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

 Blastx evalue: 6e-66
 Query name: gi|212286165|ref|NP_001131075.1| selenoprotein O [Canis lupus familiaris]
 Query range: 14-513  (total 513)

 Target: /data/www-rg/seblastian_results/990783805/tempfiles/temptarget.fasta
 Chromosome: gi|432091612|gb|KB112774.1|:subseq_1200000,100000_ Strand: +
 Positions:
 -Exon 1  37085        37326
 -Exon 2  38442        38622
 -Exon 3  39358        39488
 -Exon 4  39836        40116
 -Exon 5  43361        43508
 -Exon 6  44268        44453
 -Exon 7  44568        44724
 -Exon 8  44823        44993

 Redox box: YES

Query   PRDAAVTCVCDFRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGACVTSQSTVVRDVFYDGNPKYEKCTVVLRIASTFLR <---Intron---> FGS
        |   ||| | | ||||||||||||/|||||||||||||/|||||||||||/||||||||||||||/| | ||||||||||| <   1115bp   > |||
Target  PASTAVTSVFDSRQADGRKVLRSSVREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKHEPCAVVLRIASTFLR                FGS
        cgaaggatgtgtacgggcagcctagcgtctaggatccggcaacgggtgatgtaggcggttggacacgctgggtcagtatca                tgt
        ccgcctccttacgacaggattgcgtgattggacttatgtcccgcgcgtccaccttgattaagacaaacgctttgtcccttg                tgc
        cccccgctgttcagccccgcggcccggcgccgcgccggcccgcccctcgcgcgcgctgccccccgcggcgcggaaccccc                gcgc
                                                                                                            

Query   FEIFKPADEHTGREGPSVGRNDIRVQMLDYVIGTFYPEIQAAHTEDRVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNM
        |||||  |||||| |||||||||||||||||/ |||||||| |  | |||||||||| <   735bp    > |||||||||||||||||||||||||||
Target  FEIFKAEDEHTGRAGPSVGRNDIRVQMLDYVVSTFYPEIQATHASDSVQRNAAFFRE                VTRRTARMVAEWQCVGFCHGVLNTDNM
        tgataggggcagcggcaggaagacgcacgtggaattcgacgacgagtgcaaggttcg                gaccagcagggtctggttcggcaagaa
        tattacaaaacggcgcgtggaatgtattaattgctacataccacgactagaccttga                tcggccgttcagagtgtgagttacaat
        tgctgtgtgcgctgcccgggctcccgggctgccgcctacgcgcccccgggctccctg                gatcgcgggtgggtccccccgccgccg
                                                                                                            

Query   SIVGLTIDYGPFGFLDR <---Intron---> YDPDHVCNASDNAGRYTYSKQPEVCKWNLQKLLEALEPELPRELGEAILAEEFDSEFRRHYLQKMRR
        ||||||||||||||||| <   347bp    > ||||||||||| ||||//|||||||||||||| ||| |||| | ||||||||/|/|| |||| ||||
Target  SIVGLTIDYGPFGFLDR                YDPDHVCNASDTAGRYSFSKQPEVCKWNLQKLAEALVPELPLEQGEAILAEEYDAEFHRHYLSKMRR
        aaggcaagtgctgtcga                tgcgcgtagtgaggctttaaccggtataccacgggcgcgcccgcgggacgggtgggtcactcaaaca
        gttgtctaagctgttag                aacaatgaccaccggactgaacatgagataatcacttcatctaagacttcaaaacatagaatgatgg
        ctggcccccgctccgc                gccccccctcgctcgccgccggtggcggcggggcgcggcggccggcgccgcggcccgccgccgcggcg
                                                                                                            

Query   KLGLVRTELDDDGALVAKLLETMHLTG <---Intron---> ADFTNTFYVLSSFPVGPEALGLPEFLAALTAQCASLEELKLAFRPQMDPR <---In
        |||||/ | //| |||||||||||||  <   3244bp   > |  |||||/|||||||||| ||  || ||| ||||||||/|||||||||| <   75
Target  KLGLVQAEREEDAALVAKLLETMHLTV                A-ITNTFYLLSSFPVGPEAPGLAGFLTALTEQCASLEELRLAFRPQMDPR       
        acgcgcggcgggggcggaccgaaccag                g-aaaattccattcggcggcgcggtcagcagctgtcggcccgtcccagcc       
        atgttacagaaaccttcattactatc                tc-tcactattgctctgcaccgtcgttcctcaagcctaatgtctgcatacg       
        ggccggtggggcggggcgcggcgcgg                ac-cgccccggcccaggcgtgcgggcgtgggggcccgggggtctgcggcc        
                                                                                                            

Query   tron---> QLSMMLMLAQSNPQLFALIGTRANVTKELERVEQQSRLEQLSPAELLSKNQGHWADWLQQYR <---Intron---> ARLEKDREGVSDE
        9bp    > |||||||||||||||||||||||||||||||||||/||||||||||||/|/| ||||||//| <   114bp    >  |||/|||| /|/
Target           QLSMMLMLAQSNPQLFALIGTRANVTKELERVEQQARLEQLSPAELLSRNRGRWADWLQEFR                TRLEQDREGAADK
                 cctaacacgctaccctgcagacgagaagcgcggccgccgccacggccaaaagctggtccgta                aacgcgaggggga
                 atctttttcacacattcttgcgcatcaatagtaaacgtaatgccattggaggggcagtaatg                cgtaaagagccaa
                ggccgggggggacggccgccccgcccgggggcggggggggggcgcgggcgcgccgccggggc                gcggggcggccccg
                                                                                                            

Query   EAWQAERMRVMHANNPKYVLRNYIAQNAIEAAENGDFSE <---Intron---> VRRVLELLETPYHRAEEAARVPEATEPEGASGADSGGHSYSSKPP
        /||||||/||||||||||||||||||||||||||||||| <    98bp    > |||||/||| ||||  ||  | ||||||||        |||||||
Target  DAWQAERVRVMHANNPKYVLRNYIAQNAIEAAENGDFSE                VRRVLKLLEAPYHREGEATEVLEATEPEGAGSTAERRLSYSSKPP
        ggtcggcgcgacgaacatgccatagcagaggggaggttg                gccgcaccggctcaggggaggcggagcggggaaggaccttaaacc
        acgacagtgttacaacaattgaatcaactaccaagatca                tggttattaccaagagaccattaccacagcggccaggtcaggacc
        ccggtgcgtcgcccccgtcggcccggcccgtcgcaccag                gggggggggcgccggggctgcggcggtggcccaaggccccccgcg
                                                                                                            

Query   LWAAELCVTUSS
        ||||||||||||
Target  LWAAELCVTUSS
        ctgggctgattt
        tgccatgtcgcc
        cgacggtggacg
                 *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 84 ; UGA-SECIS: 90

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|432091612|gb|KB112774.1|:subseq_1200000,100000_ Strand = + Positions = 45078 - 45148
 Found by:  Infernal (score=22.81) Covels (score=28.56)
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -12.77

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..({({{((---....{[[{((((((((((..................))))))))))}]]}----..-.))}})})..
 target  CCCCGUCUC---UCCAUGACGACAGGGACGUCCAGUCAGGACCUGACCCGUCUCUGUCUGAC----AC-CGACUCAGCA
                         ****           ^^                         ****