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Source database (GenBank or RefSeq) File type

Manihot esculenta v6

This assembly has been replaced. See current version

Organism name:

Manihot esculenta (cassava)

Infraspecific name:

Cultivar: AM560-2

BioSample:

SAMN04116956

BioProject:

PRJNA234389

Submitter:

DOE-Joint Genome Institute

Date:

2016/06/10

Assembly level:

Chromosome

Genome representation:

full

GenBank assembly accession:

GCA_001659605.1 (replaced)

RefSeq assembly accession:

GCF_001659605.1 (replaced)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome Pltd

Data displayed for RefSeq version

WGS Project:

LTYI01

Assembly method:

Platanus v. 1.2.1

Genome coverage:

121x

Sequencing technology:

Illumina + CHICAGO

IDs: 755331 [UID] 3296098 [GenBank] 4681278 [RefSeq]

See Genome Information for Manihot esculenta

Pathogen Detection Resources

There are 12 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_001659605.2	≠	GCF_001659605.2	M.esculenta_v8	Chromosome	Latest GenBank, Latest RefSeq
GCA_001659605.1	≠	GCF_001659605.1	Manihot esculenta v6	Chromosome	Replaced GenBank, Replaced RefSeq

Comment

Global statistics

Total sequence length	582,278,977
Total ungapped length	495,629,498
Gaps between scaffolds	0
Number of scaffolds	2,020
Scaffold N50	28,119,335
Scaffold L50	10
Number of contigs	39,916
Contig N50	26,702
Contig L50	5,391
Total number of chromosomes and plasmids	19
Number of component sequences (WGS or clone)	39,916

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome LG1	CM004387.1	=	NC_035161.1	0
Chromosome LG2	CM004388.1	=	NC_035162.1	0
Chromosome LG3	CM004389.1	=	NC_035163.1	0
Chromosome LG4	CM004390.1	=	NC_035164.1	0
Chromosome LG5	CM004391.1	=	NC_035165.1	0
Chromosome LG6	CM004392.1	=	NC_035166.1	0
Chromosome LG7	CM004393.1	=	NC_035167.1	0
Chromosome LG8	CM004394.1	=	NC_035168.1	0
Chromosome LG9	CM004395.1	=	NC_035169.1	0
Chromosome LG10	CM004396.1	=	NC_035170.1	0
Chromosome LG11	CM004397.1	=	NC_035171.1	0
Chromosome LG12	CM004398.1	=	NC_035172.1	0
Chromosome LG13	CM004399.1	=	NC_035173.1	0
Chromosome LG14	CM004400.1	=	NC_035174.1	0
Chromosome LG15	CM004401.1	=	NC_035175.1	0
Chromosome LG16	CM004402.1	=	NC_035176.1	0
Chromosome LG17	CM004403.1	=	NC_035177.1	0
Chromosome LG18	CM004404.1	=	NC_035178.1	0
unplaced	n/a	n/a	n/a	2,001

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	582,117,524	2,019	495,468,045	28,119,335	37,896
Chromosome LG1	34,959,721	1	30,597,058	34,959,721	2,010
Chromosome LG2	32,417,782	1	28,256,824	32,417,782	2,100
Chromosome LG3	29,412,403	1	24,996,786	29,412,403	1,903
Chromosome LG4	28,735,499	1	24,645,291	28,735,499	1,654
Chromosome LG5	28,438,989	1	24,901,417	28,438,989	1,656
Chromosome LG6	27,939,960	1	24,257,400	27,939,960	1,517
Chromosome LG7	27,069,033	1	23,119,024	27,069,033	1,584
Chromosome LG8	34,000,172	1	28,773,391	34,000,172	2,192
Chromosome LG9	29,413,690	1	24,839,642	29,413,690	1,869
Chromosome LG10	26,335,333	1	22,363,800	26,335,333	1,582
Chromosome LG11	27,369,018	1	23,639,861	27,369,018	1,635
Chromosome LG12	31,596,830	1	26,657,450	31,596,830	2,062
Chromosome LG13	28,119,335	1	23,425,342	28,119,335	1,835
Chromosome LG14	24,855,542	1	21,745,964	24,855,542	1,479
Chromosome LG15	26,192,760	1	23,008,855	26,192,760	1,400
Chromosome LG16	28,979,753	1	24,935,706	28,979,753	1,652
Chromosome LG17	27,373,735	1	23,111,759	27,373,735	1,704
Chromosome LG18	25,231,592	1	20,612,137	25,231,592	1,990
unplaced	63,676,377	2,001	51,580,338	92,771	6,072

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Manihot esculenta v6

See Genome Information for Manihot esculenta

Pathogen Detection Resources

There are 12 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear