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ASM208335v1

Organism name:
Nitrospira sp. HN-bin3 (bacteria)
Taxonomy check:
Inconclusive
Isolate:
HN-bin3
BioSample:
SAMN04592456
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_002083355.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
LVWU01
Assembly method:
CLC NGS Cell v. 6.04
Expected final version:
no
Genome coverage:
37.0x
Sequencing technology:
Illumina HiSeq

IDs: 1064601 [UID] 4348818 [GenBank]

See Genome Information for Nitrospira sp. HN-bin3

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/
This genome replaces FJVN00000000, which has an incorrect organism name.

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::03/31/2016 11:12:46
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::3.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,105
CDS (total)::3,066
Genes (coding)::2,398
CDS (coding)::2,398
Genes (RNA)::39
rRNAs::1, 1 (16S, 23S)
partial rRNAs::1, 1 (16S, 23S)
tRNAs::35
ncRNAs::2
Pseudo Genes (total)::668
Pseudo Genes (ambiguous residues)::113 of 668
Pseudo Genes (frameshifted)::45 of 668
Pseudo Genes (incomplete)::566 of 668
Pseudo Genes (internal stop)::3 of 668
Pseudo Genes (multiple problems)::55 of 668
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,909,829
Total ungapped length2,868,108
Gaps between scaffolds0
Number of scaffolds357
Scaffold N5014,590
Scaffold L5059
Number of contigs819
Contig N506,371
Contig L50118
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)357

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
unplaced2,909,8293572,868,10814,5904620

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Nitrospira sp. HN-bin3Nitrospira sp. HN-bin3

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 type82.311.140.72

ANI result

Taxonomy check statusBest match statusComment
Inconclusivelow-coveragena