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

 Blastx evalue: 3e-43
 Query name: gi|658131713|emb|CCX35039.1| selenoprotein Pb [Oncorhynchus mykiss]
 Query range: 1-279  (total 279)

 Target: /data/www-rg/seblastian_results/890826206/tempfiles/temptarget.fasta
 Chromosome: CM007942.1:subseq_59806457,101667_ Strand: +
 Positions:
 -Exon 1  49997        50223
 -Exon 2  50493        50705
 -Exon 3  51520        51631
 -Exon 4  51924        52208

 Redox box: YES

Query   MMQGLLTLWLCAALPGLLCASPLLVEGDNDASKICKPAPHWEIKGHGAPMKELLGNVVVLALLKASUHFCRTQASK <---Intron---> LGGLRDKL
        |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   269bp    > ||||||||
Target  MMQGLLTLWLCAALPGLLCASPLLVEGDNDASKICKPAPHWEIKGHGAPMKELLGNVVVLALLKASUHFCRTQASK                LGGLRDKL
        aacgctactctggccgcctgtcctggggaggtaatacgcctgaagcggcaagccgagggcgccagatcttcacgta                cggccgac
        ttagttctgtgcctcgttgccctttagaaaccatgacccagatagagcctaattgattttcttacggatggcacca                tggtgaat
        gggtcgtgggtttgagcacagtgaaagcttccgccgtagcggcgctgccgggggatattgtggaacaccccagcc                aaacgtcgg
                                                                          *                                 

Query   LRSNLTDVSFLIVNEREAQSRAMYWELKRRAPPGIPVYQQAPLQDDVWEALDGDKDDFLVYDR <---Intron---> CGRLTFHIVLPYSFLHYPYIE
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| <   814bp    > |||||||||||||||||||||
Target  LRSNLTDVSFLIVNEREAQSRAMYWELKRRAPPGIPVYQQAPLQDDVWEALDGDKDDFLVYDR                CGRLTFHIVLPYSFLHYPYIE
        ccaacaggttcagagaggctagattgcaaagccgacgtccgcccgggtggtgggaggtcgtga                tgacatcagcctatcctctag
        tggatcatcttttaagacacgctagataggcccgtctaaacctaaatgactagaaaatttaag                gggtctatttcagttaacata
        ccccgacggcccgcggacgcacgcggggggacgcctccagcgagcccggcgtacgcccgatc                atgaggccacacccccccccag
                                                                                                            

Query   AAVRATYHKDICGNCT <---Intron---> VDSNTTSSAGWNSTRRNETLSSSEMRVNETDSTVRSIDVDTVSNPVPSDGPQMSAEGGGNMSHIHHQH
        |||||||||||||||| <   292bp    > ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  AAVRATYHKDICGNCT                VDSNTTSSAGWNSTRRNETLSSSEMRVNETDSTVRSIDVDTVSNPVPSDGPQMSAEGGGNMSHIHHQH
        gggagatcagatgata                ggtaaattggtaaacaagacaatgacgagagaagatagggagaacgcaggccatgggggaatcacccc
        cctgccaaaatggagc                tacacccccggagcggaactggcatgtaacagctgctatactgactcgagcatccagggatcataaaa
        accaccccgcctcccc                gcccaccatggcccgacgagctaggtttgactaggtttctccccatattacggatggttcgacattgt
                                                                                                            

Query   HQYPHHHQQQHQHHHNHGSDADKQDSN
        |||||||||||||||||||||||||||
Target  HQYPHHHQQQHQHHHNHGSDADKQDSN
        cctccccccccccccacgtgggacgta
        aaacaaaaaaaaaaaaagcacaaaaca
        tgcccccgggtgcccttgatatagcct
                                   
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 230 ; UGA-SECIS: 866

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007942.1:subseq_59806457,101667_ Strand = + Positions = 52439 - 52519
 Found by:  Infernal (score=34.54) Covels (score=25.96)
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -14.8

         ..(((((((..........(((((((((((((((...............)))))))))))))))..........)))))))..
 model   uucggucaugcg---UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         .((({((((..........{[[{((((((((((......-..........))))))))))}]]}......-...))))}))).
 target  UGCUCUCCUCUGCAGUUUAUGAAGUCUGCAGGUCAAACU-CUACGGAGGUGUCUGUAGAUAGAUGCUGUG-CUAAGGAAAGUU
                            ****           ^^^                       ****