Genomics palindromes

  • Leonor

    Leonor - 2012-07-25

    How does Bowtie deal with genomic palindromes if I indicate the -m 1 option? If I have one read that aligns in a palindromic region of the genome, then the read can be aligned in both + and - strands. Are this two alignments taken as a unique alignment or are they two distinct alignments?

    Thank you in advance,


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