GenomicusFungi v43.01

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 COX5A (AGABI1DRAFT_82054) (Agaricus bisporus var. burnettii JB137-S8)		AlignView depth	PhyloView depth
Fungi	~10 Mya	713 species	409 homologs (oldest homol.)
Dikarya	~10 Mya	634 species	351 homologs (dupl. node) 308 homologs
Basidiomycota	~10 Mya	190 species	167 homologs
Agaricomycotina	~10 Mya	134 species	143 homologs
Agaricomycetes	~10 Mya	106 species	115 homologs (dupl. node) 94 homologs (dupl. node) 52 homologs
Agaricomycetidae	~10 Mya	56 species	51 homologs
Agaricales	~10 Mya	33 species	32 homologs
Agaricaceae	~10 Mya	3 species	2 homologs
Agaricus bisporus var. burnettii JB137-S8	~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'