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

 Blastx evalue: 2e-48
 Query name: gi|929519826|ref|XP_005496742.2| PREDICTED: phospholipid hydroperoxide glutathione peroxidase, mitochondrial [Zonotrichia albicollis]
 Query range: 1-170  (total 170)

 Target: /data/www-rg/seblastian_results/52259614/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  49997        50094
 -Exon 2  50240        50384
 -Exon 3  50468        50619
 -Exon 4  50751        50775
 -Exon 5  51034        51093
 -Exon 6  51168        51197

 Redox box: no

Query   MCAHADDWRSAKAIYDFVALDIDGNDVSLEKYR <---Intron---> GDVCIITNVASKUGKTAVNYTQLVDLHARYAERGLRILGFPCNQFGKQ <-
         |||||||||||||||||||||||||||||||| <   145bp    > |||||||||||||||||||||||||||||||||||||||||||||||| < 
Target  QCAHADDWRSAKAIYDFVALDIDGNDVSLEKYR                GDVCIITNVASKUGKTAVNYTQLVDLHARYAERGLRILGFPCNQFGKQ   
        ctgcgggtctgagatgtggcgaggaggtcgatc                gggtaaaaggtatgaaggataccggtcgctggagtcacgtctactgac   
        agcacaaggccactaattctatagaatctaaag                gatgttcatccaggacctaacattatacgacaggtgttgtcgaatgaa   
        gtccgccgcgcgcccccccccctcccgcgagt                gccctccccgccgagaggacctgtctgccactggtaccactcccgtggg   
                                                                     *                                      

Query   --Intron---> EPGTNAQIKAFAEGYGVKFDMFSKIDVNGDDAHPLWKWLKEQPKGRGTLGN <---Intron---> AIKWNFTK <---Intron-
           83bp    > |||||||||||||| |||||||||||||||||||||||||||||||||||| <   131bp    > |||||||| <   258bp  
Target               EPGTNAQIKAFAEGXGVKFDMFSKIDVNGDDAHPLWKWLKEQPKGRGTLGN                AIKWNFTK            
                     gcgaagcaagtgggtggatgataaaggaggggccctatcagccagagacga                gaatataa            
                     acgcacatactcagagtatattgatatagaacactgagtaaacagggctga                ctagatca            
                     gcgcctgcgattgcnaggtcgccgctccgcttcgcgggggggcagactgc                taaagcccg            
                                                                                                            

Query   --> FLINREGQVVKRYSPMEDPI <---Intron---> VIEKDLPAYL
          > |||||||||||||||||||| <    74bp    > ||||||||||
Target      FLINREGQVVKRYSPMEDPI                VIEKDLPAYL
            tcaacggcggaatacaggca                gagagccgtc
            tttagagattagagctaact                ttaaatccat
            cctcgataggggccngatct                gcggcgtccg
                                                          
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 52 ; UGA-SECIS: 424

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 51250 - 51329
 Found by:  Infernal (score=23.05) Covels (score=35.04)
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -23.36

         ..(((((((.......(((((((((((((((...............)))))))))))))))..............)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-----u-uuucaugaccggc
         .((({{(((.--....{[[(((((((((((......-..........)))))))))))]]}..........-...)))}}))).
 target  CUCCUCCAGC--CCCAUGAAGGGCUGCCUCCAAUCC-AGCUGCUGGUGGGGCAGCCCUGACCCACGGCGUG-CACCUGCUGGAC
                         ****           ^^                        ****