I'm looking at screening different clones with two or more sequences per clone. I already have some sequence analysis tools so I would prefer a standalone alignment tool that will generate a contig for each clone not an align everything together process. I found this function in software called DNA baser "batch assembly based on name pattern" but would prefer a standalone (more economical) assembly option. Thanks
To assemble the sequences to create a contig for each clone, you could try to use Sequencher (GeneCodes). The advantage is that you get a 30-day evaluation period, during which you run in full mode. It will give you time to practice and see if its suitable for your analysis.
They also have a online tutorials (http://genecodes.com/training/tutorials) and good technical support. Alternatively, you could look into Geneious (http://www.geneious.com/). Let me know if it helps.
Hi, I used a Cap contig assembly program in BioEdit software you can download from http://www.mbio.ncsu.edu/bioedit/page2.html
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