유전체
Metabacillus indicus 3880, Contig level genome assembly
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AccessionKAAAAFH01
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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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KAS24111998 |
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BioSample name
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3880
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Organism
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Metabacillus indicus
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NCBItaxonomyID
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246786
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Strain
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KCTC 3880
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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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jeotgal (a traditional Korean fermented seafood)
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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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79 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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34095
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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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4071996
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Total contigs
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59
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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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| 3880.fasta | 4,141,579 4,141,579 | fasta | 2025-03-10 | ||
| 3880.gff | 7,406,932 7,406,932 | gff | 2025-03-10 |
Contigs
Showing 1-10 of 59
| Accession | Title | Sequence Id | GC% | Length |
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| KAAAAFH010000001 |
Metabacillus indicus 3880, Metabacillus indicus 1 length=823813 depth=0.91x
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1 length=823813 depth=0.91x
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43.96% | 823,813 bp |
| KAAAAFH010000002 |
Metabacillus indicus 3880, Metabacillus indicus 2 length=363063 depth=1.03x
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2 length=363063 depth=1.03x
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43.89% | 363,063 bp |
| KAAAAFH010000003 |
Metabacillus indicus 3880, Metabacillus indicus 3 length=279395 depth=1.12x
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3 length=279395 depth=1.12x
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45.54% | 279,395 bp |
| KAAAAFH010000004 |
Metabacillus indicus 3880, Metabacillus indicus 4 length=184528 depth=0.92x
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4 length=184528 depth=0.92x
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43.25% | 184,528 bp |
| KAAAAFH010000005 |
Metabacillus indicus 3880, Metabacillus indicus 5 length=174615 depth=1.05x
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5 length=174615 depth=1.05x
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44.88% | 174,615 bp |
| KAAAAFH010000006 |
Metabacillus indicus 3880, Metabacillus indicus 6 length=163602 depth=1.21x
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6 length=163602 depth=1.21x
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42.22% | 163,602 bp |
| KAAAAFH010000007 |
Metabacillus indicus 3880, Metabacillus indicus 7 length=163187 depth=1.00x
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7 length=163187 depth=1.00x
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44.24% | 163,187 bp |
| KAAAAFH010000008 |
Metabacillus indicus 3880, Metabacillus indicus 8 length=117770 depth=1.09x
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8 length=117770 depth=1.09x
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44.13% | 117,770 bp |
| KAAAAFH010000009 |
Metabacillus indicus 3880, Metabacillus indicus 9 length=116954 depth=1.00x
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9 length=116954 depth=1.00x
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42.88% | 116,954 bp |
| KAAAAFH010000010 |
Metabacillus indicus 3880, Metabacillus indicus 10 length=99780 depth=0.95x
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10 length=99780 depth=0.95x
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44.46% | 99,780 bp |