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Generating consensus sequences from unaligned reads

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  • Generating consensus sequences from unaligned reads

    I would like to determine consensus sequences in unaligned reads. I know that the usual way is to first align them to a reference, but for technical reasons this is not possible.
    Please note that I am not trying to do de novo genome assembly; I am just trying to look for common motifs in unaligned reads. Is there a straightforward way of doing this?

    Thanks
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