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

 Blastx evalue: 2e-61
 Query name: gi|946790751|ref|XP_014404667.1| PREDICTED: selenoprotein O [Myotis brandtii]
 Query range: 47-542  (total 542)

 Target: /data/www-rg/seblastian_results/575142059/tempfiles/temptarget.fasta
 Chromosome: JSZB01004690.1:subseq_40000,113000_ Strand: +
 Positions:
 -Exon 1  59152        59381
 -Exon 2  60710        60890
 -Exon 3  62143        62273
 -Exon 4  62673        62953
 -Exon 5  65237        65387
 -Exon 6  66261        66446
 -Exon 7  66550        66706
 -Exon 8  66794        66964

 Redox box: YES

Query   AVTSVFDSRQADGRKVLRSSVREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKLEPCAVVLRIASTFLR <---Intron---> FGSFEIF
         |||||||||||||||||||/|||||||||||||/|||||||||||/|||/||/||||||| ||| ||||||||||| <   1328bp   > |||||||
Target  TVTSVFDSRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGACVTSQSTVMRDMFYDGNPKYEPCTVVLRIASTFLR                FGSFEIF
        agatgtgtacgggcagcctaacgtctaggatctgacaacgggtgatctagacgattggacatgctaggtcagtatca                tgttgat
        ctccttacgacaggattgcgtgattggacttatgtcccgcgcgtccaccttgattaagacaaacgctttgtcccttg                tgctatt
        agctgttcagcttcacggatcggcgccacgccggcccagcgcccacgcccgccgcttttaacaacgtggtatctca                gtgctgtt
                                                                                                            

Query   KAEDEHTGRAGPSVGRNDIRVQMLDYVVSTFYPEIQATHASDSVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSIVG
        |  ||||||/||||||||||||/||||/ |||||||| |   ||||||||||| <   1252bp   > |||||||||||||||||||||||||||||||
Target  KPADEHTGRSGPSVGRNDIRVQILDYVIGTFYPEIQAAHGGHSVQRNAAFFRE                VTRRTARMVAEWQCVGFCHGVLNTDNMSIVG
        acgggcagctgcaggaagacgcacgtgagattcgacggcggcagcaaggttcg                gaccagcagggtctggttcggcaagaaaagg
        accaaacggcgcgtggaatgtattaattgctacataccaggagtagaccttga                tcggccgttcagagtgtgagttacaatgttg
        gtacgcagcccctggacctaggagctgtcctcgacgttcccccgggtccctgg                ggccgcgggtgggttcccccgccgccgccgg
                                                                                                            

Query   LTIDYGPFGFLDR <---Intron---> YDPDHVCNASDTAGRYSFSKQPEVCKWNLQKLAEALVPELPLEQGQAILAEEYDAEFRRHYLSKMRRKLGL
        ||||||||||/|| <   399bp    > |||||||||||  ||||/|||||||||||||||||| |||| | |/||||||/|  |||||| ||||||||
Target  LTIDYGPFGFMDR                YDPDHVCNASDNTGRYSYSKQPEVCKWNLQKLAEALEPELPHELGKAILAEEFDTTFRRHYLQKMRRKLGL
        caagtgctgtaga                tgcgcgtagtgaagctttaaccggtataccacgggcgcgcccgcgagacgggtgaatcactccaaccacgc
        tctaagctgttag                aacaatgaccaacggacagaacatgagataatcactacatcaatgacttcaatacctggaataatggatgt
        cctccgccccgc                gcccccgctatcctgccgccggtggcagcggggcgcagcggccggcaccgcggtccgctgccggggcgggcc
                                                                                                            

Query   VQAEREEDAALVAKLLETMHLTG <---Intron---> ADFTNTFYLLSSFPVGPEAPGLAEFLTALTEQCASLEELRLAFRPQMDPR <---Intron
        |/|||||| |||||||||||||| <   2283bp   > ||||||| |||||| ||// || ||||||| ||||||||||||||||||| <   873bp 
Target  VRAEREEDGALVAKLLETMHLTG                ADFTNTFSLLSSFPAGPQSLGLDEFLTALTAQCASLEELRLAFRPQMDPR           
        gcggcgggggcggaccgaaccag                ggtaaattccattcggcctcgcggtcagcagctgtcggcacgtcccagcc           
        tgcagaaagcttcattactatc                gcatcactcttgctccgcactgtaattcctccagcctaatgtctgcatacg           
        ggcggggtgcggcgcggcgcgc                ctcccccccggcccacgagtgcgcgcgcggcagtccgaggggccgcggtt            
                                                                                                            

Query   ---> QLSMMLMLAQSNPQLFALIGTRANVTKELERVEQQARLEQLSPAELLSRNRGHWADWLQEYR <---Intron---> TRLEQDREGAADEDAWQ
           > ||||||||||||||| ||||||||/||||||||||/|||||||  |||||| ||  |||||| <   103bp    >  |||/||| |  / |||
Target       QLSMMLMLAQSNPQLLALIGTRANLTKELERVEQQSRLEQLSPDALLSRNRAHWDLWLQEYR                ARLEKDREDAGGDAAWQ
             cctaacacgctaccccgcagacgacaagcgcggcctccgccacggccaaaagctgctccgta                gccgagcggggggggtc
             atctttttcacacattcttgcgcatcaatagtaaacgtaatgcacttggagcagatgtaaag                cgtaaagaacggaccga
            ggccggggggggcggcgactccgcctcggggtgggggaggggtatgggcgcgccgccgcggc                acggggcaacacgttcgg
                                                                                                            

Query   AERMRVMHANNPKYVLRNYIAQNAIEAAENGDFSE <---Intron---> VRRVLKLLEAPYHREGEAAEVLEAAEPEGAGSTAERRRSYSSKPPLWAA
        || | |||||||||/||||/||||||||||||||| <    87bp    > |/|||||||||| |/|/ |/|||| |   |   |  /  ||||||||||
Target  AEHMSVMHANNPKYILRNYMAQNAIEAAENGDFSE                VQRVLKLLEAPYARDGDTAQVLEATELGEASGAAGGQHPYSSKPPLWAA
        ggcaagacgaacataccatagcagaggggaggttg                gccgcaccggctgagggagcgcggagcgggagggggccctaaaccctgg
        caatgttacaacaattgaatcaactaccaagatca                tagttattaccacgagaccattaccatgacggccggaacaggacctgcc
        cgcgtcgcccccgtcggccgcgcctgtcgtgccag                aggggggggccccgtgcacgggacagtggataattggcccccgcacgta
                                                                                                            

Query   ELCVTUSS
        ||||||||
Target  ELCVTUSS
        gctgattt
        atgtcgcc
        ggtgaacg
             *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 90 ; UGA-SECIS: 96

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JSZB01004690.1:subseq_40000,113000_ Strand = + Positions = 67055 - 67132
 Found by:  Infernal (score=16.94) Covels (score=20.94)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -12.01

         ..(((((((........(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...(((({(........{[[{(((({(((((..................)))))}))))}]]}..--....)}))))...
 target  CCAUGCCCACCUCUCCAUGACGGCAGAGAUGCCCAGUCAAGACCUGACCCGUCUGUGUCUGAUGC--GGACUCGGCAGCC
                          ****          ^^                          ****