SMERFS & Friends

ALIGNMENT

METHODS

Pick alignment format auto clustalw arp bl2seq emboss fasta largemultifasta maf mase mega meme metafasta msf nexus pfam phylip po prada prodom psi selex stockholm xmfa blockfile   Text input for multiple sequence alignment (4 < n < 501) or Upload file:

Select a Method ( color by   none SMERFS Williamson Kabat Jores Schneider Gerstein Taylor Zvelebil Karlin Armon Thompson Lancet Mirny Sander Valdar Random  ) SMERFS Conservation Measures Williamson Kabat Jores Schneider Gerstein Taylor Zvelebil Karlin Armon Thompson Lancet Mirny Sander Valdar Random Select Parameters* Window Size   1 3 5 7 9 11 13    Gap Threshold   0.05 0.10 0.15 0.20 0.25 0.35 0.35 0.40 0.45 0.50 0.55 0.60 0.65 0.70 0.75 0.80 0.85 0.90 0.95 1.00 Scoring Scheme   max central    (SMERFS only)