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

 Blastx evalue: 1e-38
 Query name: gi|984140619|ref|XP_015362382.1| PREDICTED: selenoprotein O, partial [Marmota marmota marmota]
 Query range: 1-487  (total 487)

 Target: /data/www-rg/seblastian_results/282079202/tempfiles/temptarget.fasta
 Chromosome: QVIC01000590.1: Strand: +
 Positions:
 -Exon 1  54204        54436
 -Exon 2  55809        55999
 -Exon 3  64203        64592
 -Exon 4  66778        66928
 -Exon 5  67485        67670
 -Exon 6  67805        67961
 -Exon 7  68040        68192

 Redox box: YES

Query   QALASVFDFRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGTCVTSESTVVRDVFYDGNPKHEKCTVVLRMAPTFIR <---Intron---> FGSFEI
        |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| <   1372bp   > ||||||
Target  QALASVFDFRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKHEKCTVVLRMAPTFIR                FGSFEI
        cgcgtgtgtacgggcagcctaacgtctaggatccggcaacgggtgatgtaggcggttggacacgataggtcagcataa                tgttga
        actccttatgacaggattgcgtgattggacttatgtcccgcgcgtccaccttgattaagacaaaagctttgtcccttg                tgctat
        gagctgttcagctccacgggccgatcctgcgccggtccagtgcccatgcgggtcgcttttaacagcatggagtcccc                gtactgt
                                                                                                            

Query   FKPADEHTGRAGPSVGRNDIRVQMLDYVIGSFYPEIQAAHAHCSNQVQRNVAFFREVG <---Intron---> RRTRAIQSQGRTGWWPHRARPLGVSF
        |||||||||||||||||||||||||||||||||||||||||||// |||||||||||| <   8203bp   > ||||||| ||||||||||||||||||
Target  FKPADEHTGRAGPSVGRNDIRVQMLDYVIGSFYPEIQAAHAHCTDHVQRNVAFFREVG                RRTRAIQGQGRTGWWPHRARPLGVSF
        tacgggcagcggcaggcagaagcacgtgagtttcgacggcgctagcgcaaggttcggg                aaaagacgcgaagttccagcccggtt
        taccaaacggcgcgtggaatgtattaattgctacataccacagcaatagatcttgat                gggcgctagaggcgggcagcgctgtct
        tgtttgtggtatccgagtccacggtctgtctcctacgtccccctctgggcgcccaga                caacgccgtgcgcgggacgcctgtgcc
                                                                                                            

Query   TALQSGLCGRYDPDHVCNASDDAGRYSYSRQPEVCKWNLRKLAEALEPELPRELAEAALEEEFDSDFQRHYLQKMRSKLGLVRVAQDGDGALVARLLETM
        |||||||||||||||||||||||||||||||||||||||||||||| |||| |||||||||||||/|||||||||| |||||||||||||||||||||||
Target  TALQSGLCGRYDPDHVCNASDDAGRYSYSRQPEVCKWNLRKLAEALAPELPLELAEAALEEEFDSEFQRHYLQKMRRKLGLVRVAQDGDGALVARLLETM
        agcctgctgatgcgcgtagtggggctttaaccggtataccacgggcgcgcccgcggggcgggtgtgtcactccaaccacgcgcggcgggggcggaccgaa
        cctacgtgggaacaatgaccaacggacaggacatgagatgatcactccatctatcacctaaatacatagaataatggatgttgtcaagagcttcgttact
        aaggtcgtcgcctccgcttgcccgccgccggcggcggcggggggaggcggccgataccggggtccgcagccggggctgcccatgagcgtaaggcgcggcg
                                                                                                            

Query   HQTG <---Intron---> ADFTNTFSLLSSFPLEPQSPGLAEFLTTLTSQCASLEELRLAFRPQMDPR <---Intron---> QLSMMLMLAQSNPQ
        |||| <   2185bp   > |||||||||||||||||||||||||||||||||||||||||||||||||| <   556bp    > ||||||||||||||
Target  HQTG                ADFTNTFSLLSSFPLEPQSPGLAEFLTTLTSQCASLEELRLAFRPQMDPR                QLSMMLMLAQSNPQ
        ccag                ggtaaatttcattccgcctcgtggtcaacatctgtcggcacgtcccagcc                cctaacacgctacc
        aac                gcatcactcttgctctacaccgtcattcctccagcctaatgtctgcatacg                atctttttcacaca
        cgt                tcccaccccggcccgcgagatcgtacgccgcggcccgggggtccgcggtc                ggccggcgggggcag
                                                                                                            

Query   LFALIGTQANLARELDRVEQQSRLEQLSPEELQSRNRGRWADWLQEYR <---Intron---> ARLERDMEGAGDVAAWQAERVRVMKANNPKYVLRNY
        |||||||||||||||||||||||||||||||||||||||||||||||| <   134bp    >  |||||||||||||||||||| ||||||||||||||
Target  LFALIGTQANLARELDRVEQQSRLEQLSPEELQSRNRGRWADWLQEYR                VRLERDMEGAGDVAAWQAERVHVMKANNPKYVLRNY
        ctgcagacgacgagcgcggcctccgccacggccaaaagctggtccgtc                gccgagaggggggggtcggcgcgaagaacatgcaat
        ttcttgcacatcgatagtaaacgtaatgcaataggaggggcagtaaag                tgtagatagcgatccgacagtattacaacaattgaa
        ccactccgacgagggccggggagggggccggggcgcgccgtcgggac                acggggcggtcctggcggagagcgggccccgccggcc
                                                                                                            

Query   IAQSAIEAAEKGDFSE <---Intron---> VRRVLKLLESPYHSDGEVAGGSEAAEAAPGGQSYSSKPPLWAAELCVTUSS
         ||||||||||||||| <    78bp    > ||||||||||||||||| ||||||||| |||||||||||||||||||||||
Target  XAQSAIEAAEKGDFSE                VRRVLKLLESPYHSDGEAAGGSEAAEAVPGGQSYSSKPPLWAAELCVTUSS
        agcagaggggaggttg                gccgcaccgtctcagggggggtggggggcggcttaaaccctgggctgattt
        tcagctaccaagatca                tggttattaccaagagaccggcaccactcggacaggacctgccatgtcgcc
        nagcccgccgggccag                agggggggattccttgagtactgtggactgagctccgcacgaaggtgaacg
                                                                                        *  
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 62 ; UGA-SECIS: 68

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = QVIC01000590.1: Strand = + Positions = 68255 - 68329
 Found by:  Infernal (score=22.74) Covels (score=19.38)
 Stem2 length = 9   Apical loop length = 20   Insertion in stem2 = 0, 0
 Free Energy = -19.25

         ..(((((((........(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((........([[((((((((((....................))))))))))]])----..-.)))))))..
 target  CCCUGAGCUUCUCUCCAUGAUGGCAGAGACCUCCAGUCAGACCCUGACCAGUCUCUGUUGGAA----GC-CAGCUCAGCA
                          ****           ^^                         ****