May 30, 2020   |   by admin

Tom Hall. North Carolina State University, Department of Microbiology. This is likely to be the final release of BioEdit. There may be some bugs. BioEdit is a mouse-driven, easy-to-use sequence alignment editor and sequence analysis program designed and written by a graduate student. BioEdit can also edit chromatograms, but I find Chromas to be nicer. MEGA also has an alignment editor, but I’ve not really used it very much. Double click on the .

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Copy the data of highlighted sequence.

Guide to editing sequences with Chromas and BioEdit

You can download my bioedit. Select all the reverse sequences and cut bioefit. Save the edited file to the tytorial, or preferably, your own disk or network account. I paste these into Microsoft Word and use search and replace to get rid of extra details.

I check any unique differences by opening the chromatogram. Just be sure to select to end from a different location each time to reduce the chances of pasting the wrong reverse into your consensus. Now when you double click on a chromatogram it will open in Chromas.

Identify the region of vector sequences. Open BioEdit from the start menu. Editing and most of the analysis will be done using BioEdit, a freeware sequence analysis program developed by Tom Hall at North Carolina State University.


Sequence editing using BioEdit

One trick I find useful later is to always edit your sequences from the same starting base unless the starts are all messyas it makes sequence alignment much easier later.

Select to the beginning including tutorisl current residue.

Click on the edited forward sequence file to open it. Select from the next residue to the beginning. As far as I can tell there is no difference between saving your file as a BioEdit formatted file versus as a fasta file.

I manually align them and check for obvious missing bioedot and either correct them or add a gap to preserve the alignment. Bjoedit may have to scroll down the program list to find it. Select a square region.

Repeat this process for the pstblue1vector. This opens the file in Chromas see below under installation notes if some other program opens it instead of Chromas. On the lower toolbar 3rd of the alignment window, select the first solidly colored button.

Clicking on the opposite side, expand to the both direction. Be careful to copy. The reason why I paste them to a new file first is that importing from the clipboard File, Import from Clipboard will place them at the bottom of your file, which is usually not where I want them be. Return the disk as soon as this is done. Each group should log on to a PC using the class ID bisc and the password pseud.


Expand the selection on a line or a square area. Then I undo the cut, select all the sequences Edit, Select All Sequences, control-shift-acopy them control-a–note that copy and pasting sequences is different to any other copy and paste action.

Select from the next next residue to the end.

Guide to editing sequences with Chromas and BioEdit

Delete and copy the data of highlighted sequence. At the end of this phase you have done bkoedit data checks, one when you edited your original chromatogram, second when you checked any unique base pair changes. If the vector sequence given is the opposite strand to the forward sequence, then there should be a region of almost exact homology with the end of the reverse complement.

Click on the File menu, Import.

The regular copy and paste features work between copies of the program, but copying and pasting sequences does not. It is the only program I know of that allows you to edit, search and replace, and paste over the sequence title names independent of your sequences. Create a new BioEdit file. Hit control-e to select to the end, hit delete, move right one base then paste control-c.