File: test.fa

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python-bx 0.13.0-1
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>mule
TGGAG GCATT TGTGA TTCAA TAGAT GCAGA AAGAA ACCTT CCTAG AGCTG GCGTT CTCTA ACTAA
AAGTG GAAAG TTCTG 
      AGGAA TGAGG ACTGT TATAA ATCCC ACCCC ACACC GCACC TTCTC CAGGG AAGTT TCATG 
GCCGT GAAGA GGACA GAAAG 
TGAGA ACCAA GATgg aactg aataa acaag cttca cactg ttagt ttccc cat   
atgct tacct tccca cagat gccaa ccttg gaggc ctaag aggcc tagaa tatta tcctt
tgtct gatca tttct ctaca 
aattt attgt tcttt gttaa gatgc tacat aagcc caaat tctaa ccacc
ccttt gagtt accca tcatc aagtt tc   
tccca tgtg