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Lsat_Salinas_v7

  • Anomalous assembly.
Organism name:
Lactuca sativa (garden lettuce)
Infraspecific name:
Cultivar: Salinas
BioSample:
SAMN01730979
BioProject:
PRJNA173551
Submitter:
Lettuce Genome Sequencing Consortium
Date:
2020/04/13
Assembly level:
Chromosome
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
GenBank assembly accession:
GCA_002870075.2 (replaced)
RefSeq assembly accession:
GCF_002870075.2 (replaced)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosomes MT and Pltd
  • Data displayed for RefSeq version
WGS Project:
NBSK01
Assembly method:
SOAPdenovo v. 2; Hi-Rise v. 1
Expected final version:
yes
Genome coverage:
72.0x
Sequencing technology:
Illumina HiSeq

IDs: 6720851 [UID] 18662618 [GenBank] 27997908 [RefSeq]

See Genome Information for Lactuca sativa

There are 5 assemblies for this organism

See more

History (Show revision history)

Comment

In May 2022 1494 sequences were suppressed because they were found to be contaminants.

Global statistics

Total sequence length2,391,578,241
Total ungapped length2,210,128,278
Gaps between scaffolds3,138
Number of scaffolds11,454
Scaffold N501,769,135
Scaffold L50386
Number of contigs168,554
Contig N5028,342
Contig L5023,480
Total number of chromosomes and plasmids11
Number of component sequences (WGS or clone)11,454

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
non-nuclear
Assembly Unit: Primary Assembly (GCF_002870085.2)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM022518.1=NC_056623.10
Chromosome 2CM022519.1=NC_056624.10
Chromosome 3CM022520.1=NC_056625.10
Chromosome 4CM022521.1=NC_056626.10
Chromosome 5CM022522.1=NC_056627.10
Chromosome 6CM022523.1=NC_056628.10
Chromosome 7CM022524.1=NC_056629.10
Chromosome 8CM022525.1=NC_056630.10
Chromosome 9CM022526.1=NC_056631.10
unplacedn/an/an/a8,314

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All2,391,062,15211,4522,209,612,1891,769,135157,1003,138
Chromosome 1214,790,941342198,426,9251,595,09613,988342
Chromosome 2217,164,977273200,747,8811,982,59713,913273
Chromosome 3257,910,700408237,397,1281,456,72316,669408
Chromosome 4377,529,803449351,083,4181,806,97323,779449
Chromosome 5339,640,866451313,866,3521,827,27521,759451
Chromosome 6193,110,136195178,862,6782,513,08712,563195
Chromosome 7195,685,357209181,573,3562,247,33412,877209
Chromosome 8309,698,552539285,356,9401,268,79919,846539
Chromosome 9204,289,203272188,668,8092,078,45913,330272
unplaced81,241,6178,31473,628,702289,4138,3760
MoleculeTotal
Length
All516,089
Mitochondrion MT363,324
Chloroplast Pltd152,765