hi i have been trying to extract a multiline sequence which consists of a string of letters spaning several lines followed by a blank line, then a header sequence ie 
 
*header 
abcdefghik 
sdsaadsd 
addds 
 
*header 
a....

[download]
so far i have used the following, but it still only matches 1 line at a time! ie when i use the the array seqs later each $i element is only 1 line. i am out of books/ideas so all help would be appreciate. 
 
 
while ($file=<INPUT1>){ 
    chomp $line; 
      if($file =~/^[a-z](.*?)(?=(\z))/msg){ 
            $seq=$1; 
            $seq=~ s/\n//; 
            push @seqs, $seq; 
            print OUTFILE2  @seqs; 
            exit; 
      } 
 
      elsif($file =~/*/){ 
            $header =$fastafile; 
             chomp $header; 
            $header=~s/>//; 
            push @headers, $header; 
            print OUTFILE "$header\n";  
  }

[download]
many thanks in advance, i know this is novice question :-) PC

In reply to multi-line match by pdotcdot

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