_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       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/253543188/tempfiles/temptarget.fasta
 Chromosome: gi|432094826|gb|KB111160.1|:subseq_332512,100080_ Strand: +
 Positions:
 -Exon 1  62852        62884
 -Exon 2  65352        65526
 -Exon 3  78377        78513
 -Exon 4  81736        81831
 -Exon 5  82252        82344
 -Exon 6  83963        84034
 -Exon 7  84204        84301
 -Exon 8  86740        86866

 Redox box: no

Query   MRSIPLRGFDQ <---Intron---> QMSSMVIEHMASHGTRFLRGCAPSRVRRLPDGQLQVTWEDSTTGKEDTGTFDTVLWAIG <---Intron---
        ||||||||||| <   2467bp   > |||//| //|||||||||/|| | ||/|||| ||||||/|  /|/||| ||/||||||| <  12850bp   
Target  MRSIPLRGFDQ                QMSTLVTDYMASHGTRFLKGCIPLRVKRLPDNQLQVTWKDIASGREDTDTFNTVLWAIG              
        acaacccgtgc                catatgagtagtcgaatcagtactagaaccgacccgatagagtgaggagataagctgag              
        tggtctggtaa                atccttcaatccagcgttaggtctgtagtcaaatatcgaatccggaacactacttgct               
        gccctggctcg                agacgcgccgttcacgtggccccgagggcgccgtgccggccctcggcgcccccaggca               
                                                                                                            

Query   > RVPDTRSLNLEKAGVDTSPDTQKILVDSREATSVPHIYAIGDVVE <---Intron---> GRPELTPTAIMAGRLLVQRLFGGSSDLMDYDN <---
        > |||/||/||||||||/|/|//||||||//|||||||||||||  | <   3222bp   > ||||||||||/||||| ||| | ||||||||| <   
Target    RVPETRNLNLEKAGVNTNPESQKILVDAQEATSVPHIYAIGDTAE                GRPELTPTAILAGRLLAQRLCGQSSDLMDYDN     
          cgcgaaacatgagggaaacgacaacgggcggatgccatgaggagg                gccgcacagacggaccgcactgcttgcagtga     
         ggtcacgatataacgtacacagaatttacaaccctcatactgacca                ggcatccccttcggttcagtggaccattaaaa     
         gataacatgtgggtagccttgtggcgttcgaccccctctctacagg                ggtggacatcgaggcgcggcccgcacggctct     
                                                                                                            

Query   Intron---> VPTTVFTPLEYGCVGLSEEEAVARHGQEHVE <---Intron---> VYHAHYKPLEFTVAGRDASQCYVK <---Intron---> MV
        420bp    > ||||||||||||||||||| ||||||//||| <   1618bp   > ||||/||||||||| |||||||/| <   169bp    > ||
Target             VPTTVFTPLEYGCVGLSEEAAVARHGKDHVE                VYHAYYKPLEFTVAERDASQCYIK                MV
                   gcaagtaccgtgtggctggggggccgagcgg                gtcgttaccgtagggcggtcttaa                ag
                   tcccttcctaaggtgtcaacctcgagaaata                taacaaactatctcagaccagata                tt
                   cccagccggatctggacgggtgaccagctgg                ttccctaacgcggtagtgcgtcag                gg
                                                                                                            

Query   CLREPPQLVLGLHFLGPNAGEVTQGFALGIK <---Intron---> CGASYAQVMRTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        ||//||/ ||||||||||||||||||||||| <   2438bp   > ||||||||||||||||||/||| |||||||||||||||||||
Target  CLQKPPKPVLGLHFLGPNAGEVTQGFALGIK                CGASYAQVMRTVGIHPTCAEEVTKLRISKRSGLDPTVTGCUG
        tccaccacgcgcctcgcaggggacgtgcgaa                tggttgcgacaggaccatggggaaccatactgtgcagagttg
        gtaaccacttgtattgcacgatcagtctgta                ggccacattgctgtaccgcaatcatgtcagcgtacctcgggg
        cgggcaggggcgccgcccatattaattggc                gtgcccgggggcgccctctcgggcaggccgcacgcccgtccat
                                                                                               * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1202 ; UGA-SECIS: 1205

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = gi|432094826|gb|KB111160.1|:subseq_332512,100080_ Strand = + Positions = 88069 - 88141
 Found by:  Infernal (score=33.07) Covels (score=35.48)
 Stem2 length = 9   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -18.29

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .((((((((---....([[{((({(({((((................))))}))})))}]])..--..-.)))))))).
 target  CGAUGCCAG---AUGAUGACGACCUGCGCAGAAACCCACCCCGUGGGCUGCCCAUGUCUGAGCC--CC-CCUGGUAUUU
                         ****           ^^^                        ****