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Total number of SECIS elements predicted: 1
Number of known selenoproteins predicted: 1
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Selenoprotein id: 1         Category: known selenoprotein
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Protein prediction
Predicted by: exonerate Blastx evalue: 1e-83
Query protein: gi|831319060|ref|XP_012692305.1| PREDICTED: type II iodothyronine deiodinase [Clupea harengus]
Positions on query: 34-297 Query length: 297

Target name: JARO01002105.1:subseq_1,60860_
Positions on target: 10714-10872,8245-8805 Strand: -


  Query   ANRKMGMLSVDLLVTLQILPFFFSNCLFFVLYDSVLLVKRVVSLLSCSGSAAG <---Intron---> E
           / ||| ||||||||||||| |||||||  |||||/|/||||||||| |||/| <   1908bp   >  
  Target  TDTKMGTLSVDLLVTLQILPGFFSNCLFLALYDSVVLLKRVVSLLSCCGSASG                -
          agaaagataggccgaccaccgtttatctcgctgtggccacggtccattgtgtg                -
          cacatgctgtatttctattcgttcagtttctaacttttagttcttggggcccg                -
          tcgagcgacgcgggcggaggcccgccccggcccggggggcggggcccctgtgt                -
                                                                                
  
  Query   WQRMLTSAGVRSIWNSFLLDAYKQVKLGSEAPNSKVVKVNGMNSRCRSVDSEPEDECHLLDFESSDRPLV
                                 ||||| ||||||||||    || ||| |   ||||||||||||||||
  Target  -----------------------QVKLGGEAPNSKVVKVPDTPSRRRSVGSRTGDECHLLDFESSDRPLV
          -----------------------cgacggggcataggagcgacacacaggaaagggtcccgtgttgcctg
          -----------------------atatggaccacattatcaccgggggtgggcgaagattataccagctt
          -----------------------ggggtagccccagggtccggcgagctctatacgccgcctgttcctgg
                                                                                
  
  Query   VNFGSATUPPFLSQLPIFRRLVEEFSDVADFLLVYIDEAHPSDGWAAPPMSPYSFEVRKHRSLEERVLAA
          ||||||/||||/|||| |||||||||||||||||||/|||||||||   |  //|/|/||||||||/|||
  Target  VNFGSASUPPFVSQLPAFRRLVEEFSDVADFLLVYIEEAHPSDGWALSTMESHAFQVKKHRSLEERMLAA
          gatgtgttcctgacccgtcccgggttggggtccgtagggcctggtgttaagtcgtcgaaccacggcatgg
          tatgcccgccttgatcctggttaatcatcattttataacaccaggctcctacactataaaggtaagttcc
          cctcaccacttgcagtccggggggcatgcctcgcctagtccttcgaggcgagcacggggctcggacggct
                 *                                                              
  
  Query   KQLLQHFALPPQCQLVADCMNNNANVAYGVSYERVCIVQQKKIAYLGGKGPFFYNLKEVRLWLEQSYGRR
           /||/|||||||| ||||||/|||||||||| |||||||/||||||||||||||/||/|| ||||/||/|
  Target  HRLLEHFALPPQCHLVADCMDNNANVAYGVSNERVCIVQKKKIAYLGGKGPFFYHLKDVRRWLEQTYGKR
          caccgctgcccctccgggtagaagaggtggtagagtagcaaaagttggagctttctaggactcgcatgac
          agttaatctccagattcagtaaacatcagtcaagtgttaaaatcatggagcttaataatgggtaacagag
          cgaggttcgcggccggtccgcctccacctaccagcctgggggtccatagagttctgatcgggtggctcag
                                                                                
  
SECIS prediction
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SECIS image
Predicted by: Infernal (score 25.95)
Covels score: 29.41
Free Energy of structure: -19.4
Target name: JARO01002105.1:subseq_1,60860_
Positions on target: 7032-7108 Strand: -
Distance between candidate CDS and SECIS: 1136
Distance between Sec-UGA and SECIS: 1532
SECIS grade: A

  SEQ  UGCCGGCGUGCGAAUGAAGACCGCUGAGGAAAGGGCGCUGUGCUCUGUUGGCGGUUGGAUGCUGUACCACGCUGCCA
  SS   (({(((((((....{[[[((((((((({(................)})))))))))]]]}.......)))))))}))