U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



rGopFla2.mat.asm

Organism name:
Gopherus flavomarginatus (Mexican gopher tortoise)
Isolate:
rGopFla2
BioSample:
SAMN24199108
BioProject:
PRJNA794188
Submitter:
Vertebrate Genomes Project
Date:
2022/09/15
Assembly type:
haploid (maternal haplotype of diploid)
Assembly level:
Chromosome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_025201925.1 (latest)
RefSeq assembly accession:
GCF_025201925.1 (latest)
RefSeq assembly and GenBank assembly identical:
no (hide details)
  • Only in GenBank: chromosome MT
  • Data displayed for RefSeq version
WGS Project:
JAMKFC01
Assembly method:
TrioCanu v. 1.8+298; Arrow SMRTLink v. 7.0.1; purge_dups v. 0.0.3; scaff 10X v. 4.1; Bionano solve v. 3.3; Salsa v. 2.2.0; Arrow polishing + gap filling v. 7.0.1; Longranger v. 2.2.2; Freebayes v. 1.3.1; Merfin v. 1.0; gEVAL manuel curation v. 2021-11-02
Expected final version:
no
Genome coverage:
57.78x
Sequencing technology:
PacBio Sequel I CLR; Bionano Genomics DLS; Arima Genomics Hi-C; 10X Genomics linked reads
Linked assembly:
GCA_025201965.1 (paternal haplotype of diploid)

IDs: 13803561 [UID] 35913918 [GenBank] 36401648 [RefSeq]

See Genome Information for Gopherus flavomarginatus

Pathogen Detection Resources

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

Global statistics

Total sequence length2,460,542,086
Total ungapped length2,370,903,653
Gaps between scaffolds0
Number of scaffolds621
Scaffold N50162,938,067
Scaffold L505
Number of contigs2,483
Contig N506,917,139
Contig L5096
Total number of chromosomes and plasmids25
Number of component sequences (WGS or clone)621

Supplemental Content

Access the data

Assembly Information

Related Information

Recent activity

Clear Turn Off Turn On

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_025201935.1)
Molecule nameGenBank sequenceRefSeq sequenceUnlocalized
sequences count
Chromosome 1CM045960.1=NC_066617.16
Chromosome 2CM045961.1=NC_066618.10
Chromosome 3CM045962.1=NC_066619.10
Chromosome 4CM045963.1=NC_066620.10
Chromosome 5CM045964.1=NC_066621.10
Chromosome 6CM045965.1=NC_066622.10
Chromosome 7CM045966.1=NC_066623.10
Chromosome 8CM045967.1=NC_066624.10
Chromosome 9CM045968.1=NC_066625.10
Chromosome 10CM045969.1=NC_066626.10
Chromosome 11CM045970.1=NC_066627.12
Chromosome 12CM045971.1=NC_066628.15
Chromosome 13CM045972.1=NC_066629.18
Chromosome 14CM045973.1=NC_066630.10
Chromosome 15CM045974.1=NC_066631.10
Chromosome 16CM045975.1=NC_066632.11
Chromosome 17CM045976.1=NC_066633.10
Chromosome 18CM045977.1=NC_066634.10
Chromosome 19CM045978.1=NC_066635.10
Chromosome 20CM045979.1=NC_066636.10
Chromosome 21CM045980.1=NC_066637.10
Chromosome 22CM045981.1=NC_066638.10
Chromosome 23CM045982.1=NC_066639.10
Chromosome 24CM045983.1=NC_066640.10
Chromosome 25CM045984.1=NC_066641.10
unplacedn/an/an/a574

Assembly statistics

MoleculeSequence RoleTotal
Length		Scaffold
Count		Ungapped
Length		Scaffold
N50		Spanned
Gaps		Unspanned
Gaps
AllAssembled molecule2,460,542,0866212,370,903,653162,938,0671,8620
Chromosome 1AllAssembled moleculeUnlocalized scaffolds381,620,011380,496,6931,123,318716378,657,335377,968,740688,595380,496,693380,496,693774,1032362333000
Chromosome 2Assembled molecule303,241,2781300,504,377303,241,2781320
Chromosome 3Assembled molecule288,984,0841286,308,720288,984,0841300
Chromosome 4Assembled molecule218,343,3071216,005,505218,343,3071090
Chromosome 5Assembled molecule162,938,0671160,933,214162,938,0671070
Chromosome 6Assembled molecule140,754,6631135,200,323140,754,6631210
Chromosome 7Assembled molecule117,497,8611115,036,224117,497,861750
Chromosome 8Assembled molecule115,426,5821110,864,191115,426,582770
Chromosome 9Assembled molecule93,138,201190,349,37193,138,201440
Chromosome 10Assembled molecule83,026,025182,135,17983,026,025240
Chromosome 11AllAssembled moleculeUnlocalized scaffolds55,616,50853,454,5752,161,93331254,266,85152,202,5352,064,31653,454,57553,454,5751,797,08573676000
Chromosome 12AllAssembled moleculeUnlocalized scaffolds53,472,02553,032,624439,40161547,398,84846,960,239438,60953,032,62453,032,624117,3891231194000
Chromosome 13AllAssembled moleculeUnlocalized scaffolds46,536,62929,404,40117,132,22891841,182,61327,072,51014,110,10329,404,40129,404,4014,770,6301214378000
Chromosome 14Assembled molecule45,050,073144,702,97845,050,07390
Chromosome 15Assembled molecule33,882,866133,808,24433,882,86650
Chromosome 16AllAssembled moleculeUnlocalized scaffolds28,248,85128,177,78371,06821124,644,73524,573,66771,06828,177,78328,177,78371,06848480000
Chromosome 17Assembled molecule26,723,630126,723,33226,723,63030
Chromosome 18Assembled molecule25,971,409121,693,30725,971,409400
Chromosome 19Assembled molecule25,785,801125,199,79925,785,801150
Chromosome 20Assembled molecule25,724,407122,592,03125,724,407410
Chromosome 21Assembled molecule24,245,138124,193,77124,245,138150
Chromosome 22Assembled molecule19,986,813119,885,49419,986,81380
Chromosome 23Assembled molecule18,708,493113,368,59618,708,493590
Chromosome 24Assembled molecule16,991,957116,949,71216,991,95790
Chromosome 25Assembled molecule15,998,561115,998,06815,998,56160
unplacedAssembled molecule92,628,84657462,300,8351,801,1742320