Root species for FOXC1 (ENSLCOG00000006015) (Blue-crowned manakin) | AlignView depth | PhyloView depth | |
---|---|---|---|
Fungi/Metazoa group | ~1500 Mya | 350 species | |
Bilateria | ~580 Mya | 348 species | |
Chordata | ~550 Mya | 344 species | 416 homologs (oldest homol.) |
Vertebrata | ~550 Mya | 340 species | 413 homologs |
Euteleostomi | ~420 Mya | 336 species | 407 homologs |
Sarcopterygii | ~400 Mya | 240 species | 196 homologs |
Tetrapoda | ~359 Mya | 238 species | 192 homologs |
Amniota | ~326 Mya | 236 species | 190 homologs |
Sauria | ~267 Mya | 67 species | 55 homologs |
Archelosauria | ~250 Mya | 57 species | 47 homologs |
Archosauria | ~236 Mya | 49 species | 40 homologs |
Aves | ~111 Mya | 47 species | 38 homologs |
Neognathae | ~105 Mya | 37 species | 30 homologs |
Neognathae_b | ~105 Mya | 25 species | 19 homologs |
Passeriformes | ~65 Mya | 19 species | 14 homologs |
Pipridae | ~6 Mya | 3 species | 3 homologs |
Blue-crowned manakin | ~0 Mya | 1 species | 2 homologs (dupl. node) 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'