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

 Blastx evalue: 6e-60
 Query name: gi|226443071|ref|NP_001140181.1| selenoprotein V [Pan troglodytes]
 Query range: 1-346  (total 346)

 Target: /var/www/seblastian_output/744642751/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  53472        54292
 -Exon 2  50512        50536
 -Exon 3  50351        50404
 -Exon 4  50167        50241
 -Exon 5  50000        50074

 Redox box: YES

Query   MNNQARTPAPSSARTSTSVRASTPTRTPTPLRTPTPVRTRTPIRTLTPVLTPSPAGTPPLVLTPAPAQIPTLVPTPALARIPRLVPPPAPAWIPTPVPTP
        ||||||||||||||||||||||||||||||||||||||||||||| |||||||||  | ||  |||| ||| |||||||||| |||||| ||||||||||
Target  MNNQARTPAPSSARTSTSVRASTPTRTPTPLRTPTPVRTRTPIRTQTPVLTPSPARLPALVQPPAPAHIPTQVPTPALARIPGLVPPPARAWIPTPVPTP
        aaacgcacgcttgcatatgcgtacacacacccacacgcacacacacacgcactcgcccgcgcccgcgcacacgcacgcgcacgcgcccgcgtacacgcac
        taaacgcccccccgcccctgcccccgcccctgcccctgcgcctgcaccttcccccgtccttacccccatccatcccctcgtcgttccccgcgtccctccc
        gtcgggcacccgggcacacgttcgcgagtacgcgtacgtgcccgcgtacgtgtgcgtctgcgtctacccctgcgtctgcgactgtgtttgcgcttgcgtt
                                                                                                            

Query   VPVRNPTPVPTPARTLTPPVRVPAPA----PAQLLAGIRAALPVLDSYLAPALPLDPPPEPAPELPLLPEEDPEPAPSLKLIPSVSSEAGPAPGPLPTRT
          ||||||||||||||||||||||||    |||/||||| ||| |||| |||| || ||||||| || |||||||||||||| ||||||||| ||||  |
Target  ARVRNPTPVPTPARTLTPPVRVPAPAPAPDPAQVLAGIRTALPALDSYPAPALSLDSPPEPAPEPPLSPEEDPEPAPSLKLISSVSSEAGPALGPLPAHT
        gcgcacacgcacgcacaccgcgcgcgcgcgcgcgcggacagccgtgttcgcgcttgtccgcgcgccttcgggcgcgcacacattgtagggcgcgcccgca
        cgtgaccctccccgctccctgtcccccccaccattcgtgcctcctacacccctctacccacccacctccaaacacccgtattcctcgacgcctgctccac
        tccgcatacgtgtgcgttacgcacacacacccgcgggtgcgcccgcccgcgcatgtgcgattgggtggcggcaggcgcggccggcccgcgccggatctct
                                                                                                            

Query   PLAANSPGPTLDFTFRADPSATGLADPPIPSPVPSPILGTIPSAISLQNSTETFPSSSENFALDKRVLIRVTYC <---Intron---> GLUSYSLRY 
        |||| | |||||||||||||||||||  ||||||/|||||||||/||||| ||  |/||||||||||||||||| <   2935bp   > ||||||||| 
Target  PLAAKSSGPTLDFTFRADPSATGLADLHIPSPVPAPILGTIPSALSLQNSAETLVSTSENFALDKRVLIRVTYC                GLUSYSLRY 
        ccggattgcacgtataggctgagcggccacacgcgcacgaactgcttcatggatgtaagatgcgaagcacgatt                gctatacct 
        ctccaccgcctatctgcaccccgtcatatcgctcccttgctccctctaaccacttccgaatctaagtttgtcag                gtggagtg  
        tgcgaacgccgccccgacggctggatcctcctccgccggccggcccagttgacgccccgccggcggcgtagcc                tccactctg  
                                                                                                    *       

Query   <---Intron---> ILLKKSLEQQFPNHLLFE <---Intron---> EDRAAQATGEFEVFVNGRLVHSKKR <---Intron---> GDGFVNESRL
        <   107bp    > |||| |||||||/||||| <   109bp    > ||||||||||||||||||||||||| <    92bp    > |||||||| |
Target                 ILLKNSLEQQFPSHLLFE                EDRAAQATGEFEVFVNGRLVHSKKR                GDGFVNESGL
                       accaaacgcctcaccctg                ggaggcgaggtggtgagacgctaaa                gggtgagtgc
                      atttaagtaaatcgattta                aagccaccgatatttaggttacaag                gagttaacgt
                      ctagaccgggatatcactg                gcatcgtaggtggtgcgagctcggg                ttctgcgtgg
                                                                                                            

Query   QKIVSVIDEEIKKR
        ||||||| ||||||
Target  QKIVSVIYEEIKKR
        caagagatggaaaa
        aattgttaaataag
        gatgccctggcgag
                      
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 983 ; UGA-SECIS: 1202

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 49016 - 48944
 Found by:  Infernal (score=23.72) Covels (score=34.22)
 Stem2 length = 10   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -22.6

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(((((((((--....{[[{((((((((((.................))))))))))}]]}..--..-))))))))).
 target  GAGUCUCAGC--GGGAUGAUGAGAAGGGCUGAAAUGUUGUCAAGUCAGGUCCUUUUCUGAUGG--UG-GUUGGGGCUG
                         ****           ^^^                       ****                 
