_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:4     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 9e-46
 Query name: gi|208022673|ref|NP_001129077.1| selenoprotein P precursor [Equus caballus]
 Query range: 1-385  (total 385)

 Target: /data/www-rg/seblastian_results/425010362/tempfiles/temptarget.fasta
 Chromosome: gi|432087373|gb|KB115516.1|:subseq_1546558,98102_ Strand: -
 Positions:
 -Exon 1  53974        54176
 -Exon 2  52982        53194
 -Exon 3  51441        51558
 -Exon 4  49931        50545

 Redox box: YES

Query   MWRSLGLALALCLLPWGGTESQGQSSFCKQPPAWSIRDQDPMLNSYGSVTVVALLQASUYLCLLQASR <---Intron---> LEDLRVKLEKEGYSNI
        ||||||/|||||||||||||||||| ||| |||||| /|||||/| ||| /||||||||/ || |||  <   779bp    > ||||||||||||/|/|
Target  MWRSLGIALALCLLPWGGTESQGQSPFCKPPPAWSIGEQDPMLSSSGSVVLVALLQASUFFCLRQASS                LEDLRVKLEKEGFSSI
        ataacgagcgctccctggagacgcacttacccgtaaggcgcacattgtggcggcccgattttcacgta                tggccgacgaggttaa
        tgggtgtctctgttcgggcagagagctgaccccggtgaaacttgccgcttttcttacggttgtgaccg                taatgtataaagtcgt
        ggacggccgtctcccgacagcggaccctgacgcgccgggcaggcccccgcgcctgaccaccccggct                tgacgaagggaatttcc
                                                                  *                                         

Query   SYVVVNHQEISARLKYIHLKNKVSEYIAVYQQEENQTDIWTLLNGSKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLTFPYVEEAIKIAYC
        |||||||| / |||/|  |||/|||/| ||||||||||/||||||/||||||||| <   1423bp   > |||||||| || | | |||||/|||||||
Target  SYVVVNHQGLPARLRYNLLKNEVSEHITVYQQEENQTDVWTLLNGNKDDFLIYDR                CGRLVYHLSLPLSILEFPYVEQAIKIAYC
        ttgggaccgccgctataccaaggtgcaagtccggacaggtactagaaggtcatga                tgccgtccaccctacgtctggcgaaagtt
        catttaaagtccgtgaattaaatcaatctaaaaaaacatgcttagaaaatttaag                gggttaatgtctcttatcataactatcag
        cttttttaacttaaattttatgtaatttttaaaacaatcgtcatacatcccatc                gtcctgtctcgtcccagcgcgggctgttct
                                                                                                            

Query   EKKCGNCSLM <---Intron---> TLEDEDFCKTLSLATVEKTTEDSQPHHHHHHQHHHKHGHQHVGNSQLSENQQPEATGAPEHPPPPGLHHHHKHK
        |/|||||||  <   895bp    > ||||||||| /|||/| ||||  /||||||| |||||||||/  /||||/|||||  | |  | |||||| | |
Target  EEKCGNCSLT                TLEDEDFCKNVSLASVSKTTEAPEPHHHHHH-HHHKHGHQHIPIAQLSEDQQPEAPNASERVPFPGLHHHLKLK
        ggatgattca                acggggttaagttgtgaaaaggcgccccccc-cccacgcccacagcctggcccggcagtgcgctcgcccccaca
        aaaggagctc                ctaaaatgaatctcctgaccaccacaaaaaa-aaaaagaaatctcatcaaaacaccaccagtctcgtaaatata
        agatacctcg                agatacctgtgtgctgtaccgtggacccttt-ctcgtgtgctcccgccgcggagaacgtgccttattccctgcg
                                                                                                            

Query   GQQRRGHPENUDMPGGESLQLSLPQKKLUQKGCINQLLCKMPKDSKLAPSSUCUHCRHLIFENTRSAITUQCTENLPSLCSUQGLWAEENVIESCQURLP
          ||/|||  || || ||| || |||||| | |||||| |/|//|/ | ||||||||||/||/| ||/|||| | ||||||| ||||||||||| |||||
Target  SPQRQGHPVRUDEPGSESLPLSSPQKKLUGKRCINQLLUKLPRESESAASSUCUHCRHLVFEHTGSAVTUQCREALPSLCSULGLWAEENVIESUQURLP
        accacgccgctggcgagatccttccaactgaataactctatcagtgtggaatttctcccgtgcagtggatctaggcctttattgctgggagagttctctc
        gcagagactggaacggagtctcccaaatggaggtaattgatcgacacccgggggaggatttaacgcctcgaggactcctgggtgtgcaaattacgaggtc
        ccaagttcgtacgaatataacttgggacaaggtatgacaggcggagattccacactccgatgcagcaccagtaaccctaccaggtgcggcctgtagacgt
                  *                 *         *            * *               *           *            * *   

Query   PAAUQPSQQLKPTEASTNUSUKYKAAMUKUPSN
        ||||| / ||/||/||  |||| /| ||/||||
Target  PAAUQ-AGQLEPTKASNIUSUKTEAEMUQUPSN
        cggtc-ggccgcaagaaatataagggatctcta
        cccga-cgataccacgatgggacacatgagcca
        ttcag-atgcgcaaccccacaatgaagagatac
           *              * *      * *   
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 261 ; UGA-SECIS: 270

------- SECIS element -- id:4 -- grade:A ----
 Chromosome = gi|432087373|gb|KB115516.1|:subseq_1546558,98102_ Strand = - Positions = 49669 - 49598
 Found by:  Infernal (score=28.59) Covels (score=29.46) SECISearch1.0 (pattern=default)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -13.17

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...({((((.--....{[[{(((((((((.......-...........)))))))))}]]}..--..-.))))})...
 target  UCUACUUGCA--UUAAUGAGAACAGGAACAGAAACU-AUGACCUAGGGGUUCCUGUUGGAUAG--UU-AGCAAUUUAG
                         ****           ^^^                       ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:5     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 9e-46
 Query name: gi|208022673|ref|NP_001129077.1| selenoprotein P precursor [Equus caballus]
 Query range: 1-385  (total 385)

 Target: /data/www-rg/seblastian_results/425010362/tempfiles/temptarget.fasta
 Chromosome: gi|432087373|gb|KB115516.1|:subseq_1546558,98102_ Strand: -
 Positions:
 -Exon 1  53974        54176
 -Exon 2  52982        53194
 -Exon 3  51441        51558
 -Exon 4  49931        50545

 Redox box: YES

Query   MWRSLGLALALCLLPWGGTESQGQSSFCKQPPAWSIRDQDPMLNSYGSVTVVALLQASUYLCLLQASR <---Intron---> LEDLRVKLEKEGYSNI
        ||||||/|||||||||||||||||| ||| |||||| /|||||/| ||| /||||||||/ || |||  <   779bp    > ||||||||||||/|/|
Target  MWRSLGIALALCLLPWGGTESQGQSPFCKPPPAWSIGEQDPMLSSSGSVVLVALLQASUFFCLRQASS                LEDLRVKLEKEGFSSI
        ataacgagcgctccctggagacgcacttacccgtaaggcgcacattgtggcggcccgattttcacgta                tggccgacgaggttaa
        tgggtgtctctgttcgggcagagagctgaccccggtgaaacttgccgcttttcttacggttgtgaccg                taatgtataaagtcgt
        ggacggccgtctcccgacagcggaccctgacgcgccgggcaggcccccgcgcctgaccaccccggct                tgacgaagggaatttcc
                                                                  *                                         

Query   SYVVVNHQEISARLKYIHLKNKVSEYIAVYQQEENQTDIWTLLNGSKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLTFPYVEEAIKIAYC
        |||||||| / |||/|  |||/|||/| ||||||||||/||||||/||||||||| <   1423bp   > |||||||| || | | |||||/|||||||
Target  SYVVVNHQGLPARLRYNLLKNEVSEHITVYQQEENQTDVWTLLNGNKDDFLIYDR                CGRLVYHLSLPLSILEFPYVEQAIKIAYC
        ttgggaccgccgctataccaaggtgcaagtccggacaggtactagaaggtcatga                tgccgtccaccctacgtctggcgaaagtt
        catttaaagtccgtgaattaaatcaatctaaaaaaacatgcttagaaaatttaag                gggttaatgtctcttatcataactatcag
        cttttttaacttaaattttatgtaatttttaaaacaatcgtcatacatcccatc                gtcctgtctcgtcccagcgcgggctgttct
                                                                                                            

Query   EKKCGNCSLM <---Intron---> TLEDEDFCKTLSLATVEKTTEDSQPHHHHHHQHHHKHGHQHVGNSQLSENQQPEATGAPEHPPPPGLHHHHKHK
        |/|||||||  <   895bp    > ||||||||| /|||/| ||||  /||||||| |||||||||/  /||||/|||||  | |  | |||||| | |
Target  EEKCGNCSLT                TLEDEDFCKNVSLASVSKTTEAPEPHHHHHH-HHHKHGHQHIPIAQLSEDQQPEAPNASERVPFPGLHHHLKLK
        ggatgattca                acggggttaagttgtgaaaaggcgccccccc-cccacgcccacagcctggcccggcagtgcgctcgcccccaca
        aaaggagctc                ctaaaatgaatctcctgaccaccacaaaaaa-aaaaagaaatctcatcaaaacaccaccagtctcgtaaatata
        agatacctcg                agatacctgtgtgctgtaccgtggacccttt-ctcgtgtgctcccgccgcggagaacgtgccttattccctgcg
                                                                                                            

Query   GQQRRGHPENUDMPGGESLQLSLPQKKLUQKGCINQLLCKMPKDSKLAPSSUCUHCRHLIFENTRSAITUQCTENLPSLCSUQGLWAEENVIESCQURLP
          ||/|||  || || ||| || |||||| | |||||| |/|//|/ | ||||||||||/||/| ||/|||| | ||||||| ||||||||||| |||||
Target  SPQRQGHPVRUDEPGSESLPLSSPQKKLUGKRCINQLLUKLPRESESAASSUCUHCRHLVFEHTGSAVTUQCREALPSLCSULGLWAEENVIESUQURLP
        accacgccgctggcgagatccttccaactgaataactctatcagtgtggaatttctcccgtgcagtggatctaggcctttattgctgggagagttctctc
        gcagagactggaacggagtctcccaaatggaggtaattgatcgacacccgggggaggatttaacgcctcgaggactcctgggtgtgcaaattacgaggtc
        ccaagttcgtacgaatataacttgggacaaggtatgacaggcggagattccacactccgatgcagcaccagtaaccctaccaggtgcggcctgtagacgt
                  *                 *         *            * *               *           *            * *   

Query   PAAUQPSQQLKPTEASTNUSUKYKAAMUKUPSN
        ||||| / ||/||/||  |||| /| ||/||||
Target  PAAUQ-AGQLEPTKASNIUSUKTEAEMUQUPSN
        cggtc-ggccgcaagaaatataagggatctcta
        cccga-cgataccacgatgggacacatgagcca
        ttcag-atgcgcaaccccacaatgaagagatac
           *              * *      * *   
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 693 ; UGA-SECIS: 702

------- SECIS element -- id:5 -- grade:A ----
 Chromosome = gi|432087373|gb|KB115516.1|:subseq_1546558,98102_ Strand = - Positions = 49237 - 49172
 Found by:  Infernal (score=31.89) Covels (score=18.12) SECISearch1.0 (pattern=default)
 Stem2 length = 10   Apical loop length = 10   Insertion in stem2 = 1, 0
 Free Energy = -13.6

         ..(((((((.......((((((((((.(((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...((((((---(...([[{((((((.((((......--.-----...))))))))))}]])..--..-)))))))...
 target  UUUCCAUAG---UCAAUGAUGGUUCACUAGGUAAACU--A-----AGUCCUAUGAACCUGAACU--CC-GUUAUGGUUA
                         ****            ^^^                       ****