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ASM1331500v1

Organism name:
Gardnerella vaginalis (high G+C Gram-positive bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: UMB0143
BioSample:
SAMN15064064
BioProject:
PRJNA316969
Submitter:
Loyola University Chicago
Date:
2020/06/09
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_013315005.1 (latest)
RefSeq assembly accession:
GCF_013315005.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JABUHK01
Assembly method:
Velvet v. 1.2
Expected final version:
yes
Genome coverage:
200x
Sequencing technology:
Illumina HiSeq

IDs: 7256571 [UID] 19995748 [GenBank] 20067458 [RefSeq]

See Genome Information for Gardnerella vaginalis

There are 213 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::06/04/2020 20:26:21
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.11
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,289
CDSs (total)::1,238
Genes (coding)::1,207
CDSs (with protein)::1,207
Genes (RNA)::51
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::45
ncRNAs::3
Pseudo Genes (total)::31
CDSs (without protein)::31
Pseudo Genes (ambiguous residues)::0 of 31
Pseudo Genes (frameshifted)::11 of 31
Pseudo Genes (incomplete)::14 of 31
Pseudo Genes (internal stop)::8 of 31
Pseudo Genes (multiple problems)::2 of 31
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,647,311
Total ungapped length1,647,237
Gaps between scaffolds0
Number of scaffolds11
Scaffold N501,004,884
Scaffold L501
Number of contigs12
Contig N50520,360
Contig L502
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)11

Supplemental Content

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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
unplaced1,647,311111,647,2371,004,88410

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Gardnerella vaginalisGardnerella vaginalis

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_003397685.1Gardnerella vaginalis ATCC 14018 = JCM 11026type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_003397685.1Gardnerella vaginalistype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.4091.8591.04
Best-match type98.4091.8591.04

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna