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ASM208356v1

Organism name:
Nitrospira sp. ST-bin4 (bacteria)
Taxonomy check:
Inconclusive
Isolate:
ST-bin4
BioSample:
SAMN06189317
BioProject:
PRJNA315256
Submitter:
The University Hong Kong
Date:
2017/04/10
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • derived from metagenome
GenBank assembly accession:
GCA_002083565.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
MSXM01
Assembly method:
CLC NGS Cell v. 6.04
Expected final version:
no
Genome coverage:
14.0x
Sequencing technology:
Illumina HiSeq

IDs: 1064711 [UID] 4349028 [GenBank]

See Genome Information for Nitrospira sp. ST-bin4

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Organism name changed from Candidatus Nitrospira nitrificans ST-bin3 to Nitrospira sp. ST-bin4 in April 2017.

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::01/05/2017 16:52:52
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.0
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,952
CDS (total)::2,920
Genes (coding)::2,804
CDS (coding)::2,804
Genes (RNA)::32
rRNAs::
complete rRNAs::
partial rRNAs::
tRNAs::31
ncRNAs::1
Pseudo Genes (total)::116
Pseudo Genes (ambiguous residues)::58 of 116
Pseudo Genes (frameshifted)::50 of 116
Pseudo Genes (incomplete)::37 of 116
Pseudo Genes (internal stop)::1 of 116
Pseudo Genes (multiple problems)::30 of 116
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,935,895
Total ungapped length2,926,433
Gaps between scaffolds0
Number of scaffolds117
Scaffold N5034,227
Scaffold L5026
Number of contigs269
Contig N5020,492
Contig L5046
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)117

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
unplaced2,935,8951172,926,43334,2271520

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Nitrospira sp. ST-bin4Nitrospira sp. ST-bin4

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001273775.1Nitrospira moscoviensistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type79.552.131.36

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena