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Omyk_1.0

Organism name:
Oncorhynchus mykiss (rainbow trout)
Isolate:
Swanson
Sex:
male
BioSample:
SAMN05449231
BioProject:
PRJNA335610
Submitter:
USDA/ARS
Date:
2017/06/02
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_002163495.1 (latest)
RefSeq assembly accession:
GCF_002163495.1 (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:
MSJN01
Assembly method:
NRGene DeNovoMagic v. 2.0; Dovetail HiRise v. 1.2-10-g00e396d
Expected final version:
yes
Genome coverage:
244.0x
Sequencing technology:
Illumina HiSeq

IDs: 1117251 [UID] 4547378 [GenBank] 4604578 [RefSeq]

See Genome Information for Oncorhynchus mykiss

There are 2 assemblies for this organism

See more

History (Show revision history)

Global statistics

Total sequence length2,178,999,613
Total assembly gap length251,515,894
Gaps between scaffolds7,839
Number of scaffolds139,800
Scaffold N501,670,138
Scaffold L50259
Number of contigs559,855
Contig N5013,827
Contig L5032,576
Total number of chromosomes and plasmids30
Number of component sequences (WGS or clone)139,800

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_002163505.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM007935.1=NC_035077.10
Chromosome 2CM007936.1=NC_035078.10
Chromosome 3CM007937.1=NC_035079.10
Chromosome 4CM007938.1=NC_035080.10
Chromosome 5CM007939.1=NC_035081.10
Chromosome 6CM007940.1=NC_035082.10
Chromosome 7CM007941.1=NC_035083.10
Chromosome 8CM007942.1=NC_035084.10
Chromosome 9CM007943.1=NC_035085.10
Chromosome 10CM007944.1=NC_035086.10
Chromosome 11CM007945.1=NC_035087.10
Chromosome 12CM007946.1=NC_035088.10
Chromosome 13CM007947.1=NC_035089.10
Chromosome 14CM007948.1=NC_035090.10
Chromosome 15CM007949.1=NC_035091.10
Chromosome 16CM007950.1=NC_035092.10
Chromosome 17CM007951.1=NC_035093.10
Chromosome 18CM007952.1=NC_035094.10
Chromosome 19CM007953.1=NC_035095.10
Chromosome 20CM007954.1=NC_035096.10
Chromosome 21CM007955.1=NC_035097.10
Chromosome 22CM007956.1=NC_035098.10
Chromosome 23CM007957.1=NC_035099.10
Chromosome 24CM007958.1=NC_035100.10
Chromosome 25CM007959.1=NC_035101.10
Chromosome 26CM007960.1=NC_035102.10
Chromosome 27CM007961.1=NC_035103.10
Chromosome 28CM007962.1=NC_035104.10
Chromosome 29CM007963.1=NC_035105.10
unplacedn/an/an/a131,931

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
All2,178,982,971139,7991,927,467,0771,670,138420,0557,839
Chromosome 184,884,01721678,422,7025,656,35512,793215
Chromosome 285,480,85122479,291,4092,592,78513,412223
Chromosome 384,937,46942775,442,7002,165,66917,246426
Chromosome 485,056,42124478,073,5663,249,42913,311243
Chromosome 592,202,55333483,251,2381,771,20216,033333
Chromosome 682,930,72337074,543,9672,271,84315,687369
Chromosome 779,763,77628872,212,6404,496,93513,728287
Chromosome 883,778,28422876,472,7122,981,86913,770227
Chromosome 968,467,73626161,322,8562,165,18312,026260
Chromosome 1071,056,19124965,032,5182,857,13712,399248
Chromosome 1180,278,30428772,528,6272,053,24114,308286
Chromosome 1289,655,00832081,293,3422,453,42115,481319
Chromosome 1366,052,24356155,886,378577,77419,322560
Chromosome 1480,358,72552969,430,1901,013,25720,991528
Chromosome 1563,368,16725656,706,2893,675,96012,285255
Chromosome 1670,896,07926363,672,9882,085,20312,557262
Chromosome 1776,527,83730969,239,9332,370,82513,194308
Chromosome 1861,719,22031154,311,681876,33513,725310
Chromosome 1959,576,37325053,637,0231,536,30311,675249
Chromosome 2041,412,01212637,829,1612,390,9777,109125
Chromosome 2151,929,58729044,915,9511,337,20512,543289
Chromosome 2248,550,14310244,997,8712,261,6467,257101
Chromosome 2349,041,8497346,395,5033,141,6626,19272
Chromosome 2440,362,47921634,929,9911,520,5298,279215
Chromosome 2582,601,65638573,333,2351,706,84915,805384
Chromosome 2640,182,52024035,404,4401,421,6389,677239
Chromosome 2745,316,87621439,627,5942,139,9828,893213
Chromosome 2840,943,90414737,569,5942,549,2936,735146
Chromosome 2942,631,53614838,740,2141,077,3627,044147
unplaced229,020,432131,931172,950,76412,03356,5780
MoleculeTotal
Length
Mitochondrion MT16,642
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