FASTAQ-SEARCH_FOR_SEQ

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

options:

-h, --help

show this help message and exit