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Man Pages
LOCARNA-MOTIF-SCAN(1) User Contributed Perl Documentation LOCARNA-MOTIF-SCAN(1)

locarna-motif-scan

locarna-motif-scan [options] <motif> <seq>

ATTENTION: some options undocumented

Options:

        --help           brief help message
        --man            full documentation
        --verbose        be verbose
        --quiet          be quiet
        <motif>          a dp file describing your motif
        <seq>            a fasta file containing the sequence(s)

The program scans for a match of a RNA "motif", given by a (multiple) alignment in a possibly long stretch of D/RNA

We use a sliding window, fold each window with RNALfold -p and search for k-best locarna hits in the window The K-best hits are recorded

2022-11-19 perl v5.32.1

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