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

 Blastx evalue: 2e-36
 Query name: gi|1041116954|ref|XP_017282173.1| PREDICTED: glutathione peroxidase 3 [Kryptolebias marmoratus]
 Query range: 1-219  (total 219)

 Target: /data/www-rg/seblastian_results/819510133/tempfiles/temptarget.fasta
 Chromosome: SSNR01000022.1:subseq_2938026,101326_ Strand: +
 Positions:
 -Exon 1  34305        34370
 -Exon 2  50003        50153
 -Exon 3  50234        50351
 -Exon 4  50811        50910
 -Exon 5  51129        51347

 Redox box: no

Query   MWTFFPLLLLALPRPCAGAALTQ <---Intron---> MCDSSADGTIYKYHAKTLNGSHTVNFTDYTGKCVLFVNVATYUGLTLQYVE <---Intro
        || | | ||||| || |||| || <  15632bp   > ||||| ||||||| ||||||||||||/|| |/ /||||||||||||||||| <    80bp
Target  MWRFLP-LLLALLRPSAGAAFTQ                MCDSSTDGTIYKYQAKTLNGSHTVNFSDYAGRSILFVNVATYUGLTLQYVE          
        atcttc-cccgccacaggggtac                atgttaggaatatcgaacagacagatagtggaaactgaggattgtacctgg          
        tggttc-tttcttgcgcgcctca                tgacccagctaaaacactaggactatgaacgggttttatccaggtctaat           
        ggccag-ggctggacccagccag                gtcacctccccacgggtacttcggcctcctagcccctcctacaaactgtg           
                                                                                         *                  

Query   n---> LNALHEELKHHGFTVLGFPCNQFGKQEPGQKDEILPGLK <---Intron---> HVRPGNGFVPNFLLFEKGDVNGEAEQEVFTFLK <---I
            > |||||// | || |||||||||||||||||/ ||||||| <   459bp    > |||||||/||||||||||||||/ ||||||||| <   2
Target        LNALHQDFKDHGLTVLGFPCNQFGKQEPGQRHEILPGLK                HVRPGNGYVPNFLLFEKGDVNGKNEQEVFTFLK      
              cagcccgtagcgcagcgtctactgacgcgcacgaccgta                cgacgagtgcatcctgagggagaagcggtatca      
             atactaaataaagtcttgtcgaatgaaacgagaattcgta                atgcgagatcattttaagatagaaaaattctta      
             agtagcgctatctcttcctcccgtcaaagagacacgata                gccaactgttaccggtgattgtgatgaatcacta      
                                                                                                            

Query   ntron---> NSCPPAGADFGAVNGRLFWEPLKISDIKWNFEKFLVGPDGKPVMRWHPRVSVSEVRADIRKYLLQLYTQAIFS
        18bp    > ||||| | |||  |||||||||||||||||||||||||||||| |||||||/|||| |||||||||||| ||/
Target            NSCPPVGDDFGDPNGRLFWEPLKISDIKWNFEKFLVGPDGKPVKRWHPRVSISEVRDDIRKYLLQLYTQDIFN
                  attccggggtggcagatttgccaaagaatatgatcggcggacgaatcccgaatggcggacatcccctacgata
                  acgcctgaatgacaggttgactatgatagataatttgcagactaggacgtgtcatgaatgaattatacaatta
                  ccctaggtctacttcagcggttgctccggctggcggaatgggggggcatccacgcatcttacttgacggtctt
                                                                                           
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 78 ; UGA-SECIS: 537

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SSNR01000022.1:subseq_2938026,101326_ Strand = + Positions = 51426 - 51503
 Found by:  Infernal (score=21.07) Covels (score=24.37)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -9.11

         ..(((((((.......(((((((((((((((................)))))))))))))))..........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ..(({([((.--....([[((((((((({(..................)})))))))))]])......-...))])}))..
 target  GAUGACAUGU--UAAAUGAAGAGGAGGCUUGAAAACAGGAAUUCUGUGGUGCUUCCUCUGAGUCUGGG-GUUCAGGCUGGC
                         ****           ^^^                        ****