|GTDB Taxonomy||d__Bacteria; p__Proteobacteria; c__Alphaproteobacteria; o__Puniceispirillales; f__UBA1172; g__UBA1172; s__UBA1172 sp1|
|Filtered NCBI Taxonomy||Undefined|
|Unfiltered NCBI Taxonomy||Undefined|
|NCBI Type Material||No|
|CheckM Genome Count||564|
|CheckM Marker Count||349|
|CheckM Marker Lineage||c__Alphaproteobacteria (UID3305)|
|CheckM Marker Set Count||230|
|CheckM Strain Heterogeneity||25.0|
|Mean Contig Length||4240|
|Mean Scaffold Length||14078|
|Total Gap Length||103449|
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.