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>ENST00000274849|Q9ULW3 
MEAEESEKAATEQEPLEGTEQTLDAEEEQEESEEAACGSKKRVVPGIVYLGHIPPRFRPL
HVRNLLSAYGEVGRVFFQAEDRFVRRKKKAAAAAGGKKRSYTKDYTEGWVEFRDKRIAKR
VAASLHNTPMGARRRSPFRYDLWNLKYLHRFTWSH*

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>ENST00000274849|Q9ULW3
ATGGAGGCAGAGGAATCGGAGAAGGCCGCAACGGAGCAAGAGCCGCTGGAAGGGACAGAA
...
TACACCAAGGACTACACCGAGGGATGGGTGGAGTTCCGTGACAAGCGCATAGCCAAGCGC
GTGGCGGCCAGTCTACACAACACGCCTATGGGTGCCCGCAGGCGCAGCCCCTTCCGTTAT
GATCTTTGGAACCTCAAGTACTTGCACCGTTTCACCTGGTCCCACTGA

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Q9ULW3; 46 142

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use strict;
use Bio::SeqIO;
...
            }    

        }

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Q9ULW3;    46    142     
  0    M    ATG
...
153    S    TCC
154    H    CAC
155    L    CTC

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Q9ULW3;    46    142         
  0    M    ATG    NOT
...
153    S    TCC    NOT
154    H    CAC    NOT
155    L    CTC    NOT