_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       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/914735994/tempfiles/temptarget.fasta
 Chromosome: JAHTZZ010000006.1:subseq_156941807,100101_ Strand: +
 Positions:
 -Exon 1  46846        46864
 -Exon 2  50013        50103
 -Exon 3  51607        51690
 -Exon 4  52263        52353

 Redox box: no

Query   MVYISNG <---Intron---> QVLDSRSQSPWRLSFITDFFWGIAEFVVLF <---Intron---> FKTLLQQDVKKRRGYGSSSDSRYDDGRG <-
        ||||||| <   3148bp   > |||||||||||||||||||||||||||||| <   1503bp   > |/|||||||||||||||||||||||||| < 
Target  MVYISNG                QVLDSRSQSPWRLSFITDFFWGIAEFVVLF                FRTLLQQDVKKRRGYGSSSDSRYDDGRG   
        agtatag                cgtgaaactctatttaagtttgaggtggtt                taaccccggaaaagtgattgtatgggag   
        ttatca                gattagggaccggtcttcattggtcattttt                tgcttaaataagggaggccacgaaaggg   
        gtccgt                aaggccgtgcagaattaatccgaatgtgtg                tcatgtaatgagaaccacattcatttaa    
                                                                                                            

Query   --Intron---> PPGNPP-RRMGRINHLHGPSPPPMAGGUGR
          572bp    > |||||| ||||||||| ||/||||||||||
Target               PPGNPPRRRMGRINHLQGPNPPPMAGGUGR
                     ccgaccaaaagcaacccgcacccagggtga
                     ccgaccgggtggtaatagcaccctcggggg
                    gaaacccaaagtatttggcttttagctaaag
                                                *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 381 ; UGA-SECIS: 387

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JAHTZZ010000006.1:subseq_156941807,100101_ Strand = + Positions = 52735 - 52822
 Found by:  Infernal (score=23.42) Covels (score=39.84)
 Stem2 length = 11   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -9.63

         ..(((((((..............(((((((((((((((.................)))))))))))))))..........)))))))..
 model   uucggucaugcg-------UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ...({((((..............{[[((((((((((((.................))))))))))))]]}......-...))))})...
 target  UGCUCUGUGUCCUCACAGACGAAUGAGGUCAUGCUGGGAAUUCCCUCUGCAGGGAUCUGGCAUGACUGACACGCAG-UUCUAUAAAUGC
                                ****           ^^                          ****