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

 Blastx evalue: 1e-76
 Query name: gi|372622383|ref|NP_001117997.2| glutathione peroxidase 1 [Oncorhynchus mykiss] >gi|589268204|emb|CCG28021.1| glutathione peroxidase 1b2 [Oncorhynchus mykiss]
 Query range: 1-190  (total 190)

 Target: /data/www-rg/seblastian_results/858778055/tempfiles/temptarget.fasta
 Chromosome: CM007941.1:subseq_52326226,101069_ Strand: -
 Positions:
 -Exon 1  50848        51069
 -Exon 2  49991        50338

 Redox box: no

Query   MAVCKMFYDLTAKLLTGELFNFSSLQGKVVLIENVASLUGTTTRDYTQMNELHERYADKGLVILGVPCNQFGHQ <---Intron---> ENCKNEEILM
        |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   509bp    > ||||||||||
Target  MAVCKMFYDLTAKLLTGELFNFSSLQGKVVLIENVASLUGTTTRDYTQMNELHERYADKGLVILGVPCNQFGHQ                ENCKNEEILM
        aggtaattgcagaccaggttatttccgaggcagaggtctgaaaagtacaagccgctggagcgacggctactgcc                gataaggaca
        tctgattaatccattcgattatcctagattttaatcctggcccgaacataataagacaagttttgtcgaatgaa                aagaaaattt
        gtatggcccgaagctaaagttcgttgtagggcgtggtcacgccgtccggtgctagcccggagtgggcctgcatg                gccgcagcgg
                                              *                                                             

Query   SLKYVRPGNGFEPKFQLLEKVDVNGKDAHPLFVYLKDKLPFPSDEPMALMNDPKCIIWSPVCRTDIAWNFEKFLIGPAGEPFKRYGRRFLTSNIEGDIKE
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  SLKYVRPGNGFEPKFQLLEKVDVNGKDAHPLFVYLKDKLPFPSDEPMALMNDPKCIIWSPVCRTDIAWNFEKFLIGPAGEPFKRYGRRFLTSNIEGDIKE
        ttatgccgagtgcatcccgagggagaggccctgtcagacctcaggcagtaagcataatacgtaagagtatgatcagcgggctactgaatcaaaagggaag
        ctaatgcgagtacatattaatatagaacactttataaatctcgaactcttaacagttggctggcatcgataatttgccgactagagggttcgatagataa
        cagtctgatctgtgcgctgagtgtggcccagtgccgtggacaccgcgcagtccgcccgtaccgtcccgctggcctgatagacgttcgactccctgtccgg
                                                                                                            

Query   LLNTAN
        ||||||
Target  LLNTAN
        ccaaga
        ttacca
        tctgtc
              
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 265 ; UGA-SECIS: 718

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007941.1:subseq_52326226,101069_ Strand = - Positions = 49725 - 49652
 Found by:  Infernal (score=29.09) Covels (score=26.71)
 Stem2 length = 10   Apical loop length = 19   Insertion in stem2 = 0, 0
 Free Energy = -15.21

         ..(((((((.......(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((---....{[[(((((((([((...................))]))))))))]]}..--..-.)))))))..
 target  AACUUUUAU---UAAAUGAAGGCAUCCAUUGAAACCAAGCCUUUUGUGAGAGGGAUGUCUGAUAA--AA-UGUAAAAGAC
                         ****           ^^^                         ****