I copy all the forwards to a new BioEdit file, select the sequence titles Edit, Select All Sequences, control-shift-a and copy them to clipboard Edit, Copy Sequences, control-amake the new BioEdit file active and paste them in Edit, Paste Sequences, control-s.
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Change the view type on the lower toolbar 3rd of the alignment windowselect the third colored button from the left says Shade identities and similarities when you hold the mouse over it. The chromatograms come off the machine with all bases in upper case. Save the reverse complement as a text file under a different name. BioEdit Tutorials – Practical Bioinformatics I copy the sequence titles to the clipboard Edit, Copy sequence titles. Select from the next next residue to the end. In that case I try and get them close, but each individual one many require adjustment. Then I run a NJ analysis to see what is going on with the dataset. Now when you double click on a chromatogram it will open in Chromas. If this does not occur, repeat the process with the reverse complement sequence file in a New alignment. Note that this is also displayed in a 5′-3′ direction, so the sequence complementary to the beginning of your original unedited forward sequence will be at the end of the reverse complement.
Close BioEdit, reopen your files and the settings should all be saved. Guide to editing sequences with Chromas and BioEditĬlick on the File menu, Export as text.
Before trying to merge the forwards and reverses together, reverse the first reverse sequence Sequence, Nucleic Acid, Reverse Compliment or control-shift-r and align it to your forward sequence usually I have to delete a few bases. BioEdit can also edit chromatograms, but I find Chromas to be nicer. Select the Bioediy and replace it by typing in the appropriate base. MEGA also has an alignment editor, but I’ve not really used it very much. BioEdit is a mouse-driven, easy-to-use sequence alignment editor and sequence analysis program designed and written by a graduate student. This is likely to be the final release of BioEdit. North Carolina State University, Department of Microbiology.
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