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

 Blastx evalue: 8e-10
 Query name: gi|212286165|ref|NP_001131075.1| selenoprotein O [Canis lupus familiaris]
 Query range: 16-513  (total 513)

 Target: /data/www-rg/seblastian_results/981848210/tempfiles/temptarget.fasta
 Chromosome: gi|431899529|gb|KB030957.1|:subseq_447545,51000_ Strand: -
 Positions:
 -Exon 1  8461         8696
 -Exon 2  7095         7275
 -Exon 3  6315         6445
 -Exon 4  5649         5929
 -Exon 5  2618         2768
 -Exon 6  1390         1575
 -Exon 7  1090         1246
 -Exon 8  812          991

 Redox box: YES

Query   DAAVTCVCDFRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGACVTSQSTVVRDVFYDGNPKYEKCTVVLRIASTFLR <---Intron---> FGSFE
           || | | ||||||||||||||||||||||||||/|||||||||||||||||||||||||| | | ||||/| |||| <   1185bp   > |||||
Target  SGTVTSVLDSRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSQSTVVRDVFYDGNPKQEPCAVVLRVAPTFLR                FGSFE
        agagatgcgtacgggcagcctaacgtctaggatccggcaacgggtgatctaggcggttggacacgctgggccggcatca                tgttg
        ggctccttacgacaggattgcgtgattggacttatgtcccgcgcgtccaccttgattaagacaaacgctttgtcccttg                tgcta
        ccagctgttcagctccgcgccccggcgccgcgccggcccggagctcgggcgggtcgctctccggggcgcggtaccccc                gcaccg
                                                                                                            

Query   IFKPADEHTGREGPSVGRNDIRVQMLDYVIGTFYPEIQAAHTEDRVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSI
        ||||||| ||| |||||||||||||||||/|||||||||||  | |||||||||| <   649bp    > |||||||/|||||||||||||||||||||
Target  IFKPADERTGRAGPSVGRNDIRVQMLDYVVGTFYPEIQAAHASDSVQRNAAFFRE                VTRRTARLVAEWQCVGFCHGVLNTDNMSI
        atacgggcagcggcaggaagacgcacgtgggattcgacggcgagagcaaggttcg                gaccagctgggtctggttcggcaagaaaa
        ttaccaagcggcgcgtggaatgtattaattgctacataccacgagtagaccttga                tcggccgttcagagtgtgagttacaatgt
        ccgggcgcggcgcctgggcccctgggctgccgcccgcgcccccccgggccccccg                gatcacgggcgggtcccccccccgccgcc
                                                                                                            

Query   VGLTIDYGPFGFLDR <---Intron---> YDPDHVCNASDNAGRYTYSKQPEVCKWNLQKLLEALEPELPRELGEAILAEEFDSEFRRHYLQKMRRKL
        /|||||||||||||| <   385bp    > |||||||||||||||||||||||||/|||/|| ||||||||  | |||||||/|/||||||| ||||||
Target  MGLTIDYGPFGFLDR                YDPDHVCNASDNAGRYTYSKQPEVCRWNLRKLAEALEPELPLALAEAILAEEYDAEFRRHYLHKMRRKL
        agcaagtgctgtcga                tgcgcgtagtgaggctataaccggtataccacgggcgcgcccgcgggacgggtgggtcactccaacaac
        tgtctaagctgttag                aacaatgaccaacggacagaacatgggatgatcactacatctctcacttcaaaacatggaataatggat
        ggcccccgccccgc                gcctccgctcccccgccgccggtggcggcggggcgcggcggcgggcgccgcggcccgccgccgcggcggg
                                                                                                            

Query   GLVRTELDDDGALVAKLLETMHLTG <---Intron---> ADFTNTFYVLSSFPVGPEALGLPEFLAALTAQCASLEELKLAFRPQMDPR <---Intr
        |||||| //| ||||/||||| ||| <   2880bp   > ||||||| /|||| ||||| || / | ||| ||||||||/|||||||||| <   1042
Target  GLVRTEQEEDAALVARLLETMQLTG                ADFTNTFCLLSSFLVGPEAPGLDDILTALTTQCASLEELRLAFRPQMDPR         
        gcgcagcgggggcggaccgaaccag                ggtaaattccattcggcggcgcggatagcaactgtcggcacgtcccagcc         
        gttgcaaaaaccttcgttactatc                gcatcactgttgctttgcaccgtaattcctccagcctaatgtctgcatacg         
        ccggcggggccgggcgcggcgggc                ctcccccctggcccgggagaacacccgtggcagtccgggggcccccggcc          
                                                                                                            

Query   on---> QLSMMLMLAQSNPQLFALIGTRANVTKELERVEQQSRLEQLSPAELLSKNQGHWADWLQQYR <---Intron---> ARLEKDREGVSDEEA
        bp   > ||||||||||||||||||/|// |/||||||||||||||||||||||| |/ ||| |||/|| <   143bp    > |||||||||  |   
Target         QLSMMLMLAQSNPQLFALLGSQTNITKELERVEQQSRLEQLSPAELLSMNKDHWATWLQEYR                ARLEKDREGAGDAAT
               cctaacacgctaccctgccgtcaaaaagcgcggcctccgccacggccaaaagctgatccgta                gccgagaggggggga
               atctttttcacacattcttgcacatcaatagtaaacgtaatgccattgtaaaagccgtaaag                cgtaaagagcgaccc
              ggccgggggggccggccgcccggaccgggggtagggggcgggcaggggcgcgccgctggggc                acggggcggtcgcccc
                                                                                                            

Query   WQAERMRVMHANNPKYVLRNYIAQNAIEAAENGDFSE <---Intron---> VRRVLELLETPYHRAEEAARVPEATEPEGASGA--DSGGH-SYSSKP
        |||||/| |||/|||/|||||||  |||||||||||| <    98bp    > ||/||/||||||||  ||  | /| ||||| ||  //|   ||||||
Target  WQAERVRTMHASNPKHVLRNYIAHRAIEAAENGDFSE                VRKVLKLLETPYHRDTEAPEVLDAAEPEGAGGAGGEAGRRGSYSSKP
        tcggcgcaacgaacacgccatagcagaggggaggttg                gcagcaccgactcagaggcggcggggcgggggggggggacgttaaac
        gacagtgctacgacaattgaatcagctaccaagatca                tgattattaccaagacaccattaccacagcggcggacggggcaggac
        ggtgtgtcgcccccgcgagcccgcgccgtcgcaccag                gagggggggtatcgcggccgcgtccgtgggtggcggtcgacccccgc
                                                                                                            

Query   PLWAAELCVTUSS
        |||||||||||||
Target  PLWAAELCVTUSS
        cctgggctgattt
        ctgccatgtcgcc
        gcgtagccccacg
                  *  
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 98 ; UGA-SECIS: 104

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|431899529|gb|KB030957.1|:subseq_447545,51000_ Strand = - Positions = 713 - 643
 Found by:  Infernal (score=13.06) Covels (score=21.96)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -14.67

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..({({{((---(...{[[{{(((((((((..................)))))))))}}]]}----..-)))}})})..
 target  CACCGCCUC---UCCAUGACAGCAGAGACGUCCAGUCAGGACCUGACCCGUCUCUGUCCGAC----GC-GGACUCAGCA
                         ****           ^^                         ****