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Hi Yoda,

Thanks for the code. The complexity for this code very high as I have 9million lines in file1 and 11000 lines in file2.

Is there any quick way in awk??

Best

Thanks Rudi..,

I reposted my message with little modifications.. could you please check and repost the code

Best

Thanks all..

Yoda's script gives me what I wanted. But I am missing something.

I think I need to give more details:

FILE1:

chr1 61042
chr1 61153
chr1 61446
chr1 61457
chr1 61621
chr1...

Hello,

I have a file with two columns like the following

FILE1:

chr1 61042
chr1 61153
chr1 61446
chr1 61457
chr1 61621
chr10 61646
chr10 61914
chr10 62024
chr10 62782

Alos, I have...