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use strict;
use warnings;
...
AASEFEFEFE
>protein4
REYTRHTRGRVEVCREVR

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$VAR1 = {
          'protein4' => 'REYTRHTRGRVEVCREVR',
...
          'protein1' => 'ASFGTHTRHTHRHTHTRHTRHTR',
          'protein3' => 'AWEERERGRGRGREGRGREGRRRRRRRRTTHTHTRHRHTRHTR'
        };