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ASM216116v1

Organism name:
Lactobacillus gallinarum (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: An101
BioSample:
SAMN06473572
BioProject:
PRJNA377666
Submitter:
Veterinary Research Institute
Date:
2017/05/30
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
GenBank assembly accession:
GCA_002161165.1 (latest)
RefSeq assembly accession:
GCF_002161165.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
NFLZ01
Assembly method:
IDBA_UD v. 1.1.1
Expected final version:
yes
Genome coverage:
98x
Sequencing technology:
Illumina NextSeq 500

IDs: 1114891 [UID] 4536838 [GenBank] 4543088 [RefSeq]

See Genome Information for Lactobacillus gallinarum

There are 25 assemblies for this organism

See more

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::05/08/2017 21:02:58
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,085
CDS (total)::2,018
Genes (coding)::1,875
CDS (coding)::1,875
Genes (RNA)::67
rRNAs::2, 1, 2 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::1, 2 (5S, 23S)
tRNAs::59
ncRNAs::3
Pseudo Genes (total)::143
Pseudo Genes (ambiguous residues)::0 of 143
Pseudo Genes (frameshifted)::78 of 143
Pseudo Genes (incomplete)::56 of 143
Pseudo Genes (internal stop)::46 of 143
Pseudo Genes (multiple problems)::34 of 143
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,030,511
Total ungapped length2,030,511
Number of contigs73
Contig N5059,870
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)73

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
Contig
Count
Ungapped
Length
Contig
N50
Spanned
Gaps
Unspanned
Gaps
unplaced2,030,511732,030,51159,87000

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lactobacillus gallinarumLactobacillus gallinarum

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001434975.1Lactobacillus gallinarum DSM 10532 = JCM 2011type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001434975.1Lactobacillus gallinarumtype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.3982.1686.15
Best-match type98.3982.1686.15

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna