Can some body suggest me how to compare two DNA sequences.Please note that the sequences which i have are in ABI format, Actually i have tried in blastn but it hasn't accepted in the above file format.Hence i have converted the file to fasta.but still i am unable to..can some one help me out in this...
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If your basecalling/conversion was succesful you should have something that looks like this in a text editor.
Try one of these tools: http://www.ebi.ac.uk/Tools/psa/ or BLAST two sequences -
This program (http://www.dnabaser.com/download/chromatogram-explorer/) can read ABI files in and compare them directly. There are many commercial programs that can read ABI files but you probably don't have access to one.
If you have managed to convert ABI files to fasta format then sarvidsson already has provided some suggestions. You could also simply use clustalX to do a pair-wise sequence alignment (if the two sequences are similar).Comment
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