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Source database (GenBank or RefSeq) File type

HU_Pman_2.1.3

Organism name:

Peromyscus maniculatus bairdii (prairie deer mouse)

Isolate:

Sex:

female

BioSample:

SAMN10150431

BioProject:

PRJNA494228

Submitter:

Harvard University / Howard Hughes Medical Institute

Date:

2020/09/17

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_003704035.3 (latest)

RefSeq assembly accession:

GCF_003704035.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

RCWR01

Assembly method:

AllPaths v. 2016-03

Expected final version:

yes

Genome coverage:

115.0x

Sequencing technology:

Illumina HiSeq

IDs: 8338201 [UID] 22735128 [GenBank] 27394048 [RefSeq]

See Genome Information for Peromyscus maniculatus

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_003704035.3	≠	GCF_003704035.1	HU_Pman_2.1.3	Chromosome	Latest GenBank, Latest RefSeq
GCA_003704035.1	n/a	n/a	HU_Pman_2.1	Chromosome	Replaced GenBank

Comment

In Sept 2020 the chromosomes CM010879-CM010902 were updated, updating the assembly to HU_Pman_2.1.3 (GCA_003704035.3)

Global statistics

Total sequence length	2,512,439,762
Total ungapped length	2,387,893,283
Gaps between scaffolds	0
Number of scaffolds	8,524
Scaffold N50	115,033,041
Scaffold L50	9
Number of contigs	155,966
Contig N50	30,111
Contig L50	23,323
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	155,966

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM010879.2	=	NC_056008.1	0
Chromosome 2	CM010880.2	=	NC_056009.1	0
Chromosome 3	CM010881.2	=	NC_056010.1	0
Chromosome 4	CM010882.2	=	NC_056011.1	0
Chromosome 5	CM010883.2	=	NC_056012.1	0
Chromosome 6	CM010884.2	=	NC_056013.1	0
Chromosome 7	CM010885.2	=	NC_056014.1	0
Chromosome 8	CM010886.1	=	NC_056015.1	0
Chromosome 9	CM010887.2	=	NC_056016.1	0
Chromosome 10	CM010888.2	=	NC_056017.1	0
Chromosome 11	CM010889.2	=	NC_056018.1	0
Chromosome 12	CM010890.2	=	NC_056019.1	0
Chromosome 13	CM010891.2	=	NC_056020.1	0
Chromosome 14	CM010892.2	=	NC_056021.1	0
Chromosome 15	CM010893.2	=	NC_056022.1	0
Chromosome 16	CM010894.2	=	NC_056023.1	0
Chromosome 17	CM010895.2	=	NC_056024.1	0
Chromosome 18	CM010896.2	=	NC_056025.1	0
Chromosome 19	CM010897.2	=	NC_056026.1	0
Chromosome 20	CM010898.1	=	NC_056027.1	0
Chromosome 21	CM010899.2	=	NC_056028.1	0
Chromosome 22	CM010900.2	=	NC_056029.1	0
Chromosome 23	CM010901.2	=	NC_056030.1	0
Chromosome X	CM010902.2	=	NC_056031.1	0
unplaced	n/a	n/a	n/a	8,499

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	2,512,423,440	8,523	2,387,876,961	115,033,041	147,442
Chromosome 1	193,310,054	1	182,273,844	193,310,054	12,188
Chromosome 2	168,715,211	1	161,552,859	168,715,211	9,114
Chromosome 3	161,151,335	1	153,809,844	161,151,335	9,612
Chromosome 4	154,712,973	1	148,929,607	154,712,973	8,700
Chromosome 5	139,359,418	1	133,873,944	139,359,418	8,123
Chromosome 6	134,808,455	1	129,084,641	134,808,455	6,590
Chromosome 7	119,402,526	1	114,346,630	119,402,526	7,258
Chromosome 8	108,536,456	1	104,708,464	108,536,456	5,967
Chromosome 9	115,033,041	1	109,962,543	115,033,041	6,056
Chromosome 10	98,965,349	1	95,478,098	98,965,349	4,743
Chromosome 11	94,517,625	1	89,618,817	94,517,625	5,701
Chromosome 12	83,173,863	1	79,756,731	83,173,863	4,003
Chromosome 13	65,685,024	1	63,738,492	65,685,024	3,166
Chromosome 14	88,525,187	1	84,602,123	88,525,187	4,720
Chromosome 15	78,974,444	1	75,710,837	78,974,444	4,159
Chromosome 16	63,928,082	1	61,998,086	63,928,082	3,156
Chromosome 17	63,635,831	1	61,605,922	63,635,831	3,035
Chromosome 18	46,762,208	1	44,816,244	46,762,208	2,890
Chromosome 19	79,940,924	1	77,301,876	79,940,924	4,219
Chromosome 20	70,296,724	1	67,582,413	70,296,724	4,044
Chromosome 21	70,257,074	1	66,600,603	70,257,074	5,249
Chromosome 22	54,709,200	1	52,669,865	54,709,200	3,274
Chromosome 23	47,673,962	1	44,985,031	47,673,962	3,681
Chromosome X	134,369,076	1	125,512,925	134,369,076	6,772
unplaced	75,979,398	8,499	57,356,522	31,282	11,022

Assembly

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HU_Pman_2.1.3

See Genome Information for Peromyscus maniculatus

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

Comment

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Assembly Unit Name
Primary Assembly
non-nuclear