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

 Blastx evalue: 6e-57
 Query name: gi|1035243985|ref|XP_008319971.2| PREDICTED: redox-regulatory protein FAM213A-like [Cynoglossus semilaevis]
 Query range: 1-211  (total 213)

 Target: /data/www-rg/seblastian_results/163839339/tempfiles/temptarget.fasta
 Chromosome: JXSJ01000036.1:subseq_1864154,52277_ Strand: -
 Positions:
 -Exon 1  2464         2608
 -Exon 2  2161         2252
 -Exon 3  1936         2076
 -Exon 4  1662         1826
 -Exon 5  1491         1580

 Redox box: YES

Query   MVTVTAVLKFFSLFVAELISSITDWFQTKPAWAKLEVLEDTELKTTGGV <---Intron---> HERHKAKTLWEKTGAVVMVVRRPGULLCRE <---
        |||||||||  || ||||||/|||||||||||| ||||| ||/|||||| <   211bp    > ||||||||||||||||/||||||||||||| <   
Target  MVTVTAVLKTVSLLVAELISNITDWFQTKPAWANLEVLEGTEMKTTGGV                HERHKAKTLWEKTGAVIMVVRRPGULLCRE     
        agagaggcaagaccgggcaaaaagttcaacgtgacggcggagaaaaggg                cgccagaactgaagggaaggcccgttttag     
        ttctccttactgtttcattgatcagtacaccgcatattagcataccgg                taagaacactgaacgctttttggcggttgga     
        ggtgtacagtgcgttagcccccacgcgggaagccaagggcaaggctac                ctgacaaatggggtatgcgtagataaagcag     
                                                                                                 *          

Query   Intron---> EAAELSSLKSQLQELEVPLFAVVKENLGKELDCFKRFFSGKVYVDQQ <---Intron---> RNFYGPQERWMFLSMFLRIGVWRNIW
         84bp    > ||||||||/||||/|||||||||||||||||||||//|||||||| / <   109bp    > |||||| |||||||| ||||||||/|
Target             EAAELSSLQSQLQDLEVPLFAVVKENLGKELDCFKKYFSGKVYVDHK                RNFYGPLERWMFLSMVLRIGVWRNLW
                   ggggcttcctcccgcggcctgggagacgagcgttaatttgagtggca                aattgccgatatctagccaggtaact
                   accatcctacataatatcttcttaaatgaatagtaaatcgatataaa                gatagctaggtttctttgtgtggatg
                   gttggctagcgggccgttatcgcaactcgggcccggcctagccgtcg                atccctagaggtccgcgtttgggtcg
                                                                                                            

Query   RAYRRGYRGNMKGEGLVLGGVFVIGPGEQ <---Intron---> GVRLEHREMEFGDKVNMLAVLRTARNMCDN
        || |/|/||| /||| |||||||||||/| <    81bp    > |/ ||||| ||||||||||/| ||| | ||
Target  RANRKGFRGNFRGEGFVLGGVFVIGPGDQ                GILLEHREKEFGDKVNMLALLTTARKMQDN
        cgacagtagatagggtgcgggtgagcggc                gatcgccgagtggagaatgtcaagcaacga
        gcagagtggatggagtttggttttgcgaa                gtttaagaaatgaatattcttcccgataaa
        agcgactgactataatcgtaccctgcatg                ctaggctgggtgcagtggtacgaccaggcc
                                                                                   
 Sequence until next stop: 
AAAGCAAGATAG
 K  A  R  * 

 Distance CDS-SECIS: 239 ; UGA-SECIS: 650

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JXSJ01000036.1:subseq_1864154,52277_ Strand = - Positions = 1251 - 1179
 Found by:  Infernal (score=35.63) Covels (score=28.66)
 Stem2 length = 10   Apical loop length = 12   Insertion in stem2 = 0, 0
 Free Energy = -23.3

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((((.....{[[((({[(((((((.....---.......)))))))]})))]]}..--..)))))))))..
 target  UUUUUGUGUGUUUUAAUGAAGACGUGUCUCUAAACU---CUGCAGAGGGGACAACUCUGAUGC--UUGCACACAAAUU
                         ****           ^^^                       ****