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Source database (GenBank or RefSeq) File type

Cara_1.0

Organism name:

Coffea arabica (coffee)

Infraspecific name:

Cultivar: Caturra red

Isolate:

CCC135-36

Sex:

hermaphrodite

BioSample:

SAMN10272287

BioProject:

PRJNA497895

Submitter:

Johns Hopkins University

Date:

2018/11/08

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_003713225.1 (latest)

RefSeq assembly accession:

GCF_003713225.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome Pltd

Data displayed for RefSeq version

WGS Project:

RHJU01

Assembly method:

MaSuRCA v. 3.2.4; FALCON-Unzip v. 0.9

Expected final version:

yes

Genome coverage:

160.0x

Sequencing technology:

Illumina HiSeq; PacBio RSII; 10x GemCode

IDs: 2070241 [UID] 7777488 [GenBank] 7936378 [RefSeq]

See Genome Information for Coffea arabica

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_003713225.1	≠	GCF_003713225.1	Cara_1.0	Chromosome	Latest GenBank, Latest RefSeq

Comment

Global statistics

Total sequence length	1,094,446,607
Total ungapped length	1,092,174,254
Gaps between scaffolds	0
Number of scaffolds	2,833
Scaffold N50	42,465,768
Scaffold L50	11
Number of contigs	3,523
Contig N50	3,917,557
Contig L50	70
Total number of chromosomes and plasmids	23
Number of component sequences (WGS or clone)	2,833

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1c	CM011106.1	=	NC_039898.1	0
Chromosome 1e	CM011107.1	=	NC_039899.1	0
Chromosome 2c	CM011108.1	=	NC_039900.1	0
Chromosome 2e	CM011109.1	=	NC_039901.1	0
Chromosome 3c	CM011110.1	=	NC_039902.1	0
Chromosome 3e	CM011111.1	=	NC_039903.1	0
Chromosome 4c	CM011112.1	=	NC_039904.1	0
Chromosome 4e	CM011113.1	=	NC_039905.1	0
Chromosome 5e	CM011115.1	=	NC_039906.1	0
Chromosome 5c	CM011114.1	=	NC_039907.1	0
Chromosome 6c	CM011116.1	=	NC_039908.1	0
Chromosome 6e	CM011117.1	=	NC_039909.1	0
Chromosome 7c	CM011118.1	=	NC_039910.1	0
Chromosome 7e	CM011119.1	=	NC_039911.1	0
Chromosome 8e	CM011121.1	=	NC_039912.1	0
Chromosome 8c	CM011120.1	=	NC_039913.1	0
Chromosome 9c	CM011122.1	=	NC_039914.1	0
Chromosome 9e	CM011123.1	=	NC_039915.1	0
Chromosome 10e	CM011103.1	=	NC_039916.1	0
Chromosome 10c	CM011102.1	=	NC_039917.1	0
Chromosome 11c	CM011104.1	=	NC_039918.1	0
Chromosome 11e	CM011105.1	=	NC_039919.1	0
unplaced	n/a	n/a	n/a	2,810

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	1,094,291,418	2,832	1,092,019,065	42,465,768	690
Chromosome 1c	50,636,588	1	50,390,919	50,636,588	84
Chromosome 1e	48,756,970	1	48,609,792	48,756,970	38
Chromosome 2c	66,155,350	1	66,100,692	66,155,350	21
Chromosome 2e	71,633,312	1	71,554,356	71,633,312	23
Chromosome 3c	41,566,753	1	41,534,604	41,566,753	10
Chromosome 3e	37,271,464	1	37,248,251	37,271,464	11
Chromosome 4c	41,786,336	1	41,681,822	41,786,336	36
Chromosome 4e	42,507,429	1	42,448,497	42,507,429	17
Chromosome 5e	39,439,615	1	39,406,097	39,439,615	16
Chromosome 5c	45,899,693	1	45,869,263	45,899,693	11
Chromosome 6c	55,181,588	1	55,145,970	55,181,588	19
Chromosome 6e	52,240,725	1	52,076,117	52,240,725	50
Chromosome 7c	38,854,053	1	38,738,744	38,854,053	34
Chromosome 7e	35,392,230	1	35,338,381	35,392,230	13
Chromosome 8e	45,117,557	1	45,072,457	45,117,557	13
Chromosome 8c	39,008,463	1	38,907,890	39,008,463	34
Chromosome 9c	38,064,651	1	37,862,657	38,064,651	65
Chromosome 9e	35,839,895	1	35,797,978	35,839,895	12
Chromosome 10e	40,458,934	1	40,395,978	40,458,934	24
Chromosome 10c	45,429,025	1	45,285,966	45,429,025	45
Chromosome 11c	36,215,491	1	36,146,109	36,215,491	21
Chromosome 11e	42,465,768	1	42,367,916	42,465,768	26
unplaced	104,369,528	2,810	104,038,609	50,067	67

Assembly

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Cara_1.0

See Genome Information for Coffea arabica

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear