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

 Blastx evalue: 6e-24
 Query name: gi|929071548|ref|XP_014045395.1| PREDICTED: 15 kDa selenoprotein-like [Salmo salar]
 Query range: 1-156  (total 157)

 Target: /data/www-rg/seblastian_results/117998469/tempfiles/temptarget.fasta
 Chromosome: CM007942.1:subseq_48037411,123139_ Strand: -
 Positions:
 -Exon 1  76872        76919
 -Exon 2  72966        73133
 -Exon 3  50809        50872
 -Exon 4  50416        50465
 -Exon 5  49985        50122

 Redox box: no

Query   MSGEVYILWLLSLIQT <---Intron---> LSAYGADLSSEACRELGFSSNLLCSSCDLLGEFSLGQIQPVCRQCCQQEAQMESRK <---Intron-
        ||||||/||||||||| <   3738bp   > ||||||/||||/|||||||||||||||||||||||  |||||/||||||  ||||| <  22093bp 
Target  MSGEVYLLWLLSLIQT                LSAYGANLSSESCRELGFSSNLLCSSCDLLGEFSLSSIQPVCKQCCQQEVHMESRK            
        atgggtcctcctcaca                ctgtggatttgttagcgttaacctattgccggtacataccgtacttccggcagtaa            
        tcgatattgttcttac                tccagcatccacggatgtcgattggcgattgatgtgctactgaaggaaatatacga            
        gtgggtcggtttcaag                ggataccgcagacaggctcctcgccctcggggccgcgcgtccagccgggctggcgg            
                                                                                                            

Query   --> LYPGAILEVCGUKLGRFPQVQA <---Intron---> FVRSDKPKMFKGLQIK <---Intron---> YVRGADPILKLLDDNGNIAEELSILK
          > |||||||||||||||||||||| <   343bp    > |||||||||||||||| <   293bp    > ||||||||||||||||||||||||||
Target      LYPGAILEVCGUKLGRFPQVQA                FVRSDKPKMFKGLQIK                YVRGADPILKLLDDNGNIAEELSILK
            ctcggacggtgtatgatccgcg                tgatgacaatagccaa                tgagggcacaccggagaagggcaaca
            tacgcttatgggatggtcata                cttgcaacattagtata                atggcacttattaaagatcaatgtta
            cctgccgagtaaagggctaca                ttcgtcggggcgttatg                tgacactaagggctcgcttaaccccg
                       *                                                                                    

Query   WNTDSVEEFLSEKLEVYNTD
        ||||||||||||||||||||
Target  WNTDSVEEFLSEKLEVYNTD
        taagagggtcagatggtaag
        gacagtaattgaatataaca
        gcgttgaacgcgggaattct
                            
 Sequence until next stop: 
TTGTAG
 L  * 

 Distance CDS-SECIS: 377 ; UGA-SECIS: 593

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007942.1:subseq_48037411,123139_ Strand = - Positions = 49607 - 49533
 Found by:  Infernal (score=30.2) Covels (score=33.62)
 Stem2 length = 10   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -18.44

         ..(((((((.......(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ((([{(((((--(...{[[{(({(((((([(.....-.........)]))))))}))}]]}.....-.))))))}])))
 target  GAGGAACACA--UUAGUGAAGGCCUCACAGCAAACC-ACAUUUUGGGAUGUGAGACCCGAUGUCCC-UGUGUGUCACUC
                         ****           ^^^                       ****