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> gi|11SB_CUCMA Train|1 21
MARSSLFTFLCLAVFINGCLSQIEQQSPWEFQGS
...
SSSSSSSSSSSSSSSSSSSSSSSS..............................................
+...........................................
.............
..........................................

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> gi|11SB_CUCMA Train|1 21
MARSSLFTFLCLAVFINGCLSQIEQQSPWEFQGSEVWQQHRYQSPRACRLENLRAQDPVRLLLPGFSNAP
+KLIFVAQGFGIRGIAIPGCAETYQT
...
> gi|1A43_HUMAN Train|1 24
MAVMAPRTLVLLLSGALALTQTWAGSHSMRYFYTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRME
+PRAPWIEQEGPEYWSQTDRANLGTLRGYYNQSEDGSHTIQRMYGCDVGPDGRFLRGYQQDAYDGKDYIA
+LNEDLRSWTAADMAAQITQRKWETAHEAE
SSSSSSSSSSSSSSSSSSSSSSSS..............................................
+.....................................................................
+.............................

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$/="> ";
while(<>)
...
    print $seq."\n";
}
$/="\n";