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

 Blastx evalue: 1e-05
 Query name: gi|307746900|ref|NP_001182711.1| fep15 selenoprotein precursor [Salmo salar]
 Query range: 4-137  (total 137)

 Target: /data/www-rg/seblastian_results/949523929/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  3506         3610
 -Exon 2  3083         3159
 -Exon 3  2713         2791
 -Exon 4  1647         1787

 Redox box: no

Query   FLLLTLAFSATGMTEEDVTDTAIEERPVIAKGILK <---Intron---> APSVVGUAIKKMPALYMFLMERWALY <---Intron---> HNLEYDS
        / || | |/      |   |||/||/ |||/| |  <   346bp    > |||||||/||||| |/ ||/|||||| <   291bp    > |||||||
Target  WALLVLTFALVVGASEKTNDTAVEEKLVIARGKLL                APSVVGUSIKKMPELHHFLLERWALY                HNLEYDS
        tgttgcatgcggggtgaaagaggggacgagagact                gcagggtaaaaacgccctctgctgtt                catgtgt
        gcttttctctttgccaacaacctaaatttcggatt                ccgttgggtaatcataatttaggcta                aataaac
        gcgggcttctctggagactcggtaagttacataag                tttgcaacagagcgctttcggagtg                cccgatta
                                                                 *                                          

Query   GEEKNPRLIFYDDKDEVVQ <---Intron---> TVPVKKMKVDEISSLLDSLGFYKRSQKGEEVPEEFQHFPLRAPRDEL
         ||||||||||//|||||/ <   925bp    > || ||||| ||||||||||||||||||||||||||||||/ ||||||
Target  SEEKNPRLIFYNEKDEVVK                TVRVKKMKADEISSLLDSLGFYKRSQKGEEVPEEFQHFPMHAPRDEL
        tggaacccattagagggga                agcgaaaagggaaactgtcgttaatcaggggcggtcctcacgcaggc
        caaaacgtttaaaaaatta                ctgtaatacaatggttactgtaagcaagaatcaataatctaccgaat
        ggggtctgactcagcgtag                tttggaggacgcccgacactccggcgagaggaggtgtccgtccgcgg
                                                                                          
 Sequence until next stop: 
TGA
 * 

 Distance CDS-SECIS: 33 ; UGA-SECIS: 309

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 1613 - 1531
 Found by:  Infernal (score=25.36) Covels (score=21.45)
 Stem2 length = 10   Apical loop length = 22   Insertion in stem2 = 0, 0
 Free Energy = -23.07

         ..(((((((.......((((((((((.(((((..................))))).)))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcC---cuuuuuggggcgggc-caggcCuGAUGuuu-uuucaugaccggc
         ...(((((((......([[{(((((([(((......................)))]))))))}]]).....-..)))))))...
 target  ACCCUGGCCACAUUAAUGACGAGUGGGGCCCCAAGGCCAAAACGAUAGGCCAGGCACCAUUCUGAGGACUC-AUUGGCCGGUUG
                         ****            ^^                            ****