Hello monks, I am new to Perl and I am facing my first serious problem.
I have 2 files, say FILE1 and FILE2, which both have this format:
>name1
ASDFGHTHHJYJYJYJYRGRGRGEERHTE
>name2
EGREGRGREGRHHTHTHTRHTHTRHTHRT
>name3
TRJYTJYTHREGRGWGEFVEFFRFREFRE

[download]

I want to read the first file and see which sequences of this file (sequences are the strings of letters above >name1, >name2 etc) are not found in file2 and print them.
I am giving an example:<.br> 
[FILE1]
>name1
ABCDEFGHIJKLMNOPQ
>name2
RHREGRHRTHTRHTRHTHRTH
>name3
REHTRREFWDCEWCFEWWGREGREGRHTGREWFWE
>name4
EWDWQEREWREWTEW
##############################################
[FILE2]
>new_name1
REHEFWEGTRJTYIJYTHTGRER
>new_name2
ABCDEFGHIJKLMNOPQ
>new_name3
DVFHTGVCVTRYITYYTRETEWTRE

[download]
In the above example I want to read all sequences in file1 and print name2 (along with its seq), name3 and name4, because name1 has a sequence that belongs also to file2. What can I do?

In reply to Silly newbie question on comparing files by Anonymous Monk

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