U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



DD_fGirMul_XY1

Organism name:
Girardinichthys multiradiatus (bony fishes)
Isolate:
DD_20200921_A
Sex:
male
BioSample:
SAMN22242658
BioProject:
PRJNA768329
Submitter:
Max Planck Institute of Molecular Cell Biology and Genetics
Date:
2022/02/24
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_021462225.2 (latest)
RefSeq assembly accession:
GCF_021462225.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAJATY02
Assembly method:
DAmar v. e25dadb; purge_dups v. 1.0.1; bionano Solve v. 3.5.1; Salsa2 HiC v. 974589f; Longranger v. 2.2.0; pbmm2 v. 1.3.0; gcpp v. 1.9.0-SL-release-8.0.0+1-37-gd7b188d; bcftools v. 1.9; Freebayes v. 1.3.2; bwa v. 0.7.17-r1194; HiGlass v. 0.6.3
Expected final version:
no
Genome coverage:
33.0x
Sequencing technology:
PacBio Sequel I CLR; 10X Genomics linked reads; Arima Genomics Hi-C; Bionano Genomics DLS

IDs: 12223281 [UID] 32005208 [GenBank] 32524078 [RefSeq]

See Genome Information for Girardinichthys multiradiatus

History (Show revision history)

Comment

In the first version of this genome the authors had assembled the genome into a total of 24 chromosomes which they named by sorting the final scaffolds by length. This resulted in scaffold_20 of v01 being named as "chromosome ... 16". After deeper analysis the authors concluded that scaffold_20 was actually the combination of both sex chromosomes (X and Y). In this version of the assembly (JAJATY020000000) chromosome 16 is replaced by chromosomes X and Y.  more

Global statistics

Total sequence length1,150,004,004
Total ungapped length1,143,831,905
Gaps between scaffolds0
Number of scaffolds72
Scaffold N5047,419,401
Scaffold L5012
Number of contigs480
Contig N5013,818,222
Contig L5025
Total number of chromosomes and plasmids25
Number of component sequences (WGS or clone)72

Supplemental Content

PubMed articles for this assembly

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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 (GCF_021462235.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM038258.2=NC_061794.10
Chromosome 2CM038259.2=NC_061795.10
Chromosome 3CM038260.2=NC_061796.10
Chromosome 4CM038261.2=NC_061797.10
Chromosome 5CM038262.2=NC_061798.10
Chromosome 6CM038263.2=NC_061799.10
Chromosome 7CM038264.2=NC_061800.10
Chromosome 8CM038265.2=NC_061801.10
Chromosome 9CM038266.2=NC_061802.10
Chromosome 10CM038267.2=NC_061803.10
Chromosome 11CM038268.2=NC_061804.10
Chromosome 12CM038269.2=NC_061805.10
Chromosome 13CM038270.2=NC_061806.10
Chromosome 14CM038271.2=NC_061807.10
Chromosome 15CM038272.2=NC_061808.10
Chromosome 17CM038274.2=NC_061809.10
Chromosome 18CM038275.2=NC_061810.10
Chromosome 19CM038276.2=NC_061811.10
Chromosome 20CM038277.2=NC_061812.10
Chromosome 21CM038278.2=NC_061813.10
Chromosome 22CM038279.2=NC_061814.10
Chromosome 23CM038280.2=NC_061815.10
Chromosome 24CM038281.2=NC_061816.10
Chromosome XCM039440.1=NC_061817.10
Chromosome YCM039441.1=NC_061818.10
unplacedn/an/an/a47

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All1,150,004,004721,143,831,90547,419,4014080
Chromosome 150,037,963149,859,90750,037,96350
Chromosome 252,165,414152,094,32952,165,41480
Chromosome 349,293,849149,249,94749,293,84950
Chromosome 452,808,112152,644,06052,808,11250
Chromosome 553,524,953153,505,04653,524,953100
Chromosome 647,419,401147,041,04447,419,401130
Chromosome 750,015,724149,776,85150,015,72460
Chromosome 842,987,126142,980,24342,987,12660
Chromosome 950,424,115150,382,39550,424,11550
Chromosome 1038,405,005138,396,55138,405,00530
Chromosome 1145,397,636145,225,49845,397,63640
Chromosome 1253,588,805153,472,82553,588,80570
Chromosome 1343,759,016143,757,01143,759,01670
Chromosome 1446,654,526145,616,54746,654,526290
Chromosome 1540,858,928140,853,75840,858,92870
Chromosome 1730,793,471130,792,03130,793,47160
Chromosome 1852,235,030151,853,62352,235,03060
Chromosome 1942,509,470142,473,72142,509,47040
Chromosome 2053,595,138151,360,33453,595,13870
Chromosome 2142,588,670142,382,02742,588,67080
Chromosome 2245,871,266145,869,80645,871,26650
Chromosome 2351,973,169151,895,14851,973,16940
Chromosome 2426,817,872126,531,44426,817,872160
Chromosome X40,377,249140,359,54940,377,2491770
Chromosome Y41,696,737141,535,26741,696,737340
unplaced4,205,359473,922,943105,293210