Dear Tim/Julian/users Is it also possible to use protein sequence comparisons using this same approach? Regards BALA. >===== Original Message From Julian Parkhill <[EMAIL PROTECTED]> ===== >Bala, > >ACT cannot reconstruct the positional information for the separate >sequences within a multiple FASTA file; BLAST reports only the local >coordinates for the matches. What you need to do is: > >1) Concatenate all the mFASTA sequences into a single sequence for >each genome (you can do this from Artemis, using the "Write; all >bases" menu) > >2) Do the blast comparison with the concatenated sequences > >3) Load the original multiple FASTA files into ACT, but use the >comparison file from the concatenated sequences. You should see the >contigs represented by alternating dark/light brown features, plus >the matches for the whole sequences. > >For the other problem; the set cutoffs only remain for as long as the >dialog window is open. Closing the dialog window resets the cutoffs. > >yours, > >Julian. >
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