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ASM352372v1

Organism name:
Trichococcus sp. (firmicutes)
Taxonomy check:
OK
Isolate:
UBA8818
BioSample:
SAMN08019086
BioProject:
PRJNA417962
Submitter:
University of Queensland
Date:
2018/09/07
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Excluded from RefSeq:
  • annotation fails MAG completeness check
  • derived from metagenome
GenBank assembly accession:
GCA_003523725.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
DOGC01
Assembly method:
CLC de novo assembler v. 4.4.1
Expected final version:
yes
Genome coverage:
8.19x
Sequencing technology:
Illumina HiSeq 2000

IDs: 1952251 [UID] 7376978 [GenBank]

See Genome Information for Trichococcus sp.

There are 12 assemblies for this organism

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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://www.ncbi.nlm.nih.gov/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::04/30/2018 10:36:21
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,551
CDS (total)::1,533
Genes (coding)::1,404
CDS (coding)::1,404
Genes (RNA)::18
tRNAs::15
ncRNAs::3
Pseudo Genes (total)::129
Pseudo Genes (ambiguous residues)::74 of 129
Pseudo Genes (frameshifted)::88 of 129
Pseudo Genes (incomplete)::8 of 129
Pseudo Genes (internal stop)::6 of 129
Pseudo Genes (multiple problems)::47 of 129
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,511,503
Total ungapped length1,502,338
Gaps between scaffolds0
Number of scaffolds200
Scaffold N508,994
Scaffold L5047
Number of contigs359
Contig N506,511
Contig L5070
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)200

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
unplaced1,511,5032001,502,3388,9941590

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Trichococcus sp.Trichococcus sp.

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900113645.1Trichococcus flocculiformissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type98.2396.6148.84

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna