Root species for Seita.3G233000.1.v2.2 (Seita.3G233000.1) (SETIT) | AlignView depth | PhyloView depth | |
---|---|---|---|
Viridiplantae | ~10 Mya | 44 species | 88 homologs (oldest homol. - dupl. node) 72 homologs |
Monocotyledons | ~10 Mya | 36 species | 62 homologs |
Commelinids | ~10 Mya | 33 species | 59 homologs |
Poales | ~10 Mya | 24 species | 53 homologs |
Poaceae | ~10 Mya | 22 species | 51 homologs (dupl. node) 40 homologs (dupl. node) 33 homologs |
Panicoideae | ~10 Mya | 11 species | 29 homologs |
Setaria | ~10 Mya | 5 species | 8 homologs (dupl. node) 3 homologs |
SETIT | ~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'