유전체
Virgibacillus pantothenticus 3539T, Contig level genome assembly
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AccessionKAAAAFK01
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Submission date2025-03-11
Project Detail
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BioProject
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KAP241475 |
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프로젝트의 영문 제목
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Genome sequence assemblies of microbial strains collected by Korean Collection for Type Cultures (KCTC)
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프로젝트의 영문 설명
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The genome sequence assembly results using the Illumina HiSeq 2000 sequencing data of the microorganisms (BioProject KAP241464). The methods for data QC, assembly, and annotation are identical to those of BioProject KAP241424, so please refer to the README file of that BioProject.
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등록자의 영문 이름
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Jeong Haeyoung
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BioSample
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BioSample Accession ID
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KAS24112001 |
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BioSample name
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3539T
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Organism
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Virgibacillus pantothenticus
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NCBItaxonomyID
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1473
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Strain
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KCTC 3539
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Breed
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Cultivar
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Isolate
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Ecotype
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Host
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Lab Host
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Isolation Source
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soil
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Sample Division
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Bacteria
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DataSet
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Name of submitter's organization
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Korea Research Institute of Bioscience and Biotechnology
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Department of submitter
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Korea Bioinformation Center (KOBIC)
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Country of submitter
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Republic of Korea
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Street address
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82 Gwahak-ro
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City
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Yuseong-gu
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State / Province / Region
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Daejeon
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Zip Code (Postal Code)
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34098
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Contact person information
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Publication status
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Unpublished
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Publication
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Reference title
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Confirm update of existing submission
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No
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Existing KNA Accession ID
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Sequence Authors
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Sample processing protocol
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Data processing protocol
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Supplementary information
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Release Protocol?
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No
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Confirm full genome
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Yes (even for draft genomes or if a prokaryotic genome assembly may not incude plasmids)
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Description for subset of the genome
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Assembly state
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One or more chromosomes are still in multiple pieces and/or some sequences are not assembled into chromosomes
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Assembly level
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Contig
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Confirm de novo assembly
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Yes
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Reference assembly accession ID
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Confirm final version
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Yes
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Locus Tag Prefix
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Reference assembly accession
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Did you submit KRA data for this Genome submission?
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Yes
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KRA Accession ID
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Assembly date
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Sequencing platform - KRA Run
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Sequencing platform
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Sequencing platform
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Assembly method
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Haplotype phasing method
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Assembly name
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hasN
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No
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Did you randomly merge the sequences into a single sequence?
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No
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Do any of the N's represents gaps of completely unknown size gaps?
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Appropriate minimum number of Ns in a row (0-10) that represents a gap
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Representataion of Unknown Gaps
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What type of evidence was used to assert linkage across the assembly gaps?
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Annotation file format
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GFF
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Total length
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4696077
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Total contigs
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117
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Scaffolds or chromosomes Total length
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0
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Scaffolds or chromosomes Total contigs
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0
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Sequences belong to?
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Chromosome
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Organelle
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Plasmid
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Nucleotide Accession
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| File Name | Size | Type | Published | Download | |
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| 3539T.fasta | 4,777,664 4,777,664 | fasta | 2025-03-10 | ||
| 3539T.gff | 8,121,693 8,121,693 | gff | 2025-03-10 |
Contigs
Showing 1-10 of 117
| Accession | Title | Sequence Id | GC% | Length |
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| KAAAAFK010000001 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 1 length=1044227 depth=0.81x
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1 length=1044227 depth=0.81x
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37.62% | 1,044,227 bp |
| KAAAAFK010000002 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 2 length=664732 depth=1.20x
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2 length=664732 depth=1.20x
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37.52% | 664,732 bp |
| KAAAAFK010000003 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 3 length=341265 depth=1.00x
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3 length=341265 depth=1.00x
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37.57% | 341,265 bp |
| KAAAAFK010000004 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 4 length=323790 depth=1.27x
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4 length=323790 depth=1.27x
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37.62% | 323,790 bp |
| KAAAAFK010000005 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 5 length=293964 depth=0.84x
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5 length=293964 depth=0.84x
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37.60% | 293,964 bp |
| KAAAAFK010000006 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 6 length=255942 depth=1.21x
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6 length=255942 depth=1.21x
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36.60% | 255,942 bp |
| KAAAAFK010000007 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 7 length=197022 depth=1.09x
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7 length=197022 depth=1.09x
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35.95% | 197,022 bp |
| KAAAAFK010000008 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 8 length=185084 depth=1.56x
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8 length=185084 depth=1.56x
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37.78% | 185,084 bp |
| KAAAAFK010000009 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 9 length=147327 depth=0.91x
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9 length=147327 depth=0.91x
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36.86% | 147,327 bp |
| KAAAAFK010000010 |
Virgibacillus pantothenticus 3539T, Virgibacillus pantothenticus 10 length=120518 depth=0.93x
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10 length=120518 depth=0.93x
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37.40% | 120,518 bp |