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ASM351718v1

  • Anomalous assembly.
Organism name:
Lactobacillus sp. (firmicutes)
Taxonomy check:
Failed
Isolate:
UBA10721
BioSample:
SAMN08017710
BioProject:
PRJNA417962
Submitter:
University of Queensland
Date:
2018/09/10
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
unverified source organism
Excluded from RefSeq:
  • unverified source organism
  • derived from metagenome
GenBank assembly accession:
GCA_003517185.1 (latest)
RefSeq assembly accession:
n/a
RefSeq assembly and GenBank assembly identical:
n/a
WGS Project:
DPBB01
Assembly method:
CLC de novo assembler v. 4.4.1
Expected final version:
yes
Genome coverage:
29.59x
Sequencing technology:
Illumina HiSeq 2000

IDs: 1947601 [UID] 7367548 [GenBank]

See Genome Information for Lactobacillus sp.

Pathogen Detection Resources

There are 99 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::05/03/2018 17:18:22
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)::2,215
CDS (total)::2,192
Genes (coding)::2,127
CDS (coding)::2,127
Genes (RNA)::23
tRNAs::20
ncRNAs::3
Pseudo Genes (total)::65
Pseudo Genes (ambiguous residues)::9 of 65
Pseudo Genes (frameshifted)::38 of 65
Pseudo Genes (incomplete)::9 of 65
Pseudo Genes (internal stop)::16 of 65
Pseudo Genes (multiple problems)::7 of 65
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,216,791
Total ungapped length2,215,227
Gaps between scaffolds0
Number of scaffolds69
Scaffold N5049,698
Scaffold L5013
Number of contigs98
Contig N5039,882
Contig L5016
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)69

Supplemental Content

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Assembly Information

Related Information

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
unplaced2,216,791692,215,22749,698290

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lactobacillus sp.Lactobacillus sp.

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001434585.1Companilactobacillus crustorumtype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type99.6189.4489.27

ANI result

Taxonomy check statusBest match statusComment
Failedmismatchna