hello all
i am currently working on a problem and trying to sort it with perl but code written is not working the way it should.
I want to extract common pattern from two file

file1 contains

LOC_Os01g01010.1 3017 : PAS [2993,3017] : AGTAAA AAATGGAGGAATTCTGCCA
LOC_Os01g01010.2 2218 : uORF [7,129] : ATG AAGAAGACGAGACGACGACTTCCCCAC
+TAGGAAACACGACGGAGGCGGAGATGATC

[download]
and file2 contains
LOC_Os01g01010.1 : PS51373 HIPIP High potential iron-sulfur proteins f
+amily profile.
  2139 - 2208  AATGATTTATCATGTGAGGTGAAAGA-----AGAGCACCGGGTGAACAGTTACAC
+AAGAA L=-1
 GAAAGTCCAAAAGCA
LOC_Os01g01010.2 : PS00022 EGF_1 EGF-like domain signature 1.
    298 - 309  CtCccTtcGTtC                                           
+      L=(-1)

[download]
I am trying to retrieve "LOC_Os01g01010*"(as whole file contains variation of naming but LOC_Os01g remains constant)

can anyone plz help me. 
#!/usr/bin/perl
use strict;
use warnings;

open(FH, "outputps_scan_chr1_.out") or die "Can't Open File1\n";
my @array1=<FH>;
close(FH);
open(BH, "chr1_1.txt") or die "Can't Open File2\n";
my @array2=<BH>;
close(BH);
my $pattern='/^LOC_Os0[1-7]g[0-9]*.[0-9]\s';

foreach my $line1(@array1)
{ 
    foreach my $line2(@array2)
        if
        {    $line1=~ /^$pattern/;
                        $line2=~ /^$pattern/;
                         $line1==$line2;
                        {  print $line1;    }
}
else 
    print "nothing to print\n";
}

[download]

This code is showing compilation error
Also in this code i am comparing a line, should i do like this as line also contain other things other than our pattern help thanks & regards

In reply to match pattern from two different file by Anonymous Monk

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