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

# this uses a "trick" to open an in memory file
# like a file on the disk for testing purposes

my $file1 =<<END;
1 19002930  0.74
1 19002931 -0.12
END

my $file2 =<<END;
1 19002930 0.84 0.12 0.94
1 19002931 0 -.20 .12
END

open (my $fh1, '<', \$file1) or die "$!";
open (my $fh2, '<', \$file2) or die "$!";

my %hash;

#generate hash table from file 1

while (my $line=<$fh1>)
{
   my ($Col1, $Col2, $Col3) = (split ' ', $line);
   $hash{"$Col1 $Col2"} = $Col3;
}

#if col1,2 from file 2 match, then output
#col1,2 and all fields >= the col3 field from file1

while (my $line=<$fh2>)
{
   my ($Col1, $Col2, @file2rest) = split ' ', $line;
   if (defined $hash{"$Col1 $Col2"})
   {
      print "$Col1 $Col2 ";
      print join" ", grep{ $_>=$hash{"$Col1 $Col2"}}@file2rest;
      print "\n";
   }
}

__END__

prints:
1 19002930 0.84 0.94
1 19002931 0 .12