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

 Blastx evalue: 3e-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/525166050/tempfiles/temptarget.fasta
 Chromosome: KV389887.1:subseq_389251,100209_ Strand: +
 Positions:
 -Exon 1  47359        47391
 -Exon 2  50003        50177
 -Exon 3  61392        61528
 -Exon 4  64571        64666
 -Exon 5  65013        65105
 -Exon 6  66795        66866
 -Exon 7  67057        67154
 -Exon 8  67970        68096

 Redox box: no

Query   MRSIPLRGFDQ <---Intron---> QMSSMVIEHMASHGTRFLRGCAPSRVRRLPDGQLQVTWEDSTTGKEDTGTFDTVLWAIG <---Intron---
        ||||||||||| <   2611bp   > ||||/| |||||||||||||| ||/||||||||||||||| ||||| ||||/|||||/| <  11214bp   
Target  MRSIPLRGFDQ                QMSSLVTEHMASHGTRFLRGCTPSQVRRLPDGQLQVTWEDHTTGKEGTGTFNTVLWAVG              
        acaacccgtgc                catttgagcagtcgactcagtactcgaaccggcccgatggcaagaggagataagctggg              
        tggtctggtaa                atccttcaatccagcgttgggcccatggtcagatatcgaaaccgaagcgctacttgct               
        gacccccctcg                agccgcggcgattccgcggcccccacggcaccgggccggccctcggcgccccccggca               
                                                                                                            

Query   > RVPDTRSLNLEKAGVDTSPDTQKILVDSREATSVPHIYAIGDVVE <---Intron---> GRPELTPTAIMAGRLLVQRLFGGSSDLMDYDN <---
        > ||||||||||||||||||| ||||||||||||||||||||||||| <   3042bp   > |||||||||/|||||| ||||||||||||||  <   
Target    RVPDTRSLNLEKAGVDTSPSTQKILVDSREATSVPHIYAIGDVVE                GRPELTPTAVMAGRLLAQRLFGGSSDLMDYDK     
          cgcgaaacatgaggggaacaacaacggtcggatgccatgaggggg                gccgcacaggaggaccgccctggttgcagtga     
         ggtcacggtataacgtacgcgcaatttacgaccctcatactgatta                ggcatccccttcggttcagttggccattaaaa     
         tataccatgtgggtgacttcctggcggccgacttgccctctccagg                ggtgggcgtcgtggcgaggcccgcacggctca     
                                                                                                            

Query   Intron---> VPTTVFTPLEYGCVGLSEEEAVARHGQEHVE <---Intron---> VYHAHYKPLEFTVAGRDASQCYVK <---Intron---> MV
        346bp    > |||||||||||||||||||||||||||| || <   1689bp   > ||||||||||||| |||||||||| <   190bp    > ||
Target             VPTTVFTPLEYGCVGLSEEEAVARHGQERVE                VYHAHYKPLEFTVPGRDASQCYVK                MV
                   gcaagtaccgtgtggctggggggccgcgcgg                gtcgctaccgtagcgcggtcttga                ag
                   tcccttcctaaggtgtcaaactcgagaagta                taacaaactatctcggaccagata                tt
                   tcgccccaggcctgggcgggagtctgggttg                ctcgttaaggcagtggtacgtcag                gg
                                                                                                            

Query   CLREPPQLVLGLHFLGPNAGEVTQGFALGIK <---Intron---> CGASYAQVMRTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        ||||||||||||||||||||||||||||||| <   815bp    > ||||| |||/||||||||||||||||||||||||||||||||
Target  CLREPPQLVLGLHFLGPNAGEVTQGFALGIK                CGASYVQVMQTVGIHPTCSEEVVKLRISKRSGLDPTVTGCUG
        tcagccccgcgcctcgcaggggacgtgcgaa                tggttgcgacaggaccattggggaccatactgcgcagagttg
        gtgaccatttgtattgcacgatcagtctgta                ggccatattactgtaccgcaattatgtcagcgtacctcgggg
        cgggcggagacgccccccacattaattggc                gtgcctgggggcgcctcgccggacggcccgcacgccagaccag
                                                                                               * 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1433 ; UGA-SECIS: 1436

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KV389887.1:subseq_389251,100209_ Strand = + Positions = 69530 - 69600
 Found by:  Infernal (score=38.05) Covels (score=31.66)
 Stem2 length = 9   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -23.63

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .((((((((---....([[{((({((((((.................))))))})))}]])----....)))))))).
 target  UGGUGCCAG---AUGAUGACGAUCUGGGUGGAAACCCAUCCUGUGGGCACCCACAUCCGAG----CCCGCUGGCAUUU
                         ****           ^^^                       ****