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ASM2785761v1

Organism name:
Holtiella tumoricola (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: CC70A
BioSample:
SAMN32542663
BioProject:
PRJNA917550
Submitter:
University of Oklahoma
Date:
2023/01/15
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_027857615.1 (latest)
RefSeq assembly accession:
GCF_027857615.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JAQIFT01
Assembly method:
Skesa v. 2.5.1
Expected final version:
yes
Genome coverage:
220.0x
Sequencing technology:
Illumina

IDs: 15413941 [UID] 39656248 [GenBank] 39727658 [RefSeq]

See Genome Information for Holtiella tumoricola

History (Show revision history)

Comment

Bacteria and source DNA available from DSM 27931
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::01/10/2023 16:24:31
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.4
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA
Genes (total)::4,530
CDSs (total)::4,405
Genes (coding)::4,375
CDSs (with protein)::4,375
Genes (RNA)::125
rRNAs::10, 4, 3 (5S, 16S, 23S)
complete rRNAs::10 (5S)
partial rRNAs::4, 3 (16S, 23S)
tRNAs::105
ncRNAs::3
Pseudo Genes (total)::30
CDSs (without protein)::30
Pseudo Genes (ambiguous residues)::0 of 30
Pseudo Genes (frameshifted)::8 of 30
Pseudo Genes (incomplete)::21 of 30
Pseudo Genes (internal stop)::7 of 30
Pseudo Genes (multiple problems)::5 of 30
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,707,720
Total ungapped length4,707,720
Number of contigs76
Contig N50126,171
Contig L5011
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)76

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
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
unplaced4,707,720764,707,720126,17100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Holtiella tumoricolaHoltiella tumoricola

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001282685.1Niameybacter massiliensissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type98.4985.2887.68

ANI result

Taxonomy check statusBest match statusComment
Inconclusivemismatchassembly is type-material