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

 Blastx evalue: 3e-42
 Query name: gi|1039408233|ref|XP_008416550.2| PREDICTED: selenoprotein P isoform X1 [Poecilia reticulata]
 Query range: 1-389  (total 389)

 Target: /data/www-rg/seblastian_results/621028082/tempfiles/temptarget.fasta
 Chromosome: KV884708.1:subseq_991377,100000_ Strand: -
 Positions:
 -Exon 1  50361        50563
 -Exon 2  49771        49983
 -Exon 3  49494        49611
 -Exon 4  48707        49330

 Redox box: YES

Query   MWVRLSLLLTLCLLHGGGAESEGGGPRCQPPSTWMIGEVEPMKGTAGQVTVVALLKASULFCLVQASR <---Intron---> IDGLRQKLETQGLNDV
        ||  ||||| ||||||| ||||| ||||| |  | |||||||||| |||||||||/|| ||||||||| <   377bp    > /| | | /|/||| /|
Target  MWACLSLLLPLCLLHGGRAESEGVGPRCQLPPAWNIGEVEPMKGTMGQVTVVALLQASCLFCLVQASR                MDSLHQMMESQGLKNV
        atgtcaccccctcccggaggaggggcctccccgtaaggggcaagaagcgagggctcgatcttcgcgta                agacccaagacgcaag
        tgcgtgtttctgttagggcagagtgcggatcccgatgatactagctgatcttcttacggttgttaccg                tagtaattagagtaat
        gggccctcctccgctgcaagtggtgtctaggacgcaggggcgggagcgggggttggcccgccgggtc                agccgcggggtgcggtg
                                                                  *                                         

Query   VYMVINHQGEQAQRLHPMLAERLSDKISLYKQGEQQPDVWQALNGKKDDFIIYDR <---Intron---> CGRLTHHISLPYSVIGHGHIESAIKEAYC
         |||||||||||| ||||||/|/|/ |/|||| /|| |||/ | |/||||/|||| <   159bp    > |||||||||||||/|| ||/| ||// ||
Target  AYMVINHQGEQAQLLHPMLAQRMSENITLYKQDQQQVDVWKTLGGQKDDFLIYDR                CGRLTHHISLPYSIIGQGHVEGAIRDTYC
        gtagaaccggcgcccccacgcaatgaaactacgcccgggtaacggcaggtcatga                tgccaccatccttaagcgcggggaagatt
        catttaaagaacattacttcagtcaatctaaaaaaatatgactggaaaatttaag                gggtcaatctcacttgagatagctgacag
        tcggtccgggaagcgctggagagagccagcagcgagttcggagtaaatctcttc                atctcctctttaccctaacttgcccattct
                                                                                                            

Query   NRMCGACSHE <---Intron---> TAETPEGCRATPNAQPEADAPAAVGDNTEHDHRRHHGHGHHGHGHHGHGHHGHGHHGQHGHHHHRHHGDHHGHY
        ||/|| |/|| <   163bp    > / |||| |/   / ||/||   |/  || | |  |||| ||||||  || /   |||    |/| ||       
Target  NRICGDCTHE                STETPEECKGKADVQPDADGTPAIEHNTGHGH--HHGH-HHGHGHGHHGDNSGFHHGHGHDHNHGHHHGGDDVA
        acatggtacg                aagacggtagagggccggggacgagcaagcgc--ccgc-ccgcgcgccggaagtccgcgcgcacgcccgggggg
        agtggagcaa                gcaccaagagacatacacagccctaaacgaga--aaga-aagagagaagaaggtaagagaaaaagaaaggaatc
        tcatgccatg                ctaaaagcagaatagttgttcatagcctattc--ttat-ctttctcctgttcttttttctttctctctattttt
                                                                                                            

Query   GDLEQSQQGAGQDHGQHVFDLPQLQQAVDTEQLLQEAVAAPVRPUVAEKGRUKSKFTUQGTAGSENETVPKASUCUHURRVFGEAGSEQSLGLUHCEEGL
        |     /|  |    |  ||| |/|||| |/|/||||  |||||| /|/ ||||| /|| ||||/||  || ||||||||/||/||||| /||||| | |
Target  GQGHDHRQVGGVSQRQEHFDLGQMQQAVLTQQMLQEAHRAPVRPUASERARUKSKHSUQWTAGSDNEASPKISUCUHURRLFGDAGSEQPVGLUHCNEAL
        gcgcgcacggggtcacgctgtgcaccggcaccatcggcagcgactgtgagatatacatctaggtgaggtcaaatttctcactggggagccggctctaggc
        gagaaagatggtcagaaatatgataacttcaattaacagcctgcgccagcggacaaggagccgcaaacccatggggagggttgacggaactgtgagaact
        cactctaattggaagaatttacgggacgctaggaggccactaataaaggagagagccaggaactctacttgccacacacggtctagtaggctcacttggg
                                                    *      *     *               * * *               *      

Query   PASUQUQGLTSEAATNVRETUQURMPPAEUQQPQPDQ
        |||||| ||  /||/||||||||| |||/||||||/|
Target  PASUQUHGLIGDAASNVRETUQURTPPADUQQPQPNQ
        cgttctcgcaggggaagagatctcaccggtcccccac
        cccgagagttgaccgatgacgaggccccagaacacaa
        cccagacagtttactttggcagacatttcaggtgaca
           * *              * *      *       
 Sequence until next stop: 
TGA
 * 

 Distance CDS-SECIS: 991 ; UGA-SECIS: 1012

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = KV884708.1:subseq_991377,100000_ Strand = - Positions = 47715 - 47637
 Found by:  Infernal (score=23.52) Covels (score=23.9)
 Stem2 length = 8   Apical loop length = 17   Insertion in stem2 = 0, 0
 Free Energy = -7.53

         ..(((((((........(((((((((((((((...............))))))))))))))).........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ...([((((((......{[[{((({({((((.................))))})})))}]]}.....-.))))))])...
 target  AUAUGCUUUGUACUUAAUGAUGGUUUCUGUGGAAAGGUUAACAGUCCACAUGAACACCUGAUGCUUG-CAUAGAGAACUG
                          ****           ^^^                       ****