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Full Discussion: Outputting characters after a given string and reporting the characters in the row below --sed
Top Forums Shell Programming and Scripting Outputting characters after a given string and reporting the characters in the row below --sed Post 303028717 by Don Cragun on Sunday 13th of January 2019 09:29:24 PM
Old 01-13-2019
There are more efficient ways to do this, but this seems to do what you want:
Code:
awk '
BEGIN {	String = "GCATGAAAACATACA"
	StringLen = length(String)
}
/^@/ {	matchline = NR + 1
	qualityline = NR + 3
	next
}
NR == matchline {
	if(spot = index($0, String))
		printf("Codon:\t%s\tQuality Score:\t",
		    substr($0, spot + StringLen, 3))
	else	qualityline = 0
	next
}
NR == qualityline {
	printf("%s\n", substr($0, spot + StringLen, 3))
}' file

with the sample data you provided contained in a file named file, this produces the output:
Code:
Codon:	AAC	Quality Score:	,ED
Codon:	AAC	Quality Score:	GCC
Codon:	AAC	Quality Score:	GCC
Codon:	TTT	Quality Score:	+GG

These 2 Users Gave Thanks to Don Cragun For This Post:
Neo Xterra
 

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LEARN ABOUT DEBIAN

faad

FAAD(1) 																   FAAD(1)

NAME

       faad -- Process an Advanced Audio Codec stream

SYNOPSIS

       faad [options] [-w | -o <output_filename> | -a <output_filename>] input_filename

DESCRIPTION

       This  utility  provides a command line interface to libfaad2. This program reads in MPEG-4 AAC files, processes, and outputs them in either
       Microsoft WAV, MPEG-4 AAC ADTS, or standard PCM formats.

OPTIONS

       -a <filename>, --adtsout <filename>
	      Sets the processing to output to the specified file in MPEG-4 AAC ADTS format

       -b <number>, --bits <number>
	      Set the output (individual) sample format. The number takes one of the following values:
		     1: 16-bit PCM data (default).
		     2: 24-bit PCM data.
		     3: 32-bit PCM data.
		     4: 32-bit floating-point data.
		     5: 64-bit floating-point data.

       -d , --downmix
	      Set the processing to downsample from 5.1 (surround sound and bass) channels to 2 channels (stereo).

       -f <number>, --format <number>
	      Set the output file format. The number takes one of the following values:
		     1: Microsoft WAV format (default).
		     2: Raw PCM data.

       -g     Set the processing to not perform gapless decoding.

       -h , --help
	      Shows a usage summary.

       -i , --info
	      Shows information about the about the input file.

       -l <number>, --objecttype <number>
	      Sets the MPEG    rofile and object type for the processing to use. The number takes one of the following values:
		     1: Main object type.
		     2: Low Complexity (LC) object type (default).
		     4: Long Term Prediction (LTP) object type.
		     23: Low Delay (LD) object type.

       -o <filename>, --outfile <number>
	      Sets the filename for processing output.

       -q , --quiet
	      Quiet - Suppresses status messages during processing.

       -t , --oldformat
	      Sets the processing to use the old MPEG-4 AAC ADTS format when outputting in said format.

       -w , --stdio
	      Sets the processing output to be sent to the standard out.

AUTHOR

       Matthew W. S. Bell <matthew (at) bells23.org.uk>

SEE ALSO

       faac(1)

faad 2.5							   October 2006 							   FAAD(1)
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