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

 Blastx evalue: 3e-23
 Query name: gi|1004693737|ref|XP_007442441.2| PREDICTED: selenoprotein T [Python bivittatus]
 Query range: 1-195  (total 195)

 Target: /data/www-rg/seblastian_results/156653795/tempfiles/temptarget.fasta
 Chromosome: SJPD01000032.1:subseq_13418766,103150_ Strand: +
 Positions:
 -Exon 1  44869        45008
 -Exon 2  50011        50121
 -Exon 3  50574        50700
 -Exon 4  51868        51955
 -Exon 5  53029        53150

 Redox box: YES

Query   MKPTLAL-LLLVAVGLSGAGAQPGGLPPGKKLRMAYATGPLLKFQIC <---Intron---> VSUGYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYR
        ||| ||| |||/|| |||| ||||||||||||||||||||||||||| <   5002bp   > |||||||||||||||||||||||||||||||||||||
Target  MKPALALPLLLLAVWLSGASAQPGGLPPGKKLRMAYATGPLLKFQIC                VSUGYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYR
        aacgcgccccccggtcaggtgccggcccgaaccagtgagcccatcat                gttgtacgtggtacgaacctcgacagggatccccata
        tacctctcttttctgtggcccacggtccgaatgtcaccgcttatatg                tcggaggttaaatgttgagacatgtagaaatcactag
        ggcgggggggggggggcggggggcgggtggagtgcccggggcgcgc                ttcaacgggtggcggttcggcaccctatactttaatt 
                                                                         *                                  

Query    <---Intron---> HIASFLSVFKLVLIGFIIVGKDPFAFFGMQAPSIWQWGQENK <---Intron---> VYACMMVFFLSNMIENQCMSTGAFEI
         <   452bp    > |||||||||||||||||||||||||||||||||||||||||| <   1167bp   > ||||||||||||||||||||||||||
Target                  HIASFLSVFKLVLIGFIIVGKDPFAFFGMQAPSIWQWGQENK                VYACMMVFFLSNMIENQCMSTGAFEI
                        cagttctgtacgtagtaaggagctgttgacgcaatctgcgaa                gtgtaagttcaaaagactataggtga
                        atccttcttattttgttttgaactcttgtaccgtgaggaaaa                tacgttttttgattaaagtccgctat
                       ataatcgaccgagaacctttcattttctcgatcccgggtaatg                ctttggtccgccgtgcgtgaatataa
                                                                                                            

Query   TLND <---Intron---> VPVWSKLESGHLPSMQQLVQILDNEMKLNVHMEQMPHHRS
        |||| <   1073bp   > ||||||||||||||||||||||||||||||||||||||||
Target  TLND                VPVWSKLESGHLPSMQQLVQILDNEMKLNVHMEQMPHHRS
        atag                gcgttacgtgccctacccgcacgagaacagcagcacccat
        cta                atctgcatacgatcctaattattaaatatatataatcaagc
        aat                ttaagtgggtgcttcgagttactttagattacggagattaa
                                                                    
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 817 ; UGA-SECIS: 1255

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SJPD01000032.1:subseq_13418766,103150_ Strand = + Positions = 53968 - 54051
 Found by:  Infernal (score=29.16) Covels (score=36.23)
 Stem2 length = 11   Apical loop length = 13   Insertion in stem2 = 0, 0
 Free Energy = -17.12

         ..(((((((.........(((((((((((((((...............))))))))))))))).............)))))))..
 model   uucggucaugcg--UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu----u-uuucaugaccggc
         (((((((((.........{[[[(({(((((((((.............)))))))))}))]]]}.........-...)))))))))
 target  CAACAUGAACGAAAUAAAUGAAGGCCUGUACUGAAGACAGCACACUGUUGGUACAGACUGGAUGCUCUCCUC-GCCUUCAUGUUG
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