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

 Blastx evalue: 3e-26
 Query name: gi|974089583|ref|XP_015242971.1| PREDICTED: methionine-R-sulfoxide reductase B1 [Cyprinodon variegatus]
 Query range: 1-110  (total 110)

 Target: /data/www-rg/seblastian_results/61309782/tempfiles/temptarget.fasta
 Chromosome: JACSYO010002129.1:subseq_3379717,100000_ Strand: -
 Positions:
 -Exon 1  54205        54259
 -Exon 2  53429        53571
 -Exon 3  53054        53168
 -Exon 4  51374        51390

 Redox box: no

Query   MSFCSFFGGEVFKDHFKPG <---Intron---> IYVCSKCDHELFSSRSKYEHSSPWPAFTETIHKNSVSKYEERPGAYK <---Intron---> VK
        ||||/||||||/||||||| <   633bp    > /| ||||||/||/||||||||||||||||||||/||||/|||||||| <   260bp    > |/
Target  MSFCNFFGGEVYKDHFKPG                VYACSKCDHQLFTSRSKYEHSSPWPAFTETIHKDSVSKHEERPGAYK                VR
        atttattggggtagctacg                gtgttatgccctaactatgcttctcgtagaacagagtacggacggta                gc
        tctgattggataaaatac                gtacgcagaaattcggcaaaacccgcctcactaaagtcaaaagcgcaa                tg
        ggttttctagttacttaa                gttcccgttcggtccccgcacgtcggccagcctactgtatggatgctg                ga
                                                                                                            

Query   CGSCGNGLGHEFVNDGPAKGVSRFUIFSSSLKFVPKD <---Intron---> KVDGQ
        || |||||||||||||| ||/|||||||||||||||| <   1663bp   > |||||
Target  CGKCGNGLGHEFVNDGPTKGLSRFUIFSSSLKFVPKD                KVDGQ
        tgatgagcgcgtgaggcaagttcttataatcatgcag                agggc
        ggaggagtgaattaagccagtcgtgttggctattca                aataga
        tggtatatctgtgtcaacacgtccaacccaggccta                tgttag
                                *                                 
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 62 ; UGA-SECIS: 113

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JACSYO010002129.1:subseq_3379717,100000_ Strand = - Positions = 51311 - 51236
 Found by:  Infernal (score=22.29) Covels (score=18.37)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 1, 0
 Free Energy = -15.67

         ..(((((((.......((((((((((((.(((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggc-ccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .((((([((.--....{[[(({((((((.((..................))))))))}))]]}..--....))]))))).
 target  GUGUGGACAG--CGGAUGAAGUGUUCUGGGAUAAAGCCCAUCUGGGAGCUCCAGGGCUCUGAUGA--AUGAUGGCCACAA
                         ****            ^^^                        ****                 
_________________________________.______________________._________________________________________________________________________________
_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| |       knownSP        |  secis_index:2     SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
_________________________________|______________________|_________________________________________________________________________________

 Blastx evalue: 8e-37
 Query name: gi|1025094594|ref|XP_016343739.1| PREDICTED: methionine-R-sulfoxide reductase B1-A-like [Sinocyclocheilus anshuiensis]
 Query range: 1-104  (total 110)

 Target: /data/www-rg/seblastian_results/61309782/tempfiles/temptarget.fasta
 Chromosome: JACSYO010002129.1:subseq_3379717,100000_ Strand: -
 Positions:
 -Exon 1  50440        50494
 -Exon 2  50223        50365
 -Exon 3  50000        50113

 Redox box: no

Query   MSFCSFSGGEFYKGHFETG <---Intron---> MYVCAECGHELFSSRSKYEHSSPWPAFTETIHENSVSKHEERWGAYK <---Intron---> VK
        ||/||||||| /| ||/ | <    74bp    > /|||/||||||||| ||/|||||||||/||||//||||| | ||  | <   109bp    > | 
Target  MSYCSFSGGEEFKNHFQPG                IYVCSECGHELFSSMSKFEHSSPWPAFSETIHKDSVSKHPEAWGPLK                VC
        attttttggggtaactccg                atgttgtgcgtttaatatgcttctcgttgaacagagtaccggtgcca                gt
        tcagctcggaataaatac                gtatgcaggaattcgtcataacccgcctcactaaagtcaacacggcta                tg
        gatctcttaagtgtccat                tatgctatgcgacccgagtgctttgaccagaccgctccacaaagggag                ct
                                                                                                            

Query   CGKCGNGLGHEFVNDGPKPGLSRFUIFSSSLKFIPK
        ||||||||||||/ |||  |||||||||||| ||||
Target  CGKCGNGLGHEFLYDGPTEGLSRFUIFSSSLTFIPK
        tgatgagtgcgtttggcaggctcttataatcataca
        ggaggagtgaattaagccagtcgtgttggctcttca
        tggtctagccgcgcccgaaggaccaacccacgccta
                                *           
 Sequence until next stop: 
CGTGAGTCTAGGTTCCACACATGCGGTACATTGCACACTTGTCATGCACCTTTTCACCCACTTTTTGTTTTGGCCTCTTCCACAGAAAAGGTTGATGTGCAGAAAGGTGAGCCGTGA
 R  E  S  R  F  H  T  C  G  T  L  H  T  C  H  A  P  F  H  P  L  F  V  L  A  S  S  T  E  K  V  D  V  Q  K  G  E  P  * 

 Distance CDS-SECIS: 145 ; UGA-SECIS: 178

------- SECIS element -- id:2 -- grade:A ----
 Chromosome = JACSYO010002129.1:subseq_3379717,100000_ Strand = - Positions = 49854 - 49781
 Found by:  Infernal (score=18.78) Covels (score=16.16)
 Stem2 length = 9   Apical loop length = 16   Insertion in stem2 = 1, 0
 Free Energy = -19.29

         ..(((((((.......((((((((((((.(((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggc-ccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         (((((([((.--....{[[(((((({((.((......-..........))))}))))))]]}..--....))]))))))
 target  GUGAGGACAG--UGGAUGAAGAGCUGCGGGGCGAAGC-CUAAUGGAGCUCCGGGGCUCUGAUGG--ACGGUGGCCUCAC
                         ****             ^^                       ****