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Gm3709_assembly_1.0

Organism name:
Geminocystis sp. NIES-3709 (cyanobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: NIES-3709
BioSample:
SAMD00027151
BioProject:
PRJDB3579
Submitter:
Toyohashi University of Technology
Date:
2015/03/18
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_001548115.1 (latest)
RefSeq assembly accession:
GCF_001548115.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
GS De Novo Assembler v. 2.8
Genome coverage:
81x
Sequencing technology:
MiSeq

IDs: 635531 [UID] 2859518 [GenBank] 3389878 [RefSeq]

See Genome Information for Geminocystis sp. NIES-3709

Pathogen Detection Resources

History (Show revision history)

Comment

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::10/08/2023 12:58:59
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::3,843
CDSs (total)::3,787
Genes (coding)::3,653
CDSs (with protein)::3,653
Genes (RNA)::56
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::3, 3, 3 (5S, 16S, 23S)
tRNAs::43
ncRNAs::4
Pseudo Genes (total)::134
CDSs (without protein)::134
Pseudo Genes (ambiguous residues)::0 of 134
Pseudo Genes (frameshifted)::55 of 134
Pseudo Genes (incomplete)::65 of 134
Pseudo Genes (internal stop)::47 of 134
Pseudo Genes (multiple problems)::30 of 134
CRISPR Arrays::3
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,426,059
Total ungapped length4,426,059
Total number of chromosomes and plasmids12

Supplemental Content

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Assembly Information

Related Information

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
Assembly Unit: Primary Assembly (GCF_001548125.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome AP014821.1=NZ_AP014821.1
Plasmid pGM3709_01AP014822.1=NZ_AP014822.1
Plasmid pGM3709_02AP014823.1=NZ_AP014823.1
Plasmid pGM3709_03AP014824.1=NZ_AP014824.1
Plasmid pGM3709_04AP014825.1=NZ_AP014825.1
Plasmid pGM3709_05AP014826.1=NZ_AP014826.1
Plasmid pGM3709_06AP014827.1=NZ_AP014827.1
Plasmid pGM3709_07AP014828.1=NZ_AP014828.1
Plasmid pGM3709_08AP014829.1=NZ_AP014829.1
Plasmid pGM3709_09AP014830.1=NZ_AP014830.1
Plasmid pGM3709_10AP014831.1=NZ_AP014831.1
Plasmid pGM3709_11AP014832.1=NZ_AP014832.1

Assembly statistics

MoleculeTotal
Length
All4,426,059
Chromosome 4,150,181
Plasmid pGM3709_0141,943
Plasmid pGM3709_0229,076
Plasmid pGM3709_0349,712
Plasmid pGM3709_0448,007
Plasmid pGM3709_0532,475
Plasmid pGM3709_0610,375
Plasmid pGM3709_0737,779
Plasmid pGM3709_0810,930
Plasmid pGM3709_095,754
Plasmid pGM3709_105,251
Plasmid pGM3709_114,576

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Geminocystis sp. NIES-3709Geminocystis sp. NIES-3709

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000332235.1Geminocystis herdmaniitype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type85.8625.6226.60

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna