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ASM841611v1

Organism name:
Bacteroides caccae (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A13
BioSample:
SAMN11943399
BioProject:
PRJNA544527
Submitter:
Massachusetts Institute of Technology
Date:
2019/09/16
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_008416115.1 (latest)
RefSeq assembly accession:
GCF_008416115.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VVXX01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
no
Genome coverage:
19.706x
Sequencing technology:
Illumina NextSeq

IDs: 4580131 [UID] 13764858 [GenBank] 13931088 [RefSeq]

See Genome Information for Bacteroides caccae

There are 190 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://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::09/13/2019 13:11:23
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.9
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,734
CDSs (total)::4,671
Genes (coding)::4,452
CDSs (with protein)::4,452
Genes (RNA)::63
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::58
ncRNAs::2
Pseudo Genes (total)::219
CDSs (without protein)::219
Pseudo Genes (ambiguous residues)::16 of 219
Pseudo Genes (frameshifted)::110 of 219
Pseudo Genes (incomplete)::108 of 219
Pseudo Genes (internal stop)::50 of 219
Pseudo Genes (multiple problems)::58 of 219
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length5,393,482
Total ungapped length5,393,132
Gaps between scaffolds0
Number of scaffolds276
Scaffold N5079,023
Scaffold L5022
Number of contigs292
Contig N5079,023
Contig L5022
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)276

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
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced5,393,4822765,393,13279,023160

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Bacteroides caccaeBacteroides caccae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000169015.1Bacteroides caccae ATCC 43185type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000169015.1Bacteroides caccaetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.4574.3487.85
Best-match type99.4574.3487.85

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna