4 fastq-match - print sequences matching a pattern
7 .B fastq-match [OPTION]... QUERY [FILE]...
10 Given a nucleotide sequence QUERY, perform local alignment against every FASTQ
11 sequence using the Smith-Waterman algorithm. For each read, an alignment score
12 is printed, so that the output consists of a simple list of scores.
14 One ore more FILEs may be specified, otherwise input is read from standard input.
15 Input files may be gziped.
19 \fB\-h\fR, \fB\-\-help\fR
20 Output a help message and exit.
22 \fB\-V\fR, \fB\-\-version\fR
23 Output version information and exit.
26 Written by Daniel C. Jones <dcjones@cs.washington.edu>