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_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
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 Blastx evalue: 3e-21
 Query name: gi|6470251|gb|AAF13696.1|AF195141_1 selenoprotein T [Homo sapiens] >gi|27807648|dbj|BAC55254.1| unnamed protein product [Mus musculus] >gi|27807653|dbj|BAC55259.1| unnamed protein product [Mus musculus] >gi|27807655|dbj|BAC55261.1| unnamed protein product [Mus musculus] >gi|110611796|gb|AAH38867.2| 2810407C02Rik protein [Mus musculus] >gi|112180386|gb|AAH19970.1| RIKEN cDNA 2810407C02 gene [Mus musculus]
 Query range: 1-163  (total 163)

 Target: /data/www-rg/seblastian_results/414624754/tempfiles/temptarget.fasta
 Chromosome: gi|432088674|gb|KB114215.1|:subseq_1,89015_ Strand: +
 Positions:
 -Exon 1  32080        32120
 -Exon 2  47283        47393
 -Exon 3  47915        48041
 -Exon 4  59391        59478
 -Exon 5  62079        62200

 Redox box: YES

Query   MQYATGPLLKFQIC <---Intron---> VSUGYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYR <---Intron---> HIASFLSVFKLVLIGLI
        |||||||||||||| <  15162bp   > ||||||||||||||||||||||||||||||||||||| <   521bp    > |||||||/|||||||||
Target  MQYATGPLLKFQIC                VSUGYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYR                HIASFLSIFKLVLIGLI
        actgagcccatcat                gttgtacgtggtacgaacctcgacagggatccccata                cagttctatacgtagta
        taaccgcttatatg                tcggaggttaaatgttgagacatgtagaaatcactag                atccttcttattttgtt
        ggcctcggcgcgt                ttcattgggtggcggttcggcaccctaagtcctaaat                acaatcgaccaataacaa
                                        *                                                                   

Query   IVGKDPFAFFGMQAPSIWQWGQENK <---Intron---> VYACMMVFFLSNMIENQCMSTGAFEITLND <---Intron---> VPVWSKLESGHLP
        ||||||||||||||||||||||||| <  11349bp   > |||||||||||||||||||||||||||||| <   2600bp   > |||||||||||||
Target  IVGKDPFAFFGMQAPSIWQWGQENK                VYACMMVFFLSNMIENQCMSTGAFEITLND                VPVWSKLESGHLP
        aggagctgttgacgcaatctgcgaa                gtgtaagtttaaaagactataggtgaatag                gcgttacgtgccc
        ttgaactcttgtaccgtgaggaaaa                tacgttttttgattaaagtccgctatcta                atctgcatacgatc
        ttcgttttctcggttccgagcaatg                ctatggtccgccgtgcgtgaatataatgc                tatagtggatttta
                                                                                                            

Query   SMQQLVQILDNEMKLNVHMDSIPHHRS
        |||||||||||||||||||||||||||
Target  SMQQLVQILDNEMKLNVHMDSIPHHRS
        tacccgcacgagaacagcagtacccct
        ctaattattaaatatatatactcaagc
        cgagttattctaggctctgtacattaa
                                   
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 2307 ; UGA-SECIS: 2745

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|432088674|gb|KB114215.1|:subseq_1,89015_ Strand = + Positions = 64508 - 64596
 Found by:  Infernal (score=26.77) Covels (score=39.15)
 Stem2 length = 11   Apical loop length = 13   Insertion in stem2 = 0, 0
 Free Energy = -11.57

         ..(((((((....................(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcg-------------UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((({((...................{[[{(({(((((((((.............)))))))))}))}]]}..--...))})))))..
 target  UUUUUGCAAGAGCAGCGUGACUGACAUUAUGAAGGCCUGUACUGAAGACAGCAAGCUGUUAGUACAGACCAGAUGU--UUCUUAGCAGGCU
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