Thank you very much!

And how this script could be changed if it is nesessry to include additional variables to the hash.

For example, chromosome number, number of certain elements and so on? Let it be variables $chr, $exons $palindromes. At the same moment those lines should be excluded that contain repetative coord value according to the distance value (the lines with the smalest distance value should remain), as your script already does.

coord       dist   chr  exons palindromes
567         344     5   7     8 
1345        567     5   8     123
2346        78      12  1     567
3456        67      10  1     5
3456        789     10  3     6
4678        45      6   2     0
5349        6       8   2     14
6700        124     13  8     56
6700        50      13  1     4
8964        560     2   18    8
[download]

So the output will be something like this:

coord       dist   chr  exons palindromes
567         344     5   7     8 
1345        567     5   8     123
2346        78      12  1     567
3456        67      10  1     5
4678        45      6   2     0
5349        6       8   2     14
6700        50      13  1     4
8964        560     2   18    8
[download]

Thank you once more!