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_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:1     SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
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 Blastx evalue: 2e-10
 Query name: gi|4506887|ref|NP_003000.1| selenoprotein W [Homo sapiens] >gi|112293281|ref|NP_001036202.1| selenoprotein W [Macaca mulatta] >gi|197100510|ref|NP_001127129.1| selenoprotein W [Pongo abelii] >gi|226492575|ref|NP_001148049.1| selenoprotein W, 1 [Pan troglodytes] >gi|182636718|sp|Q5NVB2.4|SELW_PONAB RecName: Full=Selenoprotein W; Short=SelW >gi|189034063|sp|P63303.3|SELW_MACMU RecName: Full=Selenoprotein W; Short=SelW >gi|190358772|sp|P63302.3|SELW_HUMAN RecName: Full=Selenoprotein W; Short=SelW >gi|2326175|gb|AAC51665.1| selenoprotein W [Homo sapiens] >gi|2326177|gb|AAC51666.1| selenoprotein W [Macaca mulatta] >gi|2384721|gb|AAB69859.1| selenoprotein W [Homo sapiens] >gi|15487686|gb|AAL00898.1| selenoprotein W [Homo sapiens] >gi|34783048|gb|AAH00581.1| Selenoprotein W, 1 [Homo sapiens] >gi|34783448|gb|AAH32546.1| Selenoprotein W, 1 [Homo sapiens] >gi|34783521|gb|AAH39597.1| Selenoprotein W, 1 [Homo sapiens] >gi|34783567|gb|AAH47893.2| Selenoprotein W, 1 [Homo sapiens] >gi|56541766|emb|CAI30265.1| hypothetical protein [Pongo abelii]
 Query range: 1-87  (total 87)

 Target: /data/www-rg/seblastian_results/230484678/tempfiles/temptarget.fasta
 Chromosome: gi|511782587|gb|CM001946.1| Strand: +
 Positions:
 -Exon 1  47659        47687
 -Exon 2  49636        49660
 -Exon 3  49775        49828
 -Exon 4  50000        50074
 -Exon 5  50182        50259

 Redox box: YES

Query   MALAVRVVYC <---Intron---> GAUGYKSK <---Intron---> YLQLKKKLEDEFPGRLDI <---Intron---> CGEGTPQATGFFEVMV
        |||||||||| <   1948bp   > |||||||| <   114bp    > |||||||||||||||||| <   171bp    > ||||||||||||||||
Target  MALAVRVVYC                GAUGYKSK                YLQLKKKLEDEFPGRLDI                CGEGTPQATGFFEVMV
        agcggcggtt                ggtgtata                tcccaaatgggtcgccga                tgggaccgagttggag
        tctctgttag                gcggaaca                atataaataaatcggtat                ggagccaccgttattt
        gtccgactt                tcgaccgcg                ttgcgggaatgtcccgcc                ccgatcgccgctaaga
                                    *                                                                       

Query   AGKLIHSKK <---Intron---> KGDGYVDTESKFLKLVAAIKAALAQG
        ||||||||| <   107bp    > ||||||||||||||||||||||||||
Target  AGKLIHSKK                KGDGYVDTESKFLKLVAAIKAALAQG
        ggatactaa                agggtggagaatcacgggaaggtgcg
        cgattacaa                agagatacagattattcctacctcag
        cgggtctgg                actccgcaacgtggggcccaccgtgc
                                                           
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 2645 ; UGA-SECIS: 2867

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|511782587|gb|CM001946.1| Strand = + Positions = 52905 - 52993
 Found by:  Infernal (score=29.24) Covels (score=33.55)
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -14.47

         ..(((((((.................(((((((((((((((..................)))))))))))))))........)))))))..
 model   uucggucaugcg----------UuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..((((({(.................{[[{{((((((((((..................))))))))))}}]]}..--....)})))))..
 target  CCCAGCCCCUCUCAGCAGACGCUUCAUGAUAGGAAGGACUGAAAAGUCUUGUGGACGCCUGGUCUUUCCCUGAUGU--UCUCGUGGCUGCU
                                   ****           ^^^                          ****