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ASM1993106v1

Organism name:
Methanobacterium spitsbergense (euryarchaeotes)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: VKM:B 3566
Infraspecific name:
Strain: VT
BioSample:
SAMN21212324
BioProject:
PRJNA760290
Submitter:
IBPM RAS
Date:
2021/09/12
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_019931065.1 (latest)
RefSeq assembly accession:
GCF_019931065.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAIOUQ01
Assembly method:
MetaSPAdes v. 3.13.0
Expected final version:
no
Genome coverage:
710.0x
Sequencing technology:
Illumina

IDs: 10877741 [UID] 28798868 [GenBank] 29059058 [RefSeq]

See Genome Information for Methanobacterium spitsbergense

History (Show revision history)

Comment

The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Bacteria and source DNA available from VKM:B-3566

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::09/07/2021 16:02:54
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::5.2
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,788
CDSs (total)::2,738
Genes (coding)::2,699
CDSs (with protein)::2,699
Genes (RNA)::50
rRNAs::2, 1, 1 (5S, 16S, 23S)
complete rRNAs::2, 1, 1 (5S, 16S, 23S)
tRNAs::44
ncRNAs::2
Pseudo Genes (total)::39
CDSs (without protein)::39
Pseudo Genes (ambiguous residues)::0 of 39
Pseudo Genes (frameshifted)::26 of 39
Pseudo Genes (incomplete)::8 of 39
Pseudo Genes (internal stop)::11 of 39
Pseudo Genes (multiple problems)::6 of 39
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,662,706
Total ungapped length2,662,106
Gaps between scaffolds0
Number of scaffolds18
Scaffold N50340,628
Scaffold L503
Number of contigs24
Contig N50212,562
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)18

Supplemental Content

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
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced2,662,706182,662,106340,62860

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Methanobacterium spitsbergenseMethanobacterium spitsbergense

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_002072215.1Methanobrevibacter arboriphilussuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type85.470.280.30

ANI result

Taxonomy check statusBest match statusComment
OKlow-coverageAssembly is the type-strain, no match is expected