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

 Blastx evalue: 7e-64
 Query name: gi|965788681|ref|XP_011965380.2| PREDICTED: selenoprotein O isoform X2 [Ovis aries musimon]
 Query range: 508-682  (total 682)

 Target: /data/www-rg/seblastian_results/725548312/tempfiles/temptarget.fasta
 Chromosome: SJYR01002254.1:subseq_343919,100000_ Strand: +
 Positions:
 -Exon 1  3            187
 -Exon 2  277          433
 -Exon 3  522          704

 Redox box: YES

Query   QLAMMLMLAQSNPQLLALIGTRASLARELERVEQQSRLEQLSEAELHSKNRSRWAAWLHDYR <---Intron---> ARLEKDREASGDVATWQAERTR
        ||/||||||||||||||||||||||||||||||||||||||||||||| |||||| |||||| <    89bp    > |||||||||||| | |||||||
Target  QLSMMLMLAQSNPQLLALIGTRASLARELERVEQQSRLEQLSEAELHSTNRSRWATWLHDYR                ARLEKDREASGDAAAWQAERTR
        cctaacacgctaccccgcagacgacgcgcgcggcctccgccagggccaaaaactgatccgta                gccgagcggagggggtcggcac
        atctttttcacacattcttgcgcgtcgatagtaaacgtaatgacatagcaggggccgtaaag                cgtaaagacggacccgacagcg
        ggcggcggggccggcggcccgggcgtggggcggggggggggcgcggccgcgccgcggcccc                acggggcggccccgtcggtgcat
                                                                                                            

Query   VMRANNPKYVLRNYIAQGAIEAAENGDFSE <---Intron---> VRRVLKLLETPYGGEAEAAEPEGAAEASEVAAETSGAAGRRRSYSSKPPLWAAE
        ||||||||||||||||||||||||/||||| <    88bp    > |||||||||||||||||||||| |||||  |||  |||||||||||||||||||
Target  VMRANNPKYVLRNYIAQGAIEAAESGDFSE                VRRVLKLLETPYGGEAEAAEPEVAAEASGAAAEAGGAAGRRRSYSSKPPLWAAE
        gacgaacatgcaatagcggaggggaggttg                gccgcaccgactggggggggcggggggagggggggggggcccttaaaccctggg
        ttgcaacaattgaatcagctaccaggatca                tggttattaccaggacaccacatccacggcccacggccggggcaggacctgcca
        cgcccccgcgggcctagcctatggccccgg                gggggggggctctggggtcgcggcggccggcggccggccggcccccgcgcgggg
                                                                                                            

Query   LCVTUSS
        |||||||
Target  LCVTUSS
        ctgattt
        tgtcgcc
        gcggacg
            *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 68 ; UGA-SECIS: 74

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SJYR01002254.1:subseq_343919,100000_ Strand = + Positions = 773 - 843
 Found by:  Infernal (score=11.67) Covels (score=19.96)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -15.07

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...(({{((---....{[[{((({((((((..................))))))})))}]]}----..-.))}}))...
 target  UCCCGUCUC---UCCAUGAUGGCAGAGACGUCCAGUCAGGACCUGACCCGUCUCCGCCCGAC----GC-CGACUCGCUA
                         ****           ^^                         ****