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ASM346754v1

Organism name:
Collinsella sp. AM38-1BH (actinobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: AM38-1BH
BioSample:
SAMN09736504
BioProject:
PRJNA482748
Submitter:
BGI
Date:
2018/09/06
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_003467545.1 (latest)
RefSeq assembly accession:
GCF_003467545.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QSHC01
Assembly method:
SOAPdenovo v. 2
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
Illumina Hiseq

IDs: 1924151 [UID] 7297338 [GenBank] 7348058 [RefSeq]

See Genome Information for Collinsella sp. AM38-1BH

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::08/04/2018 07:40:23
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,849
CDS (total)::1,779
Genes (coding)::1,746
CDS (coding)::1,746
Genes (RNA)::70
rRNAs::3, 1, 2 (5S, 16S, 23S)
complete rRNAs::2 (5S)
partial rRNAs::1, 1, 2 (5S, 16S, 23S)
tRNAs::61
ncRNAs::3
Pseudo Genes (total)::33
Pseudo Genes (ambiguous residues)::3 of 33
Pseudo Genes (frameshifted)::8 of 33
Pseudo Genes (incomplete)::21 of 33
Pseudo Genes (internal stop)::5 of 33
Pseudo Genes (multiple problems)::3 of 33
##Genome-Annotation-Data-END##

Global statistics

Total sequence length2,121,543
Total ungapped length2,121,358
Gaps between scaffolds0
Number of scaffolds40
Scaffold N5095,435
Scaffold L507
Number of contigs58
Contig N5083,433
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)40

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
unplaced2,121,543402,121,35895,435180

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Collinsella sp. AM38-1BHCollinsella sp. AM38-1BH

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000169035.1Collinsella aerofacienstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type94.1886.0474.81

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna