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

 Blastx evalue: 1e-18
 Query name: gi|6649223|gb|AAF21431.1|AF166126_1 selenoprotein Zf1 [Homo sapiens]
 Query range: 1-277  (total 277)

 Target: /data/www-rg/seblastian_results/175945589/tempfiles/temptarget.fasta
 Chromosome: gi|431904373|gb|KB030791.1|:subseq_5000000,120000_ Strand: +
 Positions:
 -Exon 1  34018        34050
 -Exon 2  35970        36144
 -Exon 3  46001        46137
 -Exon 4  49393        49488
 -Exon 5  49959        50051
 -Exon 6  51689        51760
 -Exon 7  52260        52357
 -Exon 8  54765        54891

 Redox box: no

Query   MRSIPLRGFDQ <---Intron---> QMSSMVIEHMASHGTRFLRGCAPSRVRRLPDGQLQVTWEDSTTGKEDTGTFDTVLWAIG <---Intron---
        ||||||||||| <   1919bp   > ||||/| |/||| ||/||| | | |||/||||||||||||  /|/|| |||||||||/| <   9856bp   
Target  MRSIPLRGFDQ                QMSSLVTEYMASQGTQFLRSCTPLRVRKLPDGQLQVTWEDLKSGREDMGTFDTVLWAVG              
        acaacccgtgc                catttgagtagtcgactcaatactagaaccggcccgatggcatgaggagatgagctggg              
        tggtctggtaa                atccttcaatccagcattgggcctgtgatcagatatcgaatacggaatgctacttgct               
        gccctggctcg                agacgcagcgttgccgcggccccgagggcgtcgtgctggccgtcggcgccccccggca               
                                                                                                            

Query   > RVPDTRSLNLEKAGVDTSPDTQKILVDSREATSVPHIYAIGDVVE <---Intron---> GRPELTPTAIMAGRLLVQRLFGGSSDLMDYDN <---
        > |||/|| ||||| ||/|/||/||||||/||||||||||||||  | <   3255bp   > |||||||||||||||| ||| | ||||||| | <   
Target    RVPETRGLNLEKVGVNTNPDSQKILVDAREATSVPHIYAIGDAAE                GRPELTPTAIMAGRLLAQRLCGQSSDLMDYSN     
          cgcgaagcatgagggaaacgacaacgggcggatgccatgaggggg                gccgcacagaaggaccgccctgcttgcagtaa     
         ggtcacggtataatgtacacagaatttacgaccctcatactgacca                ggcatccccttcggttcagtggaccattaaga     
         tgtaacatgtgggtaaccctctggcgttcgaccccctttccatagg                cgtgggcatcgaggcgcggctcgcacggccct     
                                                                                                            

Query   Intron---> VPTTVFTPLEYGCVGLSEEEAVARHGQEHVE <---Intron---> VYHAHYKPLEFTVAGRDASQCYVK <---Intron---> MV
        470bp    > ||||||||||||||||||||||||||/|||| <   1637bp   > ||||/||||||||| |||||||/| <   499bp    > ||
Target             VPTTVFTPLEYGCVGLSEEEAVARHGEEHVE                VYHAYYKPLEFTVAERDASQCYIK                MV
                   gcaagtaccgtgtggctggggggccgggcgg                gtcgttaccgtagggcggtcttaa                ag
                   tcccttcctaaggtgtcaaactcgagaaata                taacaaactatctcagaccagata                tt
                   ccgacctagatctgagagggtgactaggtgg                ttccttaaggcagtagtacgtcag                gg
                                                                                                            

Query   CLREPPQLVLGLHFLGPNAGEVTQGFALGIK <---Intron---> CGASYAQVMRTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        ||||||||||||||||||||||||||||||| <   2407bp   > ||||||||||||||||||/||| |||||||||||||||||||
Target  CLREPPQLVLGLHFLGPNAGEVTQGFALGIK                CGASYAQVMRTVGIHPTCAEEVAKLRISKRSGLDPTVTGCUG
        tccgccccgcgcctcgcaggggacgtgtgaa                tggttgcgacaggaccatgggggaccatactgcgcagagttg
        gtgaccatttgtattgcacgatcagtctgta                ggccacattgctgtaccgcaatcatgtcagcgtacctcgggg
        cggacgggggcgcccccctcattaattggc                gtgcctaggggggcccccctgggcggtctgcacgcccggccag
                                                                                               * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1263 ; UGA-SECIS: 1266

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|431904373|gb|KB030791.1|:subseq_5000000,120000_ Strand = + Positions = 56155 - 56229
 Found by:  Infernal (score=29.92) Covels (score=25.53)
 Stem2 length = 8   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -14.87

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(((((((((--....([[{((({(({(((..................)))}))})))}]])..--...))))))))).
 target  CAGAUGCCAG--ACAAUGACGACCUGCGCAAAAACUCACCCUGUGGGCUGCCCACGUCCGAGCC--UCCCUGGUGUUUC
                         ****          ^^^                         ****