_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 2e-30
 Query name: gi|821102030|ref|XP_012375807.1| PREDICTED: selenoprotein M, partial [Dasypus novemcinctus]
 Query range: 13-125  (total 125)

 Target: /data/www-rg/seblastian_results/965289027/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: -
 Positions:
 -Exon 1  50903        50971
 -Exon 2  50671        50705
 -Exon 3  50233        50311
 -Exon 4  50000        50155

 Redox box: YES

Query   APDLLHFVPLQTCGGUQLNRLKE <---Intron---> VKAFVTQDIPFY <---Intron---> HNLVMKHLPGADPELVLLDHRYEELE <---In
        |||| |||||||||||||||||| <   197bp    > |||||||||| | <   359bp    > |||||||||||||||||| ||/|||| <    7
Target  APDLSHFVPLQTCGGUQLNRLKE                VKAFVTQDIPLY                HNLVMKHLPGADPELVLLGHRFEELE       
        gcgctctgcccatggtccaccag                gagtgacgacct                cacgaacccgggcgcgtcgcctggcg       
        ccatcattctacggggatagtaa                tacttcaatcta                aatttaatcgcacattttgagtaata       
        ttcacttcccgataaagttccgg                ggccccgccac                cccgggactggccagcgggctctgagg       
                       *                                                                                    

Query   tron---> RIPLSDMTREEINALVQELGFYRKAAPDAPVPPEYLRAPARPAEGDPDRADL
        7bp    > |||||||||||||||||||||||||/|| |||||||||||||| | || |||
Target           RIPLSDMTREEINALVQELGFYRKASPDDPVPPEYLRAPARPAGGTPDHADL
                 caccagaacggaagcgcgcgttcagtcggcgccgtccgcgacgggacgcggc
                 gtctgatcgaatacttaatgtagacccaactccaatgcccgccggccaacat
                 atacccgccggccgggggcccccggtccctgcggctgtctgccacttccacg
                                                                     
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 39 ; UGA-SECIS: 330

------- SECIS element -- id:2 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 49960 - 49888
 Found by:  Infernal (score=14.3) Covels (score=22.68)
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -23.79
 Type = 1

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((---....{[[{(({((((((((................))))))))}))}]]}..--..-.)))))))..
 target  CCUGGGGAC---AGAAUGAAGCGCUCAGCGGCCCGGGAGCACCUCCCUCGUUGAGGGCCGACGC--CC-CGUCCCCGAG
                         ****           ^^                         ****