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Source database (GenBank or RefSeq) File type

rLacAgi1.pri

Organism name:

Lacerta agilis (lizards & snakes)

Isolate:

rLacAgi1

Sex:

female

BioSample:

SAMN12629509

BioProject:

PRJNA562018

Submitter:

Vertebrate Genomes Project

Date:

2019/12/31

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_009819535.1 (latest)

RefSeq assembly accession:

GCF_009819535.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Different: chromosome MT.

Data displayed for RefSeq version

WGS Project:

WNMS01

Assembly method:

FALCON v. DNANexus 1.9.0; FALCON-Unzip v. DNANexus 1.0.6; purge_haplotigs v. v1.0.3+ 1.Nov.2018; scaff10x v. 4.1.0; Bionano Solve DLS v. 3.2.1; Salsa HiC v. 2.2; Arrow smrtanalysis Pacbio polishing & gap filling v. 6.0.0.47841; freebayes Illumina polishing v. 1.3.1; gEVAL manual curation v. 2019-09-24; VGP assembly pipeline individual v. 1.5

Expected final version:

Genome coverage:

63.42x

Sequencing technology:

PacBio Sequel I CLR; Illumina NovaSeq; Arima Genomics Hi-C; Bionano Genomics DLS

Linked assembly:

GCA_009819545.1 (alternate pseudohaplotype of diploid)

IDs: 5428271 [UID] 15715258 [GenBank] 18002098 [RefSeq]

See Genome Information for Lacerta agilis

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_009819535.1	≠	GCF_009819535.1	rLacAgi1.pri	Chromosome	Latest GenBank, Latest RefSeq

Comment

This assembly represents the principal haplotype of the diploid genome Lacerta agilis and includes the chromosomes. The alternate haplotype sequences are in WGS project WNMT00000000

Global statistics

Total sequence length	1,391,404,169
Total ungapped length	1,387,913,091
Gaps between scaffolds	0
Number of scaffolds	29
Scaffold N50	86,565,987
Scaffold L50	7
Number of contigs	408
Contig N50	6,613,248
Contig L50	57
Total number of chromosomes and plasmids	21
Number of component sequences (WGS or clone)	29

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM020416.1	=	NC_046312.1	0
Chromosome 2	CM020417.1	=	NC_046313.1	0
Chromosome 3	CM020418.1	=	NC_046314.1	0
Chromosome 4	CM020419.1	=	NC_046315.1	0
Chromosome 5	CM020420.1	=	NC_046316.1	0
Chromosome 6	CM020421.1	=	NC_046317.1	0
Chromosome 7	CM020422.1	=	NC_046318.1	0
Chromosome 8	CM020423.1	=	NC_046319.1	0
Chromosome 9	CM020424.1	=	NC_046320.1	0
Chromosome 10	CM020425.1	=	NC_046321.1	0
Chromosome 11	CM020426.1	=	NC_046322.1	0
Chromosome 12	CM020427.1	=	NC_046323.1	0
Chromosome 13	CM020428.1	=	NC_046324.1	0
Chromosome 14	CM020429.1	=	NC_046325.1	0
Chromosome 15	CM020430.1	=	NC_046326.1	0
Chromosome 16	CM020431.1	=	NC_046327.1	0
Chromosome 17	CM020432.1	=	NC_046328.1	0
Chromosome 18	CM020433.1	=	NC_046329.1	0
Chromosome W	CM020435.1	=	NC_046330.1	0
Chromosome Z	CM020434.1	=	NC_046331.1	0
unplaced	n/a	n/a	n/a	8

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	1,391,387,079	28	1,387,896,001	86,565,987	379
Chromosome 1	133,750,839	1	133,504,032	133,750,839	34
Chromosome 2	120,754,861	1	120,535,283	120,754,861	35
Chromosome 3	118,060,892	1	117,752,198	118,060,892	25
Chromosome 4	100,704,004	1	100,507,244	100,704,004	20
Chromosome 5	95,883,647	1	95,765,217	95,883,647	31
Chromosome 6	95,499,011	1	94,876,192	95,499,011	28
Chromosome 7	86,565,987	1	86,469,612	86,565,987	15
Chromosome 8	84,102,018	1	83,847,386	84,102,018	21
Chromosome 9	74,758,939	1	74,754,426	74,758,939	27
Chromosome 10	70,688,303	1	70,632,667	70,688,303	17
Chromosome 11	61,599,656	1	61,564,408	61,599,656	18
Chromosome 12	56,660,093	1	56,576,024	56,660,093	16
Chromosome 13	52,485,139	1	52,388,375	52,485,139	11
Chromosome 14	51,720,411	1	50,753,223	51,720,411	24
Chromosome 15	43,910,048	1	43,908,648	43,910,048	9
Chromosome 16	40,449,263	1	40,434,148	40,449,263	14
Chromosome 17	40,056,199	1	39,968,542	40,056,199	6
Chromosome 18	12,095,641	1	12,093,628	12,095,641	13
Chromosome W	3,982,059	1	3,941,451	3,982,059	6
Chromosome Z	47,440,541	1	47,404,462	47,440,541	6
unplaced	219,528	8	218,835	25,995	3

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rLacAgi1.pri

See Genome Information for Lacerta agilis

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

Comment

Global statistics

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Assembly Unit Name
Primary Assembly
non-nuclear