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

 Blastx evalue: 9e-21
 Query name: gi|992173891|ref|XP_015461343.1| PREDICTED: uncharacterized protein LOC103024041 [Astyanax mexicanus]
 Query range: 1-305  (total 305)

 Target: /data/www-rg/seblastian_results/795234646/tempfiles/temptarget.fasta
 Chromosome: your_sequence Strand: +
 Positions:
 -Exon 1  44630        44741
 -Exon 2  47847        47928
 -Exon 3  48072        48125
 -Exon 4  49338        49383
 -Exon 5  50003        50130
 -Exon 6  51202        51316
 -Exon 7  52773        52895
 -Exon 8  54210        54347
 -Exon 9  54735        54851

 Redox box: YES

Query   MSEMCSAVEESALIKALKELVSAGRAFLGGVEKELVQG <---Intron---> GSQEDIANRIIHPMFGLMAAGATFFNS <---Intron---> LSV
        |||||||||||||||||||||||||||||||||||||| <   3105bp   > ||||||||||||||||||||||||||| <   143bp    > |||
Target  MSEMCSAVEESALIKALKELVSAGRAFLGGVEKELVQG                GSQEDIANRIIHPMFGLMAAGATFFNS                LSV
        atgataggggagcaagcagcgaggcgtcggggagcgcg                gtcggagacaaccatgcaggggattaa                ctg
        tcatggctaagcttactaattgcggcttggtaaatta                ggcaaatcagttacttgttccgccttag                tct
        gcagccgggacggtaggagggcttcttccggggggcg                tatgatcttgactagtcgggatctccc                tttg
                                                                                                            

Query   KTKGEAESLWEQHFQ <---Intron---> NSEVWDNVEELLQLE <---Intron---> AEWDGFLARLDSQTQMSDQTLSVVPPAHALSPDIQLTN
        ||||||||||||||| <   1212bp   > |||| |||||||||| <   619bp    > ||||||||||||||||||||||||||||||||||||||
Target  KTKGEAESLWEQHFQ                NSEVRDNVEELLQLE                AEWDGFLARLDSQTQMSDQTLSVVPPAHALSPDIQLTN
        aaaggggactgcctc                atggcgagggtcccg                ggtggtcgctgtcacaagcactggccgcgtacgaccaa
        acagacagtgaaata                acatgaataattata                cagagttcgtacacatgaactcttcccactgcatatca
        acgtaagtggggct                gcagcgcctaagagga                aggtgtgccgctgcggttgatattgaactactcagctt
                                                                                                            

Query   VRTKK <---Intron---> SVSLGQFLGKGQKLLLVLLRHFGULPURDHLTELQDNK <---Intron---> AVLKARSVQVVVVSYGSLEGAEFWL
        ||||| <   1071bp   > |||||||||||||||||||||||||||||||||||||| <   1456bp   > |||/|||||||||||||||||||||
Target  VRTKK                SVSLGQFLGKGQKLLLVLLRHFGULPURDHLTELQDNK                AVLEARSVQVVVVSYGSLEGAEFWL
        gaaaa                agtcgctcgagcacccgccactgtcctcgccagccgaa                ggcggctgcggggttgttggggttt
        tgcaa                gtctgattgagaattttttgatggtcggaatcataaaa                cttacgctattttcagctagcatgt
        tgta                atatgtgtgcgggagggtgcgtcaaggaaccgtgtgccg                tccgtgtggtggtgcttggaagtgg
                                                    *  *                                                    

Query   TQTGYEFDMVFDPERK <---Intron---> VYQAFSLGSSFAKVMKFSNMLRYSEYYVSRRSFPQVPPQFIEDLFQ <---Intron---> MGGDFV
        |||||||||||||||| <   1314bp   > |||||||||||||| /|||||||||||||||||||||||||||||| <   387bp    > ||||||
Target  TQTGYEFDMVFDPERK                VYQAFSLGSSFAKVTRFSNMLRYSEYYVSRRSFPQVPPQFIEDLFQ                MGGDFV
        acagtgtgagtgcgca                gtcgttcgtttgagaataaaccttgttgtacatccgccctaggctc                agggtg
        cacgaatatttacaga                taactctgcctcatcgtgattgacaaatcgggtcatccattaatta                tggatt
        tgcctgccgctttgtg                ctgactgcccttatggtccgaccgactggggctcgtaggttacttg                gttttg
                                                                                                            

Query   LDEGGTVIFSHQCESPVDRPSVQNILAALSASS
        |||||||||||||||||||||||||||||||||
Target  LDEGGTVIFSHQCESPVDRPSVQNILAALSASS
        cggggagattcctgacggcctgcaacggctgtt
        taaggctttcaagagctagcctaattcctcccc
        gtaatagctccgtgcagcgtgtaccgtcggctt
                                         
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 1135 ; UGA-SECIS: 1546

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = your_sequence Strand = + Positions = 55987 - 56057
 Found by:  Infernal (score=29.09) Covels (score=22.43)
 Stem2 length = 11   Apical loop length = 12   Insertion in stem2 = 0, 0
 Free Energy = -22.2

         ..(((((((.......(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         (((({((((---....([[{(((((((((((.....---.......)))))))))))}]]).....-.-.))))}))))
 target  GAGGCUGUG---AGAAUGACGAGGUGACUCUAAUUC---AGGUAGAAGAGUCACUUCUGAAACAAU-U-GCACAUCUUC
                         ****           ^^                        ****