Difference between NCBI and mega 6 software based nucleotide sequence alignments
I tried to align two nucleotide sequences using NCBI “blast” with “Align two or more sequences” program and Mega 6 software . The results of the two alignment programs are different. The NCBI alignment starts at 57 nucleotides whereas using Mega 6 software, it starts at nucleotide one.
Is there any explanation for this?
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