BPBGC_Mater_1.0

This assembly has been replaced. See current version

Organism name:: Molothrus ater (birds)
Infraspecific name:: Breed: brown headed cowbird
Isolate:: BHLD 08-10-18
Sex:: female
BioSample:: SAMN14074414
BioProject:: PRJNA606972
Submitter:: Brood Parasitic Bird Genomes Consortium
Date:: 2020/04/20
Assembly level:: Chromosome
Genome representation:: full
GenBank assembly accession:: GCA_012460135.1 (replaced)
RefSeq assembly accession:: GCF_012460135.1 (replaced)
RefSeq assembly and GenBank assembly identical:: yes
WGS Project:: JAAQZI01
Assembly method:: Canu v. OCT-2019
Expected final version:: no
Genome coverage:: 200.0x
Sequencing technology:: PacBio Sequel II

IDs: 6847741 [UID] 18942388 [GenBank] 22290228 [RefSeq]

See Genome Information for Molothrus ater

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_012460135.3	≠	GCF_012460135.2	BPBGC_Mater_1.1	Chromosome	Latest GenBank, Latest RefSeq
GCA_012460135.2	n/a	n/a	BPBGC_Mater_1.1	Chromosome	GenBank suppressed
GCA_012460135.1	=	GCF_012460135.1	BPBGC_Mater_1.0	Chromosome	Replaced GenBank, Replaced RefSeq

Comment

The scaffolds and chromosomes for this genome were updated on October 2022. There was no change to the contigs.

Global statistics

Total sequence length	1,087,312,585
Total ungapped length	1,087,156,585
Gaps between scaffolds	34
Number of scaffolds	447
Scaffold N50	52,124,711
Scaffold L50	7
Number of contigs	691
Contig N50	13,273,966
Contig L50	25
Total number of chromosomes and plasmids	34
Number of component sequences (WGS or clone)	691

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	CM022840.1	=	NC_050478.1	9
Chromosome 1A	CM022872.1	=	NC_050508.1	2
Chromosome 2	CM022841.1	=	NC_050479.1	13
Chromosome 3	CM022842.1	=	NC_050480.1	10
Chromosome 4	CM022843.1	=	NC_050481.1	10
Chromosome 4A	CM022873.1	=	NC_050509.1	1
Chromosome 5	CM022844.1	=	NC_050482.1	1
Chromosome 6	CM022845.1	=	NC_050483.1	2
Chromosome 7	CM022846.1	=	NC_050484.1	1
Chromosome 8	CM022847.1	=	NC_050485.1	3
Chromosome 9	CM022848.1	=	NC_050486.1	1
Chromosome 10	CM022849.1	=	NC_050487.1	0
Chromosome 11	CM022850.1	=	NC_050488.1	3
Chromosome 12	CM022851.1	=	NC_050489.1	3
Chromosome 13	CM022852.1	=	NC_050490.1	3
Chromosome 14	CM022853.1	=	NC_050491.1	1
Chromosome 15	CM022854.1	=	NC_050492.1	1
Chromosome 16	CM022855.1	=	NC_050493.1	1
Chromosome 17	CM022856.1	=	NC_050494.1	0
Chromosome 18	CM022857.1	=	NC_050495.1	3
Chromosome 19	CM022858.1	=	NC_050496.1	1
Chromosome 20	CM022859.1	=	NC_050497.1	0
Chromosome 21	CM022860.1	=	NC_050498.1	1
Chromosome 22	CM022861.1	=	NC_050499.1	1
Chromosome 23	CM022862.1	=	NC_050500.1	0
Chromosome 24	CM022863.1	=	NC_050501.1	4
Chromosome 25	CM022864.1	=	NC_050502.1	1
Chromosome 26	CM022865.1	=	NC_050503.1	1
Chromosome 27	CM022866.1	=	NC_050504.1	1
Chromosome 28	CM022867.1	=	NC_050505.1	0
Chromosome 29	CM022868.1	=	NC_050506.1	0
Chromosome 30	CM022869.1	=	NC_050507.1	0
Chromosome W	CM022870.1	=	NC_050510.1	0
Chromosome Z	CM022871.1	=	NC_050511.1	0
unplaced	n/a	n/a	n/a	301

Molecule	Sequence Role	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps	Unspanned Gaps
All	Assembled molecule	1,087,312,585	447	1,087,156,585	52,124,711	244	34
Chromosome 1	AllAssembled moleculeUnlocalized scaffolds	116,655,007108,125,0648,529,943	1129	116,650,507108,120,5648,529,943	107,641,505107,641,5054,287,500	770	110
Chromosome 1A	AllAssembled moleculeUnlocalized scaffolds	72,934,32267,876,1085,058,214	422	72,931,82267,873,6085,058,214	66,499,93066,499,9302,977,869	330	110
Chromosome 2	AllAssembled moleculeUnlocalized scaffolds	154,362,307148,165,2386,197,069	14113	154,354,307148,159,2386,195,069	148,165,238148,165,238979,704	16124	000
Chromosome 3	AllAssembled moleculeUnlocalized scaffolds	112,596,135105,742,5456,853,590	12210	112,590,135105,736,5456,853,590	88,705,36588,705,3654,254,663	10100	110
Chromosome 4	AllAssembled moleculeUnlocalized scaffolds	73,418,43872,091,8711,326,567	14410	73,410,43872,084,3711,326,067	65,298,45965,298,459215,195	1091	330
Chromosome 4A	AllAssembled moleculeUnlocalized scaffolds	20,420,39320,348,72671,667	321	20,414,39320,342,72671,667	19,031,30619,031,30671,667	10100	110
Chromosome 5	AllAssembled moleculeUnlocalized scaffolds	63,028,27762,910,425117,852	211	63,026,77762,908,925117,852	62,910,42562,910,425117,852	330	000
Chromosome 6	AllAssembled moleculeUnlocalized scaffolds	36,097,41235,173,092924,320	422	36,092,41235,169,592922,820	34,375,91734,375,917547,745	853	110
Chromosome 7	AllAssembled moleculeUnlocalized scaffolds	38,386,17138,325,42360,748	321	38,384,67138,323,92360,748	37,635,85537,635,85560,748	110	110
Chromosome 8	AllAssembled moleculeUnlocalized scaffolds	31,689,78431,487,788201,996	743	31,683,28431,481,288201,996	24,974,17824,974,17866,542	770	330
Chromosome 9	AllAssembled moleculeUnlocalized scaffolds	25,892,37625,792,099100,277	541	25,889,37625,789,099100,277	24,985,97824,985,978100,277	000	330
Chromosome 10	Assembled molecule	20,624,487	3	20,621,987	16,889,225	1	2
Chromosome 11	AllAssembled moleculeUnlocalized scaffolds	21,656,05921,392,561263,498	743	21,651,05921,387,561263,498	19,009,26319,009,263102,485	440	330
Chromosome 12	AllAssembled moleculeUnlocalized scaffolds	21,457,73320,272,8021,184,931	413	21,454,23320,270,3021,183,931	20,272,80220,272,802970,914	752	000
Chromosome 13	AllAssembled moleculeUnlocalized scaffolds	18,926,79518,667,309259,486	413	18,924,29518,664,809259,486	18,667,30918,667,309141,652	550	000
Chromosome 14	AllAssembled moleculeUnlocalized scaffolds	16,706,04816,599,972106,076	211	16,704,54816,598,472106,076	16,599,97216,599,972106,076	330	000
Chromosome 15	AllAssembled moleculeUnlocalized scaffolds	14,540,66614,450,86989,797	431	14,537,16614,447,36989,797	12,881,27712,881,27789,797	330	220
Chromosome 16	AllAssembled moleculeUnlocalized scaffolds	226,081137,24988,832	541	222,581133,74988,832	39,78036,33988,832	110	330
Chromosome 17	Assembled molecule	11,708,190	2	11,706,690	11,290,804	1	1
Chromosome 18	AllAssembled moleculeUnlocalized scaffolds	13,120,17112,691,184428,987	633	13,115,67112,686,684428,987	4,963,5316,509,180167,299	550	220
Chromosome 19	AllAssembled moleculeUnlocalized scaffolds	11,542,81511,436,124106,691	321	11,539,81511,433,124106,691	10,765,45910,765,459106,691	440	110
Chromosome 20	Assembled molecule	15,354,615	2	15,353,115	13,898,302	1	1
Chromosome 21	AllAssembled moleculeUnlocalized scaffolds	8,227,3167,969,801257,515	211	8,224,8167,967,801257,015	7,969,8017,969,801257,515	541	000
Chromosome 22	AllAssembled moleculeUnlocalized scaffolds	5,415,6345,284,303131,331	211	5,412,6345,281,303131,331	5,284,3035,284,303131,331	660	000
Chromosome 23	Assembled molecule	7,350,323	1	7,348,323	7,350,323	4	0
Chromosome 24	AllAssembled moleculeUnlocalized scaffolds	8,408,5927,519,608888,984	514	8,404,5927,516,608887,984	7,519,6087,519,608250,176	862	000
Chromosome 25	AllAssembled moleculeUnlocalized scaffolds	3,660,4163,567,26993,147	211	3,657,9163,564,76993,147	3,567,2693,567,26993,147	550	000
Chromosome 26	AllAssembled moleculeUnlocalized scaffolds	7,181,3617,037,431143,930	211	7,180,3617,036,431143,930	7,037,4317,037,431143,930	220	000
Chromosome 27	AllAssembled moleculeUnlocalized scaffolds	6,088,9225,984,519104,403	211	6,087,4225,983,019104,403	5,984,5195,984,519104,403	330	000
Chromosome 28	Assembled molecule	6,144,979	1	6,141,979	6,144,979	6	0
Chromosome 29	Assembled molecule	3,050,374	1	3,047,374	3,050,374	6	0
Chromosome 30	Assembled molecule	955,067	1	951,567	955,067	7	0
Chromosome W	Assembled molecule	648,131	1	648,131	648,131	0	0
Chromosome Z	Assembled molecule	75,562,768	5	75,555,268	52,124,711	7	4
unplaced	Assembled molecule	43,274,420	301	43,236,920	478,003	75	0

Assembly

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BPBGC_Mater_1.0

See Genome Information for Molothrus ater

Pathogen Detection Resources

There are 2 assemblies for this organism

History (Show revision history)

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