Explanation
of the "Details Page"
PHRINGE ID numbers
have been assigned arbitrarily to each gene model from each genome.
These numbers are assigned to each genome as follows:
| |
Genome |
From gene
number |
To gene
number |
| |
Hyaloperonospora
arabidopsidis |
1
|
15,512 |
| |
Phytophthora infestans |
15,513 |
38,171 |
| |
Phytophthora ramorum |
38,172 |
53,915 |
| |
Phytophthora sojae |
53,916 |
72,943 |
| |
Phaeodactylum tricornutum |
72,944 |
82,969 |
| |
Pythium ultimum |
82,970 |
98,292 |
| |
Thalassiosira pseudonana
|
98,293 |
109,682 |
VMD is the “Virginia Microbial Database”, which hosts
detailed information on the genes of P. sojae, P. ramorum,
and H. arabidopsidis. (The latter is synonymous with the
older names Hyaloperonospora parasitica and Peronospora
parasitica.) VMD has also assigned arbitrary gene IDs to each
gene model which can be entered here to call up this page for the
corresponding gene.
The third box on this page contains genes from all included genomes
that have a distance score from a pairwise global alignment below
the specified "maximum distance to show". The "maximum
number of matches" per taxon to show can also limited. The
"maximum distance to show" defaults either to the score
of the seed of the cluster for this gene or to zero, which in this
case means that no limit is specified (in contrast to it’s
normal meaning of sequence identity).
The length and difference
in length are both numbers of amino acids for the proteins.
In the bottom box, the Cluster IDs link to the corresponding Cluster
and Compare Page. The cluster type refers to the specific node on
the tree where a cluster was built that includes this gene.
|
