Root species for PMT2 (YAL023C) (Saccharomyces cerevisiae S288c) | AlignView depth | PhyloView depth | |
---|---|---|---|
Fungi | ~10 Mya | 465 species | 666 homologs (oldest homol.) |
Dikarya | ~10 Mya | 420 species | 629 homologs |
Ascomycota | ~10 Mya | 307 species | 490 homologs (dupl. node) 482 homologs (dupl. node) 176 homologs |
saccharomyceta | ~10 Mya | 297 species | 175 homologs |
Saccharomycetales | ~10 Mya | 56 species | 174 homologs (dupl. node) 172 homologs (dupl. node) 99 homologs (dupl. node) 67 homologs |
Saccharomycetaceae | ~10 Mya | 29 species | 66 homologs (dupl. node) 57 homologs (dupl. node) 52 homologs (dupl. node) 36 homologs (dupl. node) 20 homologs |
Saccharomyces | ~10 Mya | 5 species | 6 homologs (dupl. node) 3 homologs |
Saccharomyces cerevisiae S288c | ~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'