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

 Blastx evalue: 8e-23
 Query name: gi|302129658|ref|NP_001180475.1| selenoprotein U [Oncorhynchus mykiss]
 Query range: 1-212  (total 212)

 Target: /data/www-rg/seblastian_results/409981306/tempfiles/temptarget.fasta
 Chromosome: CM007957.1:subseq_25135834,123560_ Strand: +
 Positions:
 -Exon 1  67155        67299
 -Exon 2  71148        71239
 -Exon 3  71443        71583
 -Exon 4  73069        73233
 -Exon 5  73480        73572

 Redox box: YES

Query   MGIWSLGLGALGAAIAGIFLANTDLCLTKAAQASLEYLEDADLHSTGDD <---Intron---> EKTMKAKTLWEKTGAVVMAVRRPGUFLCRE <---
        ||||||||||||||||||||||||||||||||||||||||||||||||| <   3848bp   > |||||||||||||||||||||||||||||| <   
Target  MGIWSLGLGALGAAIAGIFLANTDLCLTKAAQASLEYLEDADLHSTGDD                EKTMKAKTLWEKTGAVVMAVRRPGUFLCRE     
        agattcgcggtgggaggatcgaagctcaaggcgtcgtcggggcctaggg                gaaaagaactgaaggggaggcccgttttag     
        tgtgctgtgctgcctcgtttcacatgtcaccacctaataacataccga                aaactacactgaacgctttctggcggttgga     
        ggtgtgtggcaaaccagccgtttcgtgcgttgcggacggcactcctac                tggcggcatggggcaaccgtaagcaatgcag     
                                                                                                 *          

Query   Intron---> EASELSSLKTQLEVLGVPLVAVVKENIGTEIQDFRPYFAGDIYVDVK <---Intron---> HHFYGPLQRKMGGLGFIRRGVWQNFM
        203bp    > ||||||||||||||||||||||||||||||||||||||||||||||| <   1485bp   > ||||||||||||||||||||||||||
Target             EASELSSLKTQLEVLGVPLVAVVKENIGTEIQDFRPYFAGDIYVDVK                HHFYGPLQRKMGGLGFIRRGVWQNFM
                   ggtgcttcaaccggcggccggggagaagagacgtccttgggatggga                ccttgcccaaaggcgtaccggtcata
                   accatcctacatattgtcttcttaaatgcataatgcatcgatatata                aatagctagatggtgttgggtgaatt
                   gctggctgacgtgtttctgtcggggcccggcgccaacttgcctacgg                tcctcaaggggaggacctgggggccg
                                                                                                            

Query   RAWKAGYQGNMLGEGFVLXGVFVIGAGNQ <---Intron---> GILLEHREKEFGNKVENEDVLEAVNRIVPVQ
        |||||||||||||||||| |||||||||| <   246bp    > |||||||||||||||||||||||||||||||
Target  RAWKAGYQGNMLGEGFVLGGVFVIGAGNQ                GILLEHREKEFGNKVENEDVLEAVNRIVPVQ
        cgtaggtcgaacgggtgcgggtgagggac                gactgcagagtgaaggagggtgggaaagcgc
        gcgacgaagattgagtttggttttgcgaa                gtttaagaaatgaataaaattactagttcta
        gcggctcgccggggctcgatgtcccggtg                tttggcggggtccaggtattagtgtatgaga
                                                                                    
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 934 ; UGA-SECIS: 1348

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007957.1:subseq_25135834,123560_ Strand = + Positions = 74507 - 74577
 Found by:  Infernal (score=29.43) Covels (score=27.16)
 Stem2 length = 9   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -10.16

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((((.---....{[[{(((((([{({(...............)})}]))))))}]]}----.....))))))..
 target  UCUGUGUUA---UUAAUGAAGACCUGACUGUAAACUCGGCAACGAGGGGAGCAGGUUCGAU----AUCCAAACACACA
                         ****           ^^^                       ****