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Source database (GenBank or RefSeq) File type

ASM78373v2

Organism name:: Shigella flexneri (enterobacteria)
Taxonomy check:: OK
Infraspecific name:: Strain: FDAARGOS_74
BioSample:: SAMN02934526
BioProject:: PRJNA231221
Submitter:: University of Maryland School of Medicine Institute for Genome Sciences (IGS) - sequencing center
Date:: 2018/01/30
Assembly type:: na
Assembly level:: Complete Genome
Genome representation:: full
GenBank assembly accession:: GCA_000783735.2 (latest)
RefSeq assembly accession:: GCF_000783735.2 (latest)
RefSeq assembly and GenBank assembly identical:: yes
Assembly method:: HGAP v. 2
Genome coverage:: 436.795x
Sequencing technology:: PacBio; Illumina

IDs: 1547701 [UID] 5960118 [GenBank] 9032898 [RefSeq]

See Genome Information for Shigella flexneri

Pathogen Detection Resources

There are 15547 assemblies for this organism

History (Show revision history)

GenBank Assembly Accession		RefSeq Assembly Accession	Assembly Name	Assembly Level	Status
GCA_000783735.2	=	GCF_000783735.2	ASM78373v2	Complete Genome	Latest GenBank, Latest RefSeq
GCA_000783735.1	=	GCF_000783735.1	ASM78373v1	Contig	Replaced GenBank, RefSeq suppressed

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 RefSeq
Annotation Date::07/08/2023 02:19:35
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.5
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::4,917
CDSs (total)::4,791
Genes (coding)::4,000
CDSs (with protein)::4,000
Genes (RNA)::126
rRNAs::8, 7, 7 (5S, 16S, 23S)
complete rRNAs::8, 7, 7 (5S, 16S, 23S)
tRNAs::96
ncRNAs::8
Pseudo Genes (total)::791
CDSs (without protein)::791
Pseudo Genes (ambiguous residues)::0 of 791
Pseudo Genes (frameshifted)::300 of 791
Pseudo Genes (incomplete)::448 of 791
Pseudo Genes (internal stop)::178 of 791
Pseudo Genes (multiple problems)::130 of 791
Pseudo Genes (short protein)::5 of 791
##Genome-Annotation-Data-END##

Global statistics

Total sequence length	4,805,861
Total ungapped length	4,805,861
Total number of chromosomes and plasmids	2

Molecule name	GenBank sequence		RefSeq sequence
Chromosome	CP026098.1	=	NZ_CP026098.1
Plasmid unnamed	CP026099.1	=	NZ_CP026099.1

Molecule	Total Length
All	4,805,861
Chromosome	4,576,448
Plasmid unnamed	229,413

	ANI	Query coverage	Subject coverage
Declared type	99.70	88.13	89.75
Best-match type	99.70	88.13	89.75

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ASM78373v2

See Genome Information for Shigella flexneri

Pathogen Detection Resources

There are 15547 assemblies for this organism

History (Show revision history)

Comment

Genome-Annotation-Data

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