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fDreCBz1.1

Organism name:
Danio rerio (zebrafish)
Infraspecific name:
Strain: Cooch Behar (CB)
BioSample:
SAMEA104026434
BioProject:
PRJEB38573
Submitter:
SC
Date:
2020/06/27
Assembly level:
Chromosome
Genome representation:
full
GenBank assembly accession:
GCA_903798165.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
CAIGQX01
Genome coverage:
54x

IDs: 7318241 [UID] 20213238 [GenBank]

See Genome Information for Danio rerio

There are 18 assemblies for this organism

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History (Show revision history)

Comment

The assembly fDreCBz1.1 is based on 54x 10X Genomics Chromium data generated at the Wellcome Sanger Institute. The assembly process included the following sequence of steps: initial assembly generation using Supernova 2.0.1, and retained haplotig identification with Purge Haplotigs. ... Finally, the assembly was analysed and manually improved using gEVAL and marker placement from the high density genetic map SATMAP (PUBMED: 23594743).  more

Global statistics

Total sequence length1,421,796,480
Total ungapped length1,203,939,388
Gaps between scaffolds0
Number of scaffolds46,554
Scaffold N5048,671,076
Scaffold L5013
Number of contigs144,175
Contig N5017,459
Contig L5019,310
Total number of chromosomes and plasmids25
Number of component sequences (WGS or clone)46,554

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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
Assembly Unit: Primary Assembly (GCA_903798164.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1LR812544.1n/an/a0
Chromosome 2LR812545.1n/an/a0
Chromosome 3LR812546.1n/an/a0
Chromosome 4LR812547.1n/an/a0
Chromosome 5LR812548.1n/an/a0
Chromosome 6LR812549.1n/an/a0
Chromosome 7LR812550.1n/an/a0
Chromosome 8LR812551.1n/an/a0
Chromosome 9LR812552.1n/an/a0
Chromosome 10LR812553.1n/an/a0
Chromosome 11LR812554.1n/an/a0
Chromosome 12LR812555.1n/an/a0
Chromosome 13LR812556.1n/an/a0
Chromosome 14LR812557.1n/an/a0
Chromosome 15LR812558.1n/an/a0
Chromosome 16LR812559.1n/an/a0
Chromosome 17LR812560.1n/an/a0
Chromosome 18LR812561.1n/an/a0
Chromosome 19LR812562.1n/an/a0
Chromosome 20LR812563.1n/an/a0
Chromosome 21LR812564.1n/an/a0
Chromosome 22LR812565.1n/an/a0
Chromosome 23LR812566.1n/an/a0
Chromosome 24LR812567.1n/an/a0
Chromosome 25LR812568.1n/an/a0
unplacedn/an/an/a46,529

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All1,421,796,48046,5541,203,939,38848,671,07697,6210
Chromosome 154,094,920144,301,32054,094,9203,7810
Chromosome 254,745,004145,110,23354,745,0043,6150
Chromosome 353,425,638145,574,44453,425,6383,4890
Chromosome 430,756,089126,245,63930,756,0892,0720
Chromosome 566,151,643154,629,55766,151,6434,3270
Chromosome 655,197,175145,212,05455,197,1753,6050
Chromosome 765,279,001154,538,40765,279,0014,2840
Chromosome 853,882,377145,293,79753,882,3773,6140
Chromosome 954,069,560144,746,71454,069,5603,9370
Chromosome 1043,961,439136,178,11043,961,4393,1910
Chromosome 1144,338,833136,642,77844,338,8333,3250
Chromosome 1244,184,125136,412,23544,184,1253,1570
Chromosome 1352,525,257142,676,62752,525,2573,5580
Chromosome 1445,574,980136,940,17045,574,9802,8150
Chromosome 1545,527,692138,192,40045,527,6923,2150
Chromosome 1653,235,204143,614,77453,235,2043,8840
Chromosome 1750,025,757141,609,27750,025,7573,5740
Chromosome 1848,671,076140,696,73348,671,0763,6070
Chromosome 1946,307,107138,290,61446,307,1073,2890
Chromosome 2051,549,904143,103,73451,549,9043,5100
Chromosome 2142,543,634135,375,37442,543,6342,7680
Chromosome 2232,929,056126,311,92632,929,0562,4080
Chromosome 2343,617,724135,918,68443,617,7242,8820
Chromosome 2441,577,383134,557,72741,577,3833,1970
Chromosome 2536,911,505129,330,24536,911,5052,6660
unplaced210,714,39746,529202,435,8157,24313,8510