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

 Blastx evalue: 5e-10
 Query name: gi|928014420|ref|XP_013877637.1| PREDICTED: migration and invasion enhancer 1-like [Austrofundulus limnaeus]
 Query range: 4-95  (total 95)

 Target: /data/www-rg/seblastian_results/42116291/tempfiles/temptarget.fasta
 Chromosome: JXSJ01000888.1:subseq_1,52368_ Strand: +
 Positions:
 -Exon 1  2038         2155
 -Exon 2  2289         2365
 -Exon 3  2449         2529

 Redox box: no

Query   KIKVEYCGRUGYEPRYRELAQVVQAEFPEAEVSGFVGRTG <---Intron---> SFEVEINGQLVFSKLETNGFPYEDD <---Intron---> ILN
        // |   | ||| |||/|||/||/||||/|/||||||| | <   133bp    > |||/||||||/||||||/||||||| <    83bp    > |||
Target  RVFVPRSGAUGYAPRYQELARVVKAEFPDADVSGFVGRQG                SFEIEINGQLIFSKLETSGFPYEDD                ILN
        cgtgccaggtgtgcctcgcgcggaggtcggggtgtggacg                atgagaagccattacgaagtctggg                ata
        gtttcgggcggaccgaaatcgttacatcacatcgttgga                ggtatatagatttcatacggtcaaaa                tta
        ggttacccaaacacctggccgtcgtgtttgtgaccgaag                cccgtaccgggcccgcgttccatgtt                cgc
                 *                                                                                          

Query   AVQDACDGKPVQKITKSRAPCVIM
        ||| | ||||||||||||||||||
Target  AVQSADDGKPVQKITKSRAPCVIM
        ggcaggggacgcaaaaacgctgaa
        ctagcaagactaatcaggccgttt
        acgccctgactggccaccgccccg
                                
 Sequence until next stop: 
TAA
 * 

 Distance CDS-SECIS: 233 ; UGA-SECIS: 479

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JXSJ01000888.1:subseq_1,52368_ Strand = + Positions = 2763 - 2838
 Found by:  Infernal (score=28.75) Covels (score=22.06)
 Stem2 length = 11   Apical loop length = 10   Insertion in stem2 = 0, 0
 Free Energy = -27.49

         ..(((((((........(((((((((((((((...............)))))))))))))))...........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu--u-uuucaugaccggc
         ..((((((((.......{[[{(((((((((((........-----..)))))))))))}]]}.......-..))))))))..
 target  GAGCUCCAGGCUGUUAAUGAUUACUGUAGCCUAAAAAGUU-----AAAGGUUGCGGUAUGAUGAAUCCA-UUCCUGGAGUGU
                          ****           ^^^                       ****