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ASM286176v1

Organism name:
Lactobacillus crispatus (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: UMB0803
BioSample:
SAMN08193687
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2017/12/28
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_002861765.1 (latest)
RefSeq assembly accession:
GCF_002861765.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
PKIY01
Assembly method:
Velvet v. 1.2
Expected final version:
yes
Genome coverage:
630.2x
Sequencing technology:
Illumina HiSeq

IDs: 1510611 [UID] 5840748 [GenBank] 5861318 [RefSeq]

See Genome Information for Lactobacillus crispatus

Pathogen Detection Resources

There are 752 assemblies for this organism

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History (Show revision history)

Comment

Bacteria available from Alan J Wolfe.
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::12/22/2017 13:57:18
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::2,145
CDS (total)::2,070
Genes (coding)::1,920
CDS (coding)::1,920
Genes (RNA)::75
rRNAs::3, 2, 1 (5S, 16S, 23S)
complete rRNAs::3, 1, 1 (5S, 16S, 23S)
partial rRNAs::1 (16S)
tRNAs::66
ncRNAs::3
Pseudo Genes (total)::150
Pseudo Genes (ambiguous residues)::1 of 150
Pseudo Genes (frameshifted)::48 of 150
Pseudo Genes (incomplete)::86 of 150
Pseudo Genes (internal stop)::35 of 150
Pseudo Genes (multiple problems)::16 of 150
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,004,470
Total ungapped length2,004,419
Gaps between scaffolds0
Number of scaffolds156
Scaffold N5024,468
Scaffold L5025
Number of contigs158
Contig N5024,468
Contig L5025
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)156

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Assembly Information

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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
unplaced2,004,4701562,004,41924,46820

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lactobacillus crispatusLactobacillus crispatus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_018987235.1Lactobacillus crispatussuspected-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_018987235.1Lactobacillus crispatussuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type97.7582.6874.01
Best-match type97.7582.6874.01

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna