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rCheMyd1.pri

Organism name:
Chelonia mydas (Green sea turtle)
Isolate:
rCheMyd1
Sex:
male
BioSample:
SAMN12612360
BioProject:
PRJNA561941
Submitter:
Vertebrate Genomes Project
Date:
2020/11/05
Assembly type:
haploid (principal pseudohaplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_015237465.1 (replaced)
RefSeq assembly accession:
GCF_015237465.1 (replaced)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JADCQM01
Assembly method:
FALCON v. 1.3.0 2018.31.08-03.06; FALCON-Unzip v. 1.2.0 6.0.0.47841; purge_dups github v. ca23030ccf4254dfd2d3a5ea90d0eed41c24f88b ca23030ccf4254dfd2d3a5ea90d0eed41c24f88b; Scaff10x v. 4.1.0; Bionano Solve v. 3.2.1_04122018; Salsa2 HiC v. 2.2; Arrow polishing and gap filling v. SMRTLink7.0.1; Longranger Align v. 2.2.2; freebayes v. 1.3.1; gEVAL manual curation v. 2020-08-11; VGP assembly pipeline v. 1.6
Expected final version:
no
Genome coverage:
60.0x
Sequencing technology:
PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS
Linked assembly:
GCA_015220195.1 (alternate pseudohaplotype of diploid)

IDs: 8421141 [UID] 22919818 [GenBank] 23041098 [RefSeq]

See Genome Information for Chelonia mydas

Pathogen Detection Resources

There are 3 assemblies for this organism

See more

History (Show revision history)

Comment

Global statistics

Total sequence length2,134,593,249
Total ungapped length2,122,633,334
Gaps between scaffolds0
Number of scaffolds99
Scaffold N50134,428,053
Scaffold L505
Number of contigs393
Contig N5039,415,510
Contig L5017
Total number of chromosomes and plasmids29
Number of component sequences (WGS or clone)99

Supplemental Content

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Assembly Information

Related Information

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_015237515.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM026898.1=NC_051241.10
Chromosome 2CM026899.1=NC_051242.10
Chromosome 3CM026900.1=NC_051243.10
Chromosome 4CM026901.1=NC_051244.10
Chromosome 5CM026902.1=NC_051245.10
Chromosome 6CM026903.1=NC_051246.10
Chromosome 7CM026904.1=NC_051247.10
Chromosome 8CM026905.1=NC_051248.10
Chromosome 9CM026906.1=NC_051249.10
Chromosome 10CM026907.1=NC_051250.10
Chromosome 11CM026908.1=NC_051251.10
Chromosome 12CM026909.1=NC_051252.10
Chromosome 13CM026910.1=NC_051253.10
Chromosome 14CM026911.1=NC_051254.10
Chromosome 15CM026912.1=NC_051255.10
Chromosome 16CM026913.1=NC_051256.10
Chromosome 17CM026914.1=NC_051257.10
Chromosome 18CM026915.1=NC_051258.10
Chromosome 19CM026916.1=NC_051259.10
Chromosome 20CM026917.1=NC_051260.10
Chromosome 21CM026918.1=NC_051261.10
Chromosome 22CM026919.1=NC_051262.11
Chromosome 23CM026920.1=NC_051263.11
Chromosome 24CM026921.1=NC_051264.10
Chromosome 25CM026922.1=NC_051265.10
Chromosome 26CM026923.1=NC_051266.10
Chromosome 27CM026924.1=NC_051267.10
Chromosome 28CM026925.1=NC_051268.10
unplacedn/an/an/a68

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,134,576,752982,122,616,837134,428,0532940
Chromosome 1Assembled molecule348,265,4841346,419,776348,265,484230
Chromosome 2Assembled molecule262,513,8841262,495,146262,513,884110
Chromosome 3Assembled molecule204,120,5641204,117,330204,120,56470
Chromosome 4Assembled molecule142,324,1561142,091,230142,324,156200
Chromosome 5Assembled molecule134,428,0531130,749,827134,428,053350
Chromosome 6Assembled molecule133,272,6041133,164,527133,272,604110
Chromosome 7Assembled molecule123,872,8981123,859,865123,872,89880
Chromosome 8Assembled molecule106,505,5371106,501,114106,505,53730
Chromosome 9Assembled molecule101,620,5911101,620,291101,620,59130
Chromosome 10Assembled molecule84,054,250183,981,36884,054,25030
Chromosome 11Assembled molecule79,522,289178,403,76379,522,28960
Chromosome 12Assembled molecule44,456,234144,290,26744,456,234370
Chromosome 13Assembled molecule42,953,438141,783,27442,953,438120
Chromosome 14Assembled molecule42,626,581142,476,59242,626,58130
Chromosome 15Assembled molecule33,324,608133,324,60833,324,60800
Chromosome 16Assembled molecule25,690,524125,690,30125,690,52420
Chromosome 17Assembled molecule25,202,864125,202,76425,202,86410
Chromosome 18Assembled molecule23,386,534123,386,42123,386,53420
Chromosome 19Assembled molecule19,769,559119,769,55919,769,55900
Chromosome 20Assembled molecule19,256,569119,251,60319,256,56910
Chromosome 21Assembled molecule19,202,859119,110,74919,202,859140
Chromosome 22AllAssembled moleculeUnlocalized scaffolds18,905,96011,152,2537,753,70721118,462,19510,884,3837,577,81211,152,25311,152,2537,753,7071688000
Chromosome 23AllAssembled moleculeUnlocalized scaffolds18,880,3919,977,1748,903,21721116,864,6558,338,4428,526,2139,977,1749,977,1748,903,21729722000
Chromosome 24Assembled molecule18,854,909118,854,80918,854,90910
Chromosome 25Assembled molecule16,433,863116,433,76316,433,86310
Chromosome 26Assembled molecule16,225,734116,225,53416,225,73420
Chromosome 27Assembled molecule16,135,183116,134,93716,135,18320
Chromosome 28Assembled molecule7,864,90217,353,3697,864,902130
unplacedAssembled molecule4,905,730684,597,200130,366280
MoleculeTotal
Length
Mitochondrion MT16,497