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>1001585.MDS_0001 protein_id="YP_004377784.1" product="chromosomal rep
+lication initiation protein" GI="330500915" GeneID="10459818"
>1001585.MDS_0002 protein_id="YP_004377785.1" product="DNA polymerase 
+III subunit beta" GI="330500916" GeneID="10454784"
...
>1001585.MDS_0010 protein_id="YP_004377793.1" product="ABC transporter
+ ATP-binding protein" GI="330500924" GeneID="10454792"
>245014.CK3_35030 protein_id="CBL42879.1" product="Predicted transcrip
+tion factor, homolog of eukaryotic MBF1"
>245014.CK3_35040 protein_id="CBL42880.1" product="Bacterial protein o
+f unknown function (DUF961)."

use strict;
use warnings;
...
print "number of gis seen\t$gi_count\n";
print "number of protids seen\t$protid_count\n";
close(OUT);