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ASM62062v1

Organism name:
Mycobacterium sp. URHB0044 (high G+C Gram-positive bacteria)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: URHB0044
BioSample:
SAMN02743948
BioProject:
PRJNA213774
Submitter:
DOE Joint Genome Institute
Date:
2014/04/08
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_000620625.1 (latest)
RefSeq assembly accession:
GCF_000620625.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JIAW01
Assembly method:
vpAllpaths v. r42328
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 141341 [UID] 992958 [GenBank] 1132598 [RefSeq]

See Genome Information for Mycobacterium sp. URHB0044

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1024205
Source DNA and Organism available from Eoin Brodie (ELBrodie@lbl.gov)
Source DNA available from Eoin Brodie (ELBrodie@lbl.gov)
Organism available from Eoin Brodie (ELBrodie@lbl.gov)
Contacts: Eoin Brodie (ELBrodie@lbl.gov)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Annotation by ... JGI-ORNL
The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376)
Full annotations are available from IMG  more

MIGS-Data

##MIGS-Data-START##
assembly::vpAllpaths v. r42328
investigation_type::bacteria_archaea
project_name::Mycobacterium sp. URHB0044
sequencing_meth::WGS
GOLD Stamp ID::Gi0051593
Gene Calling Method::Prodigal 2.5
Isolation Site::unknown
##MIGS-Data-END##

Global statistics

Total sequence length7,485,871
Total ungapped length7,483,115
Gaps between scaffolds0
Number of scaffolds41
Scaffold N50273,670
Scaffold L508
Number of contigs44
Contig N50266,596
Contig L509
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)43

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
unplaced7,485,871417,483,115273,67030

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Mycobacterium sp. URHB0044Mycobacterium sp. URHB0044

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_010729665.1Mycolicibacterium madagascariensetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type82.1324.0330.28

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna