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

 Blastx evalue: 4e-22
 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/423980923/tempfiles/temptarget.fasta
 Chromosome: KN992159.1:subseq_1983572,48477_ Strand: -
 Positions:
 -Exon 1  26928        26960
 -Exon 2  24748        24922
 -Exon 3  8131         8267
 -Exon 4  5439         5534
 -Exon 5  5006         5098
 -Exon 6  3222         3293
 -Exon 7  2965         3062
 -Exon 8  2000         2126

 Redox box: no

Query   MRSIPLRGFDQ <---Intron---> QMSSMVIEHMASHGTRFLRGCAPSRVRRLPDGQLQVTWEDSTTGKEDTGTFDTVLWAIG <---Intron---
        ||||||||||| <   2005bp   > ||||/| |||||||||||||| ||/||||||||||||||| ||||| ||||/|||||/| <  16480bp   
Target  MRSIPLRGFDQ                QMSSLVTEHMASHGTRFLRGCTPSQVRRLPDGQLQVTWEDRTTGKEGTGTFNTVLWAVG              
        acaacccgtgc                catttgagcagtcgactcagtactcgaaccggcccgatggcaagaggagataagctggg              
        tggtctggtaa                atccttcaatccagcgttgggcccatggtcagatatcgaagccgaagcgctacttgct               
        gaccccccccg                agccgcggcgattccgcggcccccacggcgccgggccggccctcggcacccctcggta               
                                                                                                            

Query   > RVPDTRSLNLEKAGVDTSPDTQKILVDSREATSVPHIYAIGDVVE <---Intron---> GRPELTPTAIMAGRLLVQRLFGGSSDLMDYDN <---
        > | |||||||||||||||||/||||||||||||||||||||||||| <   2596bp   > |||||||||/|||||| ||||||||||||||  <   
Target    RAPDTRSLNLEKAGVDTSPNTQKILVDSREATSVPHIYAIGDVVE                GRPELTPTAVMAGRLLAQRLFGGSSDLMDYDK     
          cgcgaaacatgaggggaacaacaacggtcggatgccatgaggggg                gccgcacaggaggaccgccctggttgcagtga     
         ggccacggtataacgtacgcacaatttacgaccctcatactgatta                ggcatccccttcggttcagttggccattaaaa     
         tataccatgtgggtgacttcctggcggccgacctgccctctccggg                ggtgggcatcgtggcgaggcccgcatggctca     
                                                                                                            

Query   Intron---> VPTTVFTPLEYGCVGLSEEEAVARHGQEHVE <---Intron---> VYHAHYKPLEFTVAGRDASQCYVK <---Intron---> MV
        340bp    > ||||||||||||||||||||||/||||| || <   1712bp   > ||||||||||||| |||||||||| <   159bp    > ||
Target             VPTTVFTPLEYGCVGLSEEEAVSRHGQERVE                VYHAHYKPLEFTVPGRDASQCYVK                MV
                   gcaagtaccgtgtggctgggggtccgcgcgg                gtcgctaccgtagcgcggtcttga                ag
                   tcccttcctaaggtgtcaaactcgagaagta                taacaaactatctcggaccagata                tt
                   tcgtcccaggcccgggcgggagtccgggttg                ctccttaaggcagtggtacgtcag                gg
                                                                                                            

Query   CLREPPQLVLGLHFLGPNAGEVTQGFALGIK <---Intron---> CGASYAQVMRTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        ||||||||||||||||||||||||||||||| <   838bp    > ||||| |||/|||||||||||/||||||||||||||||||||
Target  CLREPPQLVLGLHFLGPNAGEVTQGFALGIK                CGASYVQVMQTVGIHPTCSEEIVKLRISKRSGLDPTVTGCUG
        tcagccccgcgcctcgcaggggacgtgcgaa                tggttgcgacaggaccattggagaccatactgcgcagagttg
        gtgaccatttgtattgcacgatcagtctgta                ggccatattactgtaccgcaattatgtcagcgtacctcgggg
        cgggcggaggcgccccccacattaattggc                gtgcctgggggcgtctcgccggacggcccgcacgccagaccag
                                                                                               * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1475 ; UGA-SECIS: 1478

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KN992159.1:subseq_1983572,48477_ Strand = - Positions = 524 - 454
 Found by:  Infernal (score=37.35) Covels (score=33.06)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -22.83

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .((((((((---....([[{((({((((((.................))))))})))}]])----....)))))))).
 target  UGGUGCCAG---AUGAUGACGAUCUGGGUGGAAACCCAUCCUGUGGGCACCCAUGUCCGAG----CCUACUGGCAUUU
                         ****           ^^^                       ****                 
