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Source database (GenBank or RefSeq) File type

P.trichocarpa_v4.1

Organism name:

Populus trichocarpa (black cottonwood)

Isolate:

Nisqually-1

BioSample:

SAMN02953657

BioProject:

PRJNA10772

Submitter:

US DOE Joint Genome Institute (JGI

Date:

2022/10/20

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_000002775.4 (latest)

RefSeq assembly accession:

GCF_000002775.5 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome Pltd

Data displayed for RefSeq version

WGS Project:

AARH04

Assembly method:

MECAT v. 1

Genome coverage:

133.2x

Sequencing technology:

PacBio Sequel I

IDs: 14168241 [UID] 36804798 [GenBank] 37905198 [RefSeq]

See Genome Information for Populus trichocarpa

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_000002775.4	≠	GCF_000002775.5	P.trichocarpa_v4.1	Chromosome	Latest GenBank, Latest RefSeq
GCA_000002775.3	≠	GCF_000002775.4	Pop_tri_v3	Chromosome	Replaced GenBank, Replaced RefSeq
GCA_000002775.2	=	GCF_000002775.3	Poptr2_0	Chromosome	Replaced GenBank, Replaced RefSeq
GCA_000002775.1	≠	GCF_000002775.2	Poptr1_1	Chromosome	Replaced GenBank, Replaced RefSeq
GCA_000002775.1	≠	GCF_000002775.1	Poptr1_1	Chromosome	Replaced GenBank, Replaced RefSeq

Comment

Global statistics

Total sequence length	392,319,212
Total ungapped length	391,729,212
Gaps between scaffolds	59
Number of scaffolds	106
Scaffold N50	13,159,747
Scaffold L50	13
Number of contigs	106
Contig N50	13,159,747
Contig L50	13
Total number of chromosomes and plasmids	20
Number of component sequences (WGS or clone)	106

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM009290.2	=	NC_037285.2	0
Chromosome 2	CM009291.2	=	NC_037286.2	0
Chromosome 3	CM009292.2	=	NC_037287.2	0
Chromosome 4	CM009293.2	=	NC_037288.2	0
Chromosome 5	CM009294.2	=	NC_037289.2	0
Chromosome 6	CM009295.2	=	NC_037290.2	0
Chromosome 7	CM009296.2	=	NC_037291.2	0
Chromosome 8	CM009297.2	=	NC_037292.2	0
Chromosome 9	CM009298.2	=	NC_037293.2	0
Chromosome 10	CM009299.2	=	NC_037294.2	0
Chromosome 11	CM009300.2	=	NC_037295.2	0
Chromosome 12	CM009301.2	=	NC_037296.2	0
Chromosome 13	CM009302.2	=	NC_037297.2	0
Chromosome 14	CM009303.2	=	NC_037298.2	0
Chromosome 15	CM009304.2	=	NC_037299.2	0
Chromosome 16	CM009305.2	=	NC_037300.2	0
Chromosome 17	CM009306.2	=	NC_037301.2	0
Chromosome 18	CM009307.2	=	NC_037302.2	0
Chromosome 19	CM009308.2	=	NC_037303.2	0
unplaced	n/a	n/a	n/a	27

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Unspanned Gaps
All	392,162,179	105	391,572,179	13,159,747	59
Chromosome 1	49,788,581	9	49,708,581	14,205,426	8
Chromosome 2	25,242,375	3	25,222,375	17,986,707	2
Chromosome 3	21,678,634	3	21,658,634	15,673,697	2
Chromosome 4	24,140,038	5	24,100,038	13,204,931	4
Chromosome 5	24,981,103	6	24,931,103	13,159,747	5
Chromosome 6	27,516,652	5	27,476,652	14,756,608	4
Chromosome 7	15,561,420	4	15,531,420	8,046,760	3
Chromosome 8	19,195,260	4	19,165,260	6,290,853	3
Chromosome 9	12,987,399	2	12,977,399	9,589,514	1
Chromosome 10	22,799,081	4	22,769,081	21,564,276	3
Chromosome 11	19,288,771	9	19,208,771	4,237,288	8
Chromosome 12	15,589,050	6	15,539,050	3,877,099	5
Chromosome 13	15,705,617	5	15,665,617	4,701,927	4
Chromosome 14	17,801,709	2	17,791,709	15,331,824	1
Chromosome 15	15,231,745	1	15,231,745	15,231,745	0
Chromosome 16	14,619,816	1	14,619,816	14,619,816	0
Chromosome 17	15,189,755	3	15,169,755	13,218,559	2
Chromosome 18	16,264,003	4	16,234,003	9,015,640	3
Chromosome 19	15,623,655	2	15,613,655	13,981,573	1
unplaced	2,957,515	27	2,957,515	239,390	0

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P.trichocarpa_v4.1

See Genome Information for Populus trichocarpa

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

Comment

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Assembly Unit Name
Primary Assembly
non-nuclear