Root species for PHYA (AT1G09570) (Arabidopsis thaliana) | AlignView depth | PhyloView depth | |
---|---|---|---|
Eukaryota | ~10 Mya | 114 species | |
Viridiplantae | ~10 Mya | 99 species | 531 homologs (oldest homol.) |
Embryophyta | ~10 Mya | 95 species | 526 homologs (dupl. node) 451 homologs (dupl. node) 441 homologs (dupl. node) 337 homologs (dupl. node) 333 homologs (dupl. node) 260 homologs (dupl. node) 242 homologs |
Tracheophyta | ~10 Mya | 93 species | 241 homologs |
Magnoliophyta | ~10 Mya | 91 species | 240 homologs (dupl. node) 139 homologs |
Mesangiospermae | ~10 Mya | 89 species | 137 homologs |
Pentapetalae | ~10 Mya | 43 species | 77 homologs |
rosids | ~10 Mya | 32 species | 57 homologs |
malvids | ~10 Mya | 13 species | 26 homologs |
Brassicaceae | ~10 Mya | 8 species | 19 homologs |
Arabidopsis | ~10 Mya | 3 species | 3 homologs |
Arabidopsis thaliana | ~0 Mya | 1 species | 1 homolog |
-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'