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

 Blastx evalue: 7e-41
 Query name: gi|992180819|ref|XP_007235689.2| PREDICTED: selenoprotein T1b-like [Astyanax mexicanus]
 Query range: 1-193  (total 193)

 Target: /data/www-rg/seblastian_results/948565328/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  53368        53498
 -Exon 2  51531        51641
 -Exon 3  51296        51422
 -Exon 4  50276        50363
 -Exon 5  50000        50121

 Redox box: YES

Query   MGSRCLALLFLSVFSLYHATADNGSVKKLKMQYTAGPLLKFQIC <---Intron---> ISUGYKRVFEEYTRVLAQRYPDIRIEGENYLPQPMYR <-
        |||||||||||||||||||||||||||||||||||||||||||| <   1726bp   > ||||||||||||||||||||||||||||||||||||| < 
Target  MGSRCLALLFLSVFSLYHATADNGSVKKLKMQYTAGPLLKFQIC                ISUGYKRVFEEYTRVLAQRYPDIRIEGENYLPQPMYR   
        agtcttgcttctgttttcgaggagagaacaactaggcccatcat                attgtacgtggtacgcgcatcgacagggatccccata   
        tgcggtcttttcttctaacccaaggtaatataaccgcttatatg                tcggaagttaaacgttcagacatgtagaaatcactag   
        gccgtagggtcggttatctagtccctggggggcccaggcacgc                cacaacgggtggctgttcggcaccccaggccgtgcgc    
                                                                      *                                     

Query   --Intron---> HFASFLSIFKLAVIGLIVVGKDPFVLFGVETPGLWAWGQENK <---Intron---> IYACMMVFFLSNMIENQCMSTGAFEISLN
          108bp    > |||||||||||||||||||||||||||||||||||||||||| <   932bp    > |||||||||||||||||||||||||||||
Target               HFASFLSIFKLAVIGLIVVGKDPFVLFGVETPGLWAWGQENK                IYACMMVFFLSNMIENQCMSTGAFEISLN
                     ctgttctatacggagcagggagctgctgggacgctgtgcgaa                atgtaagttcaaaagactataggtgatca
                     atccttcttatcttgttttgaacttttgtaccgtgcggaaaa                tacgttttttgattaaagtccgctatcta
                    acttccgcatgtagttcttgaacgtgcttggctacgtgtggtg                atttgggtccccgtacgtgcttctaaagt
                                                                                                            

Query   D <---Intron---> VPVWSKLESGHLPSMQQLVQILENEMKLNALMDTLPLQRA
        | <   154bp    > |||||||||||||||||||||||||||||| |||||||||
Target  D                VPVWSKLESGHLPSMQQLVQILENEMKLNAHMDTLPLQRA
        g                gcgttacgtgccctacccgcacgagaacagcagacccccg
                        atctgcatacgatcctaattattaaatatacatactctagc
                        tgttgcgagtcctccggggcgcggtggggtacgccgctaac
                                                                 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1031 ; UGA-SECIS: 1469

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 48968 - 48889
 Found by:  Infernal (score=34.89) Covels (score=31.54)
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -16.03

         ..(((((((.......(((((((((((((((................)))))))))))))))..........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ...(((((((......{[[[((((({(((((................)))))})))))]]]}......-..)))))))...
 target  AGUAAAGUGGCACCAAUGAAAGUCUUCACUGAAAACAGAGUCUCUGCUGGUGUAGACUGGAUGUCCUC-GUCCACUUUUAC
                         ****           ^^^                        ****