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2gqt+FAD+A+601   2i0z+FAD+A+501
1n1e+NDE+A+400   2qzl+IXS+A+449
...
1h6d+NDP+A+500   3rt4+LP5+C+501
1w07+FAD+A+1660   2pgn+FAD+A+612
2qd1+PP9+A+701   3gsi+FAD+A+902

2gqt+FAD+A+601   2i0z+FAD+A+501    0.874585  0.785412
1n1e+NDE+A+400   2qzl+IXS+A+449    0.145278  0.589452
...
1h6d+NDP+A+500   3rt4+LP5+C+501    0.925478  0.365895
1w07+FAD+A+1660   2pgn+FAD+A+612   0.584785  0.325863
2qd1+PP9+A+701   3gsi+FAD+A+902    0.874526  0.125453

2gqt+FAD+A+601   2i0z+FAD+A+501 0.785412
1n1e+NDE+A+400   2qzl+IXS+A+449 0.589452
...
1h6d+NDP+A+500   3rt4+LP5+C+501 0.365895
1w07+FAD+A+1660   2pgn+FAD+A+612 0.325863
2qd1+PP9+A+701   3gsi+FAD+A+902 0.125453

use warnings;
open AS, "data";
...
}
close AQ;
close AS;

while ($line = <AQ>) #file handler for pattern
{
...
    { #do the matching here.?
    }
}