1	0
Chromosome 15	CM023233.2	=	NC_048579.1	0
Chromosome 16	CM023234.2	=	NC_048580.1	0
Chromosome 17	CM023235.2	=	NC_048581.1	0
Chromosome 18	CM023236.2	=	NC_048582.1	0
Chromosome 19	CM023237.2	=	NC_048583.1	0
Chromosome 20	CM023238.2	=	NC_048584.1	0
Chromosome 21	CM023239.2	=	NC_048585.1	0
Chromosome 22	CM023240.2	=	NC_048586.1	0
Chromosome 23	CM023241.2	=	NC_048587.1	0
Chromosome 24	CM023242.2	=	NC_048588.1	0
Chromosome 25	CM023243.3	=	NC_048589.1	0
Chromosome 26	CM023244.2	=	NC_048590.1	0
Chromosome 27	CM023245.2	=	NC_048591.1	0
Chromosome 28	CM023246.2	=	NC_048592.1	0
Chromosome 30	CM025857.1	=	NC_050570.1	0
Chromosome 31	CM025858.1	=	NC_050571.1	0
Chromosome 32	CM025859.1	=	NC_050572.1	0
Chromosome Y	CM023247.2	=	NC_048593.1	0
unplaced	n/a	n/a	n/a	710

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	2,341,671,972	938	2,335,487,453	39,165,350	290	196
Chromosome 1	95,772,356	7	95,743,219	83,226,387	9	6
Chromosome 2	103,806,877	7	103,790,513	82,828,707	6	6
Chromosome 3	85,311,031	6	85,277,622	46,482,775	3	5
Chromosome 4	46,841,314	5	46,840,914	40,563,000	0	4
Chromosome 5	100,798,064	10	100,680,662	28,768,673	16	9
Chromosome 6	101,096,859	6	100,626,063	88,429,459	8	5
Chromosome 7	90,918,291	17	90,880,545	49,809,632	9	16
Chromosome 8	91,622,588	7	91,323,900	41,360,296	8	6
Chromosome 9	79,455,637	9	79,363,821	24,807,824	12	8
Chromosome 10	87,811,138	11	87,800,638	52,097,511	19	10
Chromosome 11	86,280,908	6	86,180,708	76,314,972	12	5
Chromosome 12	102,853,256	9	102,773,961	84,129,367	11	8
Chromosome 13	73,332,040	12	73,149,045	18,519,485	9	11
Chromosome 14	43,310,081	4	43,255,751	40,340,268	5	3
Chromosome 15	81,569,517	10	81,446,600	20,109,673	9	9
Chromosome 16	78,541,548	12	78,321,895	29,388,532	6	11
Chromosome 17	95,212,422	15	95,052,078	16,085,929	10	14
Chromosome 18	74,657,750	6	74,389,212	60,751,460	20	5
Chromosome 19	67,237,266	8	66,898,294	40,495,664	8	7
Chromosome 20	46,616,863	4	46,358,629	43,511,432	9	3
Chromosome 21	64,935,962	12	64,868,826	16,458,478	9	11
Chromosome 22	52,474,311	4	52,461,710	46,461,921	5	3
Chromosome 23	62,880,378	5	62,879,978	52,868,405	0	4
Chromosome 24	45,930,806	5	45,874,323	39,165,350	6	4
Chromosome 25	47,542,702	1	47,487,283	47,542,702	6	0
Chromosome 26	51,113,553	5	51,102,873	31,452,838	8	4
Chromosome 27	51,556,237	4	51,537,410	47,493,638	4	3
Chromosome 28	43,716,683	2	43,714,445	41,998,117	3	1
Chromosome 30	46,327,593	4	46,297,441	37,130,194	1	3
Chromosome 31	44,108,611	2	44,101,947	38,576,488	5	1
Chromosome 32	41,837,469	5	41,788,647	38,767,676	4	4
Chromosome Y	47,748,341	8	47,733,997	33,340,795	2	7
unplaced	108,453,520	710	105,484,503	267,613	48	0

Assembly

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USDA_OmykA_1.1

See Genome Information for Oncorhynchus mykiss

Pathogen Detection Resources

There are 8 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear