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Source database (GenBank or RefSeq) File type

fEcheNa1.1

This assembly has been replaced. See current version

Organism name:

Echeneis naucrates (live sharksucker)

BioSample:

SAMEA4966390

BioProject:

PRJEB31992

Submitter:

Date:

2019/04/11

Assembly type:

haploid (principal pseudohaplotype of diploid)

Assembly level:

Chromosome

Genome representation:

full

RefSeq category:

representative genome

GenBank assembly accession:

GCA_900963305.1 (replaced)

RefSeq assembly accession:

GCF_900963305.1 (latest)

RefSeq assembly and GenBank assembly identical:

no (hide details)

Only in RefSeq: chromosome MT

Data displayed for RefSeq version

WGS Project:

CAAHFO01

Genome coverage:

62x

Linked assembly:

GCA_900963505.1 (alternate pseudohaplotype of diploid)

IDs: 2581011 [UID] 9354218 [GenBank] 11148358 [RefSeq]

See Genome Information for Echeneis naucrates

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_900963305.2	n/a	n/a	fEcheNa1.2	Chromosome	Latest GenBank
GCA_900963305.1	≠	GCF_900963305.1	fEcheNa1.1	Chromosome	Latest RefSeq, Replaced GenBank

Comment

The assembly fEcheNa1.1 is based on 
62x PacBio data, 
100x coverage 10X Genomics Chromium data, BioNano data and 
112x coverage Dovetail Hi-C data generated at the Wellcome Sanger Institute. The assembly process included the following sequence of steps: initial ... PacBio assembly generation with Falcon-unzip, retained haplotig identification with Purge Haplotigs, 10X based scaffolding with scaff10x, BioNano hybrid-scaffolding, Hi-C based scaffolding with SALSA2, Arrow polishing, and two rounds of FreeBayes polishing. Finally, the assembly was analysed and manually improved using gEVAL. Chromosome-scale scaffolds are named by synteny to medaka.  more

Global statistics

Total sequence length	544,229,245
Total ungapped length	543,629,889
Gaps between scaffolds	0
Number of scaffolds	38
Scaffold N50	23,287,306
Scaffold L50	11
Number of contigs	178
Contig N50	12,371,513
Contig L50	17
Total number of chromosomes and plasmids	25
Number of component sequences (WGS or clone)	38

Molecule name	GenBank sequence		RefSeq sequence	Unlocalized sequences count
Chromosome 1	LR584042.1	=	NC_042511.1	0
Chromosome 2	LR584043.1	=	NC_042512.1	0
Chromosome 3	LR584044.1	=	NC_042513.1	0
Chromosome 4	LR584045.1	=	NC_042514.1	0
Chromosome 5	LR584046.1	=	NC_042515.1	0
Chromosome 6	LR584047.1	=	NC_042516.1	0
Chromosome 7	LR584048.1	=	NC_042517.1	0
Chromosome 8	LR584049.1	=	NC_042518.1	0
Chromosome 9	LR584050.1	=	NC_042519.1	0
Chromosome 10	LR584051.1	=	NC_042520.1	0
Chromosome 11	LR584052.1	=	NC_042521.1	0
Chromosome 12	LR584053.1	=	NC_042522.1	0
Chromosome 13	LR584054.1	=	NC_042523.1	0
Chromosome 14	LR584055.1	=	NC_042524.1	0
Chromosome 15	LR584056.1	=	NC_042525.1	0
Chromosome 16	LR584057.1	=	NC_042526.1	0
Chromosome 17	LR584058.1	=	NC_042527.1	0
Chromosome 18	LR584059.1	=	NC_042528.1	0
Chromosome 19	LR584060.1	=	NC_042529.1	0
Chromosome 20	LR584061.1	=	NC_042530.1	0
Chromosome 21	LR584062.1	=	NC_042531.1	0
Chromosome 22	LR584063.1	=	NC_042532.1	0
Chromosome 23	LR584064.1	=	NC_042533.1	0
Chromosome 24	LR584065.1	=	NC_042534.1	0
unplaced	n/a	n/a	n/a	13

Molecule	Total Length	Scaffold Count	Ungapped Length	Scaffold N50	Spanned Gaps
All	544,212,633	37	543,613,277	23,287,306	140
Chromosome 1	25,313,583	1	25,313,157	25,313,583	5
Chromosome 2	20,640,610	1	20,054,248	20,640,610	19
Chromosome 3	28,058,824	1	28,058,698	28,058,824	3
Chromosome 4	24,574,459	1	24,573,420	24,574,459	7
Chromosome 5	26,820,162	1	26,819,749	26,820,162	5
Chromosome 6	24,884,894	1	24,884,455	24,884,894	6
Chromosome 7	25,443,275	1	25,442,186	25,443,275	6
Chromosome 8	20,381,986	1	20,381,373	20,381,986	6
Chromosome 9	24,718,712	1	24,718,286	24,718,712	6
Chromosome 10	26,337,506	1	26,337,167	26,337,506	6
Chromosome 11	20,799,399	1	20,799,086	20,799,399	4
Chromosome 12	20,416,991	1	20,416,578	20,416,991	4
Chromosome 13	25,654,854	1	25,653,266	25,654,854	8
Chromosome 14	22,459,569	1	22,458,730	22,459,569	9
Chromosome 15	23,287,306	1	23,287,180	23,287,306	3
Chromosome 16	24,564,695	1	24,564,595	24,564,695	1
Chromosome 17	22,312,999	1	22,312,447	22,312,999	5
Chromosome 18	15,424,226	1	15,423,800	15,424,226	5
Chromosome 19	17,971,980	1	17,971,580	17,971,980	3
Chromosome 20	19,088,838	1	19,088,725	19,088,838	2
Chromosome 21	23,068,250	1	23,067,711	23,068,250	7
Chromosome 22	21,968,004	1	21,967,378	21,968,004	4
Chromosome 23	16,494,136	1	16,493,526	16,494,136	7
Chromosome 24	19,509,531	1	19,508,705	19,509,531	6
unplaced	4,017,844	13	4,017,231	1,379,785	3

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fEcheNa1.1

See Genome Information for Echeneis naucrates

Pathogen Detection Resources

There are 3 assemblies for this organism

History (Show revision history)

Comment

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Assembly Information

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Assembly Unit Name
Primary Assembly
non-nuclear