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Source database (GenBank or RefSeq) File type

bCalAnn1_v1.p

Organism name:

Calypte anna (Anna's hummingbird)

Isolate:

BGI_N300

Sex:

female

BioSample:

SAMN02265252

BioProject:

PRJNA489139

Submitter:

Vertebrate Genomes Project

Date:

2019/05/16

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_003957555.2 (latest)

RefSeq assembly accession:

GCF_003957555.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in GenBank: chromosome MT

Data displayed for RefSeq version

WGS Project:

RRCD01

Assembly method:

FALCON v. 5.1.1; FALCON unzip v. 1.0.2; scaff10X v. git 4.28.2018; Bionano Solve v. DLS 3.2.1; Salsa2 HiC v. 2.0; smrtanalysis Arrow polishing & gap filling v. 5.1.0.26412; longranger align v. 2.2.2; freebayes v. 1.2.0; purge_haplotigs v. bit 7.10.2018; gEVAL manual curation v. 2018-09-07

Expected final version:

Genome coverage:

54.0x

Sequencing technology:

PacBio RSII; 10X Genomics linked reads; Bionano Genomics DLS; Arima Genomics HiC

Linked assembly:

GCA_003957575.1 (alternate pseudohaplotype of diploid)

IDs: 2926781 [UID] 10111698 [GenBank] 12997268 [RefSeq]

See Genome Information for Calypte anna

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_003957555.2	≠	GCF_003957555.1	bCalAnn1_v1.p	Chromosome	Latest GenBank, Latest RefSeq
GCA_003957555.1	n/a	n/a	bCalAnn1_v1.p	Chromosome	Replaced GenBank

Comment

This assembly represents the primary haplotype of the diploid genome Calypte anna and includes the chromosomes. The alternate haplotype sequences are in WGS project RRCE00000000.
In May 2019 the mitochondrial sequence (RRCD01000160) was added to this 01 version of RRCD00000000.

Global statistics

Total sequence length	1,059,687,259
Total ungapped length	1,043,590,483
Gaps between scaffolds	0
Number of scaffolds	159
Scaffold N50	74,081,004
Scaffold L50	4
Number of contigs	584
Contig N50	14,522,327
Contig L50	21
Total number of chromosomes and plasmids	33
Number of component sequences (WGS or clone)	159

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM012114.1	=	NC_044244.1	0
Chromosome 2	CM012115.1	=	NC_044245.1	0
Chromosome 3	CM012116.1	=	NC_044246.1	0
Chromosome 4	CM012117.1	=	NC_044247.1	0
Chromosome 4A	CM012143.1	=	NC_044248.1	0
Chromosome 4B	CM012144.1	=	NC_044249.1	0
Chromosome 5	CM012118.1	=	NC_044250.1	0
Chromosome 5A	CM012145.1	=	NC_044251.1	0
Chromosome 6	CM012119.1	=	NC_044252.1	0
Chromosome 7	CM012120.1	=	NC_044253.1	0
Chromosome 8	CM012121.1	=	NC_044254.1	0
Chromosome 9	CM012122.1	=	NC_044255.1	0
Chromosome 10	CM012123.1	=	NC_044256.1	0
Chromosome 11	CM012124.1	=	NC_044257.1	0
Chromosome 12	CM012125.1	=	NC_044258.1	0
Chromosome 13	CM012126.1	=	NC_044259.1	0
Chromosome 14	CM012127.1	=	NC_044260.1	0
Chromosome 15	CM012128.1	=	NC_044261.1	0
Chromosome 17	CM012129.1	=	NC_044262.1	0
Chromosome 18	CM012130.1	=	NC_044263.1	0
Chromosome 19	CM012131.1	=	NC_044264.1	0
Chromosome 20	CM012132.1	=	NC_044265.1	0
Chromosome 21	CM012133.1	=	NC_044266.1	0
Chromosome 22	CM012134.1	=	NC_044267.1	0
Chromosome 23	CM012135.1	=	NC_044268.1	0
Chromosome 24	CM012136.1	=	NC_044269.1	0
Chromosome 25	CM012137.1	=	NC_044270.1	0
Chromosome 26	CM012138.1	=	NC_044271.1	0
Chromosome 27	CM012139.1	=	NC_044272.1	0
Chromosome 28	CM012140.1	=	NC_044273.1	0
Chromosome Z	CM012142.1	=	NC_044274.1	0
Chromosome W	CM012146.1	=	NC_044276.1	0
Chromosome 33	CM012141.1	=	NC_044275.1	0
unplaced	n/a	n/a	n/a	126

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	1,059,687,259	159	1,043,590,483	74,081,004	425
Chromosome 1	197,551,010	1	196,964,676	197,551,010	30
Chromosome 2	151,342,139	1	150,798,913	151,342,139	26
Chromosome 3	114,810,999	1	114,624,523	114,810,999	15
Chromosome 4	18,597,117	1	18,596,917	18,597,117	2
Chromosome 4A	44,745,344	1	44,738,647	44,745,344	8
Chromosome 4B	23,291,945	1	23,231,746	23,291,945	3
Chromosome 5	16,645,885	1	15,912,553	16,645,885	5
Chromosome 5A	43,880,846	1	43,880,039	43,880,846	9
Chromosome 6	35,401,958	1	35,401,858	35,401,958	1
Chromosome 7	39,139,214	1	38,976,108	39,139,214	6
Chromosome 8	31,090,148	1	31,041,148	31,090,148	1
Chromosome 9	25,686,456	1	25,211,913	25,686,456	16
Chromosome 10	22,664,390	1	22,264,147	22,664,390	9
Chromosome 11	20,302,349	1	20,301,852	20,302,349	5
Chromosome 12	21,352,500	1	21,329,380	21,352,500	2
Chromosome 13	17,696,115	1	17,603,327	17,696,115	4
Chromosome 14	15,497,061	1	15,496,961	15,497,061	1
Chromosome 15	13,887,164	1	13,887,064	13,887,164	1
Chromosome 17	10,473,655	1	10,473,456	10,473,655	2
Chromosome 18	11,617,720	1	11,617,325	11,617,720	4
Chromosome 19	11,166,003	1	11,165,903	11,166,003	1
Chromosome 20	15,116,875	1	15,116,475	15,116,875	4
Chromosome 21	7,710,055	1	7,545,664	7,710,055	5
Chromosome 22	5,198,135	1	4,670,263	5,198,135	12
Chromosome 23	6,423,903	1	6,250,867	6,423,903	4
Chromosome 24	6,461,084	1	6,460,284	6,461,084	4
Chromosome 25	2,161,911	1	1,894,395	2,161,911	5
Chromosome 26	6,306,732	1	5,833,932	6,306,732	8
Chromosome 27	5,749,075	1	5,120,458	5,749,075	6
Chromosome 28	5,713,987	1	5,316,488	5,713,987	6
Chromosome Z	74,081,004	1	70,656,989	74,081,004	73
Chromosome W	26,448,777	1	20,236,973	26,448,777	92
Chromosome 33	1,888,140	1	1,401,477	1,888,140	7
unplaced	9,587,563	126	9,567,762	95,945	48

Assembly

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bCalAnn1_v1.p

See Genome Information for Calypte anna

Pathogen Detection Resources

There are 4 assemblies for this organism

History (Show revision history)

Comment

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