Root species for PHYA (AT1G09570) (arabidopsis.thaliana) | AlignView depth | PhyloView depth | |
---|---|---|---|
eukaryota | 158 species | ||
archaeplastida | 148 species | ||
viridiplantae | 142 species | 853 homologs (oldest homol.) | |
streptophyta | 138 species | 848 homologs (dupl. node) 833 homologs (dupl. node) 819 homologs (dupl. node) 256 homologs | |
embryophyta | 136 species | 255 homologs | |
magnoliophyta | 133 species | 254 homologs | |
mesangiospermae | 131 species | 253 homologs | |
pentapetalae | 74 species | 139 homologs | |
rosids | 57 species | 103 homologs | |
malvids | 20 species | 37 homologs | |
brassicaceae | 11 species | 26 homologs | |
arabidopsis | 4 species | 4 homologs | |
arabidopsis.thaliana | 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'