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ASM841636v1

Organism name:
Alistipes shahii (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: BIOML-A2
BioSample:
SAMN11943384
BioProject:
PRJNA544527
Submitter:
Massachusetts Institute of Technology
Date:
2019/09/16
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_008416365.1 (latest)
RefSeq assembly accession:
GCF_008416365.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
VVXK01
Assembly method:
SPAdes v. 3.9.1
Expected final version:
no
Genome coverage:
92.942x
Sequencing technology:
Illumina NextSeq

IDs: 4580311 [UID] 13765078 [GenBank] 13932568 [RefSeq]

See Genome Information for Alistipes shahii

There are 93 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 11:03:01
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)::3,315
CDSs (total)::3,246
Genes (coding)::3,133
CDSs (with protein)::3,133
Genes (RNA)::69
rRNAs::2, 5, 2 (5S, 16S, 23S)
complete rRNAs::2, 2, 2 (5S, 16S, 23S)
partial rRNAs::3 (16S)
tRNAs::57
ncRNAs::3
Pseudo Genes (total)::113
CDSs (without protein)::113
Pseudo Genes (ambiguous residues)::0 of 113
Pseudo Genes (frameshifted)::33 of 113
Pseudo Genes (incomplete)::70 of 113
Pseudo Genes (internal stop)::16 of 113
Pseudo Genes (multiple problems)::5 of 113
CRISPR Arrays::1
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,821,995
Total ungapped length3,821,767
Gaps between scaffolds0
Number of scaffolds99
Scaffold N50123,791
Scaffold L5010
Number of contigs102
Contig N50123,791
Contig L5010
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)99

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
unplaced3,821,995993,821,767123,79130

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Alistipes shahiiAlistipes shahii

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_025145845.1Alistipes shahii WAL 8301suspected-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_025145845.1Alistipes shahiisuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.0277.0677.31
Best-match type99.0277.0677.31

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna