Root species for KH2012:KH.C2.125 (Cirobu) | AlignView depth | PhyloView depth | |
---|---|---|---|
34_Deuterostomia | ~10 Mya | 33 species | 423 homologs (oldest homol. - dupl. node) 407 homologs (dupl. node) 370 homologs (dupl. node) 297 homologs (dupl. node) 154 homologs (dupl. node) 147 homologs (dupl. node) 63 homologs (dupl. node) 63 homologs |
30_Chordata | ~10 Mya | 29 species | 56 homologs (dupl. node) 18 homologs |
28 | ~10 Mya | 27 species | 17 homologs |
16_Ascidiacea | ~10 Mya | 17 species | 16 homologs |
15_Phlebobranchia | ~10 Mya | 7 species | 7 homologs |
11_Ciona | ~10 Mya | 3 species | 3 homologs |
Cirobu | ~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'