Genomicus v30.01 - Gene Search

Here you can choose the oldest ancestor of your phylogenetic range of interest and the view you want to display by clicking on one of the following links.

PhyloView will show the conservation of the neighbourhood of the reference gene in the other species, according to the gene phylogenetic tree.
AlignView will align the gene order of the selected species, according to the species phylogenetic tree.

Root species for FeSOD (PF08_0071) (Plasmodium falciparum 3D7)		AlignView depth	PhyloView depth
Eukaryota	~10 Mya	155 species	547 homologs (oldest homol. - dupl. node) 348 homologs (dupl. node) 333 homologs (dupl. node) 223 homologs (dupl. node) 221 homologs (dupl. node) 193 homologs (dupl. node) 174 homologs (dupl. node) 85 homologs
Alveolata	~10 Mya	55 species	84 homologs (dupl. node) 50 homologs (dupl. node) 43 homologs
Apicomplexa	~10 Mya	43 species	41 homologs
Aconoidasida	~10 Mya	25 species	25 homologs
Plasmodium	~10 Mya	14 species	14 homologs
Plasmodium (Laverania)	~10 Mya	3 species	3 homologs
Plasmodium falciparum 3D7	~0 Mya	1 species	1 homolog

Advanced Options

-evalue <Real>
 Expectation value (E) threshold for saving hits
 Default = '10'

-word_size <Integer, >=2>
 Word size for wordfinder algorithm
 Default = '3'

-gapopen <Integer>
 Cost to open a gap
 Default = '11'

-gapextend <Integer>
 Cost to extend a gap
 Default = '1'

-matrix <String>
Scoring matrix name (normally BLOSUM62)

-threshold <Real, >=0>
Minimum word score such that the word is added to the BLAST lookup table
 Default = '11'

-window_size <Integer, >=0>
Multiple hits window size, use 0 to specify 1-hit algorithm
 Default = '40'

A more recent version of genomicus is available here