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ASM102108v1

Organism name:
Candidatus Liberibacter africanus PTSAPSY (a-proteobacteria)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: PTSAPSY
BioSample:
SAMN03763724
BioProject:
PRJNA185151
Submitter:
USDA-ARS
Date:
2015/06/05
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
RefSeq category:
representative genome
GenBank assembly accession:
GCA_001021085.1 (latest)
RefSeq assembly accession:
GCF_001021085.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
Assembly method:
Velvet v. 1.1.04
Reference guided assembly:
CP004005.1, AOFG00000000, NC_014774.1, NC_012985.1
Genome coverage:
60-80x
Sequencing technology:
Illumina Hiseq2000

IDs: 346721 [UID] 1799048 [GenBank] 1799558 [RefSeq]

See Genome Information for Candidatus Liberibacter africanus

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

Some enriched target bacterial gDNA from insect vector may be available.

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::04/12/2022 02:22:37
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.1
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,097
CDSs (total)::1,041
Genes (coding)::1,012
CDSs (with protein)::1,012
Genes (RNA)::56
rRNAs::3, 3, 3 (5S, 16S, 23S)
complete rRNAs::3, 3, 3 (5S, 16S, 23S)
tRNAs::44
ncRNAs::3
Pseudo Genes (total)::29
CDSs (without protein)::29
Pseudo Genes (ambiguous residues)::0 of 29
Pseudo Genes (frameshifted)::15 of 29
Pseudo Genes (incomplete)::14 of 29
Pseudo Genes (internal stop)::5 of 29
Pseudo Genes (multiple problems)::4 of 29
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,192,232
Total ungapped length1,192,232
Total number of chromosomes and plasmids1

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
Assembly Unit: Primary Assembly (GCF_001021095.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP004021.1=NZ_CP004021.1

Assembly statistics

MoleculeTotal
Length
Chromosome 1,192,232

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Candidatus Liberibacter africanus PTSAPSYCandidatus Liberibacter africanus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000590865.3Candidatus Liberibacter asiaticusreftype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type82.8537.9836.81

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna
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