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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 NETBSD

aac

AAC(4)							   BSD Kernel Interfaces Manual 						    AAC(4)

NAME

     aac -- Adaptec AdvancedRAID Controller driver

SYNOPSIS

     aac* at pci? dev ? function ?
     ld* at aac? unit ?

DESCRIPTION

     The aac driver provides support for the Adaptec AAC family of SCSI and SATA RAID controllers.  These controllers support RAID 0, 1, 5, 10,
     and volume sets.  They have four channels in the add-in version or 1-2 channels in the motherboard integrated version, and are most often
     found rebadged by Dell, Hewlett-Packard or IBM.  Supported controllers include:

     o	 Adaptec AAC-364
     o	 Adaptec SCSI RAID 2120S
     o	 Adaptec SCSI RAID 2200S
     o	 Adaptec SATA RAID 2410SA
     o	 Adaptec SATA RAID 3405
     o	 Adaptec SCSI RAID 5400S
     o	 Dell PERC 2/Si
     o	 Dell PERC 2/QC
     o	 Dell PERC 3/Di
     o	 Dell PERC 3/Si
     o	 Dell PERC 320/DC
     o	 Dell CERC SATA RAID 1.5/6ch
     o	 HP NetRAID 4M
     o	 HP ML110 G2 (Adaptec SATA RAID 2610SA)
     o	 IBM ServeRAID 8k

     Access to RAID containers is available via the ld device driver.  Individual drives cannot be accessed unless they are part of a container or
     volume set, and non-fixed disks cannot be accessed.  Containers can be configured by using the on-board BIOS utility of the card.

DIAGNOSTICS

     The adapter can send status and alert messages asynchronously to the driver.  These messages are printed on the system console.

SEE ALSO

     intro(4), ld(4)

HISTORY

     The aac driver first appeared in NetBSD 1.6, and was based on the FreeBSD driver of the same name.

BUGS

     This driver is not compatible with controllers that have version 1.x firmware.  The firmware version is the same as the kernel version
     printed in the BIOS POST and driver attach messages.

BSD
								 February 19, 2011							       BSD
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