Hi Monks,
I need some clue about howto format this sample case. How can I run the if loop in reverse ? I guess that may solve the problem ... :-)
My input looks like this:-

NT_113797    CDS    122829    123323    -  gene=LOC644591  ProteinID=X
+P_932799.1  
NT_113798    CDS    4457    4636    - 
NT_077932    CDS    9894    9928    - 
NT_077932    CDS    65297    65828    + 
NT_077932    CDS    89196    89690    -  gene=LOC653505  ProteinID=BJD
+ND993
[download]

My output looks like this:-

NT_113797    CDS    122829    123323    -    
NT_113798    CDS    4457    4636    -  gene=LOC644591
NT_077932    CDS    9894    9928    -  gene=LOC644591
NT_077932    CDS    65297    65828    +  gene=LOC644591
NT_077932    CDS    89196    89690    -  gene=LOC644591
[download]

I want it to be like this:-

NT_113797    CDS    122829    123323    -  gene=LOC644591 
NT_113798    CDS    4457    4636    -  gene=LOC653505
NT_077932    CDS    9894    9928    -  gene=LOC653505
NT_077932    CDS    65297    65828    +  gene=LOC653505
NT_077932    CDS    89196    89690    -  gene=LOC653505
[download]

My code looks something like this:-

#!/usr/bin/perl
use warnings;
use strict;

my $fn = $ARGV[0];
open(FH, "$fn") || die("cannot open:$!");


{
     my $geneName = "";     

while(<FH>)
 {
       if($_ =~ /\A(\S+)\t(\S+)\t(\d+)\t(\d+)\t(\S)\s+$/)
       {
             print "\n$_ $geneName";
       }
       if($_ =~ /\A(\S+)\t(\S+)\t(\d+)\t(\d+)\t(\S)\s+(\S+)\s+(\S+)\s+
+/)
       {
           $geneName = $6;  
       }
 }
   
}
[download]

Thanks in advance
cowboy :-)

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