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UCB_Xtro_10.0

Organism name:
Xenopus tropicalis (tropical clawed frog)
Infraspecific name:
Strain: Nigerian
Sex:
female
BioSample:
SAMN13041969
BioProject:
PRJNA577946
Submitter:
University of California, Berkeley
Date:
2019/11/14
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_000004195.4 (latest)
RefSeq assembly accession:
GCF_000004195.4 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in RefSeq: chromosome MT (in non-nuclear assembly-unit)
  • Data displayed for RefSeq version
WGS Project:
AAMC04
Assembly method:
Supernova v. 1.1.5; Canu v. 1.6-132-gf9284f8; DBG2OLC v. commit 1f7e752; 3D-DNA v. commit 2796c3b; quickmerge v. commit e4ea490
Expected final version:
yes
Genome coverage:
111.5x
Sequencing technology:
PacBio Sequel; Illumina HiSeq

IDs: 5323661 [UID] 15410788 [GenBank] 15549558 [RefSeq]

See Genome Information for Xenopus tropicalis

History (Show revision history)

Global statistics

Total sequence length1,451,301,209
Total ungapped length1,448,461,978
Gaps between scaffolds0
Number of scaffolds167
Scaffold N50153,961,319
Scaffold L505
Number of contigs851
Contig N5014,634,335
Contig L5032
Total number of chromosomes and plasmids11
Number of component sequences (WGS or clone)167

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_000004205.4)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM004443.2=NC_030677.20
Chromosome 2CM004444.2=NC_030678.20
Chromosome 3CM004445.2=NC_030679.20
Chromosome 4CM004446.2=NC_030680.20
Chromosome 5CM004447.2=NC_030681.20
Chromosome 6CM004448.2=NC_030682.20
Chromosome 7CM004449.2=NC_030683.20
Chromosome 8CM004450.2=NC_030684.20
Chromosome 9CM004451.2=NC_030685.20
Chromosome 10CM004452.2=NC_030686.20
unplacedn/an/an/a156

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All1,451,283,5991661,448,444,368153,961,3196840
Chromosome 1217,471,1661217,166,903217,471,166530
Chromosome 2181,034,9611180,685,972181,034,961540
Chromosome 3153,873,3571153,484,745153,873,357570
Chromosome 4153,961,3191153,611,740153,961,319720
Chromosome 5164,033,5751163,801,159164,033,575640
Chromosome 6154,486,3121154,173,499154,486,312540
Chromosome 7133,565,9301133,365,694133,565,930690
Chromosome 8147,241,5101146,733,756147,241,5101870
Chromosome 991,218,944191,132,21891,218,944430
Chromosome 1052,432,566152,330,42352,432,566230
unplaced1,963,9591561,958,25932,06480
MoleculeTotal
Length
Mitochondrion MT17,610
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