U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM872811v1

  • Anomalous assembly.
Organism name:
Lactobacillus jensenii (firmicutes)
Taxonomy check:
Failed
Infraspecific name:
Strain: UMB639
BioSample:
SAMN12797011
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2019/09/29
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Assembly anomaly:
unverified source organism
Excluded from RefSeq:
  • unverified source organism
GenBank assembly accession:
GCA_008728115.1 (latest)
RefSeq assembly accession:
GCF_008728115.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VYYZ01
Assembly method:
SPAdes v. 3.11.1
Expected final version:
yes
Genome coverage:
58.83x
Sequencing technology:
Illumina MiSeq

IDs: 4744531 [UID] 14134588 [GenBank] 14264428 [RefSeq]

See Genome Information for Lactobacillus jensenii

There are 180 assemblies for this organism

See more

History (Show revision history)

Comment

The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP 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::09/24/2019 20:56:26
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.9
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,623
CDSs (total)::1,562
Genes (coding)::1,509
CDSs (with protein)::1,509
Genes (RNA)::61
rRNAs::3, 1, 1 (5S, 16S, 23S)
complete rRNAs::3, 1, 1 (5S, 16S, 23S)
tRNAs::53
ncRNAs::3
Pseudo Genes (total)::53
CDSs (without protein)::53
Pseudo Genes (ambiguous residues)::0 of 53
Pseudo Genes (frameshifted)::20 of 53
Pseudo Genes (incomplete)::28 of 53
Pseudo Genes (internal stop)::15 of 53
Pseudo Genes (multiple problems)::10 of 53
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,650,116
Total ungapped length1,650,116
Number of contigs107
Contig N5030,282
Contig L5019
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)107

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

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
unplaced1,650,1161071,650,11630,28200

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Lactobacillus jenseniiLactobacillus jensenii

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001436455.1Lactobacillus jensenii DSM 20557type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_007095465.1Lactobacillus mulieristype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type88.5475.8177.69
Best-match type99.7491.2890.66

ANI result

Taxonomy check statusBest match statusComment
Failedmismatchna