Another simple solution: 
use strict;
use warnings;


while(<DATA>)
{
    chomp;
    my $line = $_;

   # skip the first line of every chunk
   if ($line =~/^@/)
   {
   }

   # print the remaining lines
   else
   {
        print "$line\n";
   }
}


__DATA__
@SRR016086.1 308GJAAXX:2:1:911:957 length=36
CCCCCCCCCCACCCCCCCACACCACAAACACACCAC
+SRR016086.1 308GJAAXX:2:1:911:957 length=36
(IIIIIIII:&H68;I-3%/)*-/4$$')(0&$&,$
@SRR016086.2 308GJAAXX:2:1:916:735 length=36
AGATCAGTTTTGCACTCCACTTAAGTTTGTTCATAT
+SRR016086.2 308GJAAXX:2:1:916:735 length=36
I*IIIIIIIIIII%%CI()I2E6.I5;>+"=C+#%I
@SRR016086.3 308GJAAXX:2:1:908:956 length=36
CCCCCCCCCAACACAAAAACAAAATCCAAAACAATA
+SRR016086.3 308GJAAXX:2:1:908:956 length=36
II@III50I*9I+<00%.<9/,%-"$*2('&"&)""

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In reply to Re: Getting Lines 2,3, and 4 from FASTQ file's Chunk by umasuresh
in thread Getting Lines 2,3, and 4 from FASTQ file's Chunk by neversaint

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