Pantoea dispersa
Isolate
HQ
5S/16S/23S
20 tRNAs
| GTDB Taxonomy | d__Bacteria; p__Proteobacteria; c__Gammaproteobacteria; o__Enterobacterales; f__Enterobacteriaceae; g__Pantoea; s__Pantoea dispersa |
|---|---|
| Filtered NCBI Taxonomy | d__Bacteria; p__Proteobacteria; c__Gammaproteobacteria; o__Enterobacterales; f__Erwiniaceae; g__Pantoea; s__ |
| Unfiltered NCBI Taxonomy | d__Bacteria; p__Proteobacteria; c__Gammaproteobacteria; o__Enterobacterales; f__Erwiniaceae; g__Pantoea; s__Pantoea sp. VS1 |
| NCBI Strain Identifiers | VS1 |
| GTDB Type Material Designation | not type material |
| GTDB Representative of Species | False |
| CheckM Completeness | 99.98% |
|---|---|
| CheckM Contamination | 0.33% |
| CheckM Strain Heterogeneity | 0.0 |
| 5S Count | 7 |
| 16S Count | 3 |
| 23S Count | 9 |
| tRNA Count | 20 |
| Contig Count | 191 |
| N50 Contigs | 151,591 bp |
| Longest Contig | 601,327 bp |
| Scaffold Count | 191 |
| N50 Scaffolds | 151,591 bp |
| Longest Scaffold | 601,327 bp |
| Genome Size | 5,412,831 bp |
| Protein Count | 5,079 |
| Coding Density | 87.07% |
| GC Percentage | 57.29% |
| Ambiguous Bases | 0 |
| GTDB representative | GCF_000465555.2 |
| GTDB representative of species | False |
CheckM provides a set of tools for assessing the quality of genomes recovered from isolates, single cells, or metagenomes. It provides robust estimates of genome completeness and contamination by using collocated sets of genes that are ubiquitous and single-copy within a phylogenetic lineage. Assessment of genome quality can also be examined using plots depicting key genomic characteristics (e.g., GC, coding density) which highlight sequences outside the expected distributions of a typical genome. CheckM also provides tools for identifying genome bins that are likely candidates for merging based on marker set compatibility, similarity in genomic characteristics, and proximity within a reference genome tree.
For more information, please check the CheckM Wiki page.
d__ = Domain
p__ = Phylum
c__ = Class
o__ = Order
f__ = Family
g__ = Genus
s__ = Species
st__ = Strain
x__ = No rank
The NCBI taxonomy is as described in the current RefSeq release used by GTDB, which may not be the latest RefSeq release available at the NCBI website.
The information on this table has been parsed from the NCBI FTP website.