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

 Blastx evalue: 2e-25
 Query name: gi|168693633|ref|NP_001108222.1| selenoprotein X, 1 [Macaca mulatta]
 Query range: 1-106  (total 114)

 Target: /var/www/seblastian_output/288076572/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  50000        50054
 -Exon 2  51750        51898
 -Exon 3  52250        52363

 Redox box: no

Query   MSFCSFFGGEVFQNHFEPG <---Intron---> VYACAKCGYELFSSRSKYAHSSPWPAFTETIHADSVAKRPEHNRPGALKV <---Intron--->
        ||||||||||||||||||| <   1695bp   > |||||||||||||||||||||||||||||||||||||||||||||||||| <   351bp    >
Target  MSFCSFFGGEVFQNHFEPG                VYACAKCGYELFSSRSKYAHSSPWPAFTETIHADSVAKRPEHNRPGALKV               
        atttattggggtcactgcg                gtgtgatgtgcttactatgcttctcgtagaacggaggaccgcaccggtag               
        tctggttggattaaatac                gtacgcaggaattcggcaacacccgcctcactacagtcagcaaagcgctat               
        ggcccccgcgtcgtctgc                cttgtcgtctggccccggcacacaggactgctccccgcgtggctatacgg                
                                                                                                            

Query    SCGKCGNGLGHEFLNDGPKPGQSRFUIFSSSLKFVPK
         |||||||||||||||||||||||||||||||||||||
Target   SCGKCGNGLGHEFLNDGPKPGQSRFUIFSSSLKFVPK
         ttgatgagtgcgtcaggcacgctcttataatcatgca
         cggaggagtgaattaagcacgacgtgttggctattca
        gctcgtccggccgcgctccggggcacaacccgggtcta
                                  *           
 Sequence until next stop: 
GGTGAGCTTGCTTTACACAGCTGGGGCCAGGCCTGTTGGCCTTTGAGCCCAGGCTGGTGGGCCCAGTGTTTGTGCCCGTCCACTTACCATGACTAG
 G  E  L  A  L  H  S  W  G  Q  A  C  W  P  L  S  P  G  W  W  A  Q  C  L  C  P  S  T  Y  H  D  * 

 Distance CDS-SECIS: 1949 ; UGA-SECIS: 1982

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 54313 - 54384
 Found by:  Infernal (score=31.58) Covels (score=22.02)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -21.5

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .({((((((---....{[[((((({(((((.................)))))})))))]]}..--..-.))))))}).
 target  CCUGGUCAC---UGCAUGAUCUGCUCUGGUCAAACCCUUCCAGGCCAGCCAGCGUGGGGAUGG--UC-UGUGACCUGC
                         ****           ^^^                       ****                 
