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MAP 1786 version 1

Organism name:
Mycobacterium avium subsp. paratuberculosis 11-1786 (high G+C Gram-positive bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: 11-1786
BioSample:
SAMN02470582
BioProject:
PRJNA216930
Submitter:
National Animal Disease Center
Date:
2013/12/09
Assembly type:
na
Assembly level:
Contig
Genome representation:
full
Excluded from RefSeq:
  • many frameshifted proteins
GenBank assembly accession:
GCA_000504995.1 (latest)
RefSeq assembly accession:
GCF_000504995.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AYOA01
Assembly method:
MIRA v. 3.2.0
Expected final version:
yes
Genome coverage:
22.0x
Sequencing technology:
IonTorrent

IDs: 84991 [UID] 872458 [GenBank] 882948 [RefSeq]

See Genome Information for Mycobacterium avium

There are 442 assemblies for this organism

See more

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: http://www.ncbi.nlm.nih.gov/genome/annotation_prok/
Bacteria available from National Veterinary Services Laboratory.

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::11/06/2013 17:54:33
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::2.2 (rev. 415875)
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes::4,706
CDS::4,173
Pseudo Genes::479
rRNAs::3 (5S, 16S, 23S)
tRNAs::47
ncRNA::4
Frameshifted Genes::455
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,673,684
Total ungapped length4,673,684
Number of contigs1,308
Contig N505,944
Contig L50243
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)1,308

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
unplaced4,673,6841,3084,673,6845,94400

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Mycobacterium avium subsp. paratuberculosis 11-1786Mycobacterium avium

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_000174035.1Mycobacterium avium subsp. avium ATCC 25291type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000174035.1Mycobacterium aviumtype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type98.7193.3089.76
Best-match type98.7193.3089.76

ANI result

Taxonomy check statusBest match statusComment
OKderived-species-matchna