_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 1e-14
 Query name: gi|955484391|ref|XP_004419885.2| PREDICTED: selenoprotein K [Ceratotherium simum simum]
 Query range: 1-94  (total 94)

 Target: /data/www-rg/seblastian_results/574302849/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  54733        54751
 -Exon 2  51548        51638
 -Exon 3  49992        50075
 -Exon 4  49333        49423

 Redox box: no

Query   MVYISNG <---Intron---> QVLDSRSQSPWRLSFITDFFWGIAEFVVLF <---Intron---> FKTLLQQDVKKRRGYGSSSDSRYDDGRG <-
        ||||||| <   3094bp   > |||||||||||||||||||||||||||||| <   1472bp   > |/|||||||||||||||||||||||||| < 
Target  MVYISNG                QVLDSRSQSPWRLSFITDFFWGIAEFVVLF                FRTLLQQDVKKRRGYGSSSDSRYDDGRG   
        agtatag                cgtgaaactctatttaagtttgaggtggtt                taaccccggaaaagtgattgtatgggag   
        ttatca                gattagggaccggtcttcattggtcattttt                tgcttaaataagggaggccacgaaaggg   
        gtccgt                aaggccgtgcagaattaatccgaacgcgtg                tcatgtaatgagaaccacattcattcaa    
                                                                                                            

Query   --Intron---> PPGNPP-RRMGRINHLHGPSPPPMAGGUGR
          568bp    > |||||| ||||||||| |||||||||||||
Target               PPGNPPRRRMGRINHLQGPSPPPMAGGUGR
                     ccgaccaaaagcaacccgcacccagggtga
                     ccgaccgggtggtaatagcgccctcggggg
                    gaaacccaaagtatttggcttttagctaaag
                                                *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 371 ; UGA-SECIS: 377

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 48961 - 48872
 Found by:  Infernal (score=26.19) Covels (score=40.54)
 Stem2 length = 11   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -22.43
 Type = 1

         ..(((((((.....................(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcg--------------UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(((((((((....................{[[((((((((((((.................))))))))))))]]}----...))))))))).
 target  CUAGGACUGCUCUGUGUCCUCACAGACGAAUGAAGUCAUGCUGGGAAUUCCCUCUGCAGGGAUCUGGCAUGACUGAC----AACGCAGUUCUAU
                                       ****           ^^                          ****