fastaq-search_for_seq

FASTAQ-SEARCH_FOR_SEQ(1)         User Commands        FASTAQ-SEARCH_FOR_SEQ(1)



NAME
       fastaq_search_for_seq - Find all exact matches to a string (and its
       reverse complement)

DESCRIPTION
       usage: fastaq_search_for_seq [options] <infile> <outfile>
       <search_string>

       Searches for an exact match on a given string and its reverse
       complement, in every sequence of input sequence file. Case insensitive.
       Guaranteed to find all hits

   positional arguments:
       infile Name of input file

       outfile
              Name of outputfile. Tab-delimited output: sequence name,
              position, strand

       search_string
              String to search for in the sequences

   optional arguments:
       -h, --help
              show this help message and exit



fastaq 3.17.0                      July 2018          FASTAQ-SEARCH_FOR_SEQ(1)