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

 Blastx evalue: 7e-39
 Query name: gi|908479522|ref|XP_003438768.2| PREDICTED: methionine-R-sulfoxide reductase B1-A-like [Oreochromis niloticus]
 Query range: 1-107  (total 110)

 Target: /data/www-rg/seblastian_results/499317469/tempfiles/temptarget.fasta
 Chromosome: WARS01000012.1:subseq_9084399,200000_:subseq_0,120000_ Strand: +
 Positions:
 -Exon 1  99215        99269
 -Exon 2  100001       100143
 -Exon 3  100248       100370

 Redox box: no

Query   MSFCQFFGGEIYKDHFKPG <---Intron---> VYVCSKCNHPLFSSRSKFAHSSPWPAFTETIREDSVTKMMETLTAYK <---Intron---> VL
        ||||/|||||||||||||| <   731bp    > /|||//||||||||||||||||||||||/||||||||||||/||||| <   104bp    > ||
Target  MSFCRFFGGEIYKDHFKPG                MYVCAQCNHPLFSSRSKFAHSSPWPAFTDTIREDSVTKMMESLTAYK                VL
        atttcttgggatagctacg                atgtgctacccttactatgcttctcgtagaaaggagaaaagtcagta                gc
        tctggttggataaaatac                gtatgcagaacttcggcatcacccgcctcactgaagtcattactccaa                tt
        gtctgttctgccattcaa                tgcgccgtctggcccgcgtccatcggcctcccggccccggggtccccg                cg
                                                                                                            

Query   CGKCGNGLGHEFVNDGPEEGISRFUIFSHSLKFVPGKGK
        ||||||||||||||||||||/|||||||||||||| |||
Target  CGKCGNGLGHEFVNDGPEEGVSRFUIFSHSLKFVPSKGK
        tgatgagcgcgtgaggcggggtcttatactcatgcaaga
        ggaggagtgaattaagcaagtcgtgttgactattcgaga
        tcatccggctgtctccaaaacatcaacccgcgtcccatg
                                *              
 Sequence until next stop: 
ATGAACACAGTTAGAAGGAGTAGTTTGATAAAATAA
 M  N  T  V  R  R  S  S  L  I  K  * 

 Distance CDS-SECIS: 228 ; UGA-SECIS: 270

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = WARS01000012.1:subseq_9084399,200000_:subseq_0,120000_ Strand = + Positions = 100599 - 100673
 Found by:  Infernal (score=26.93) Covels (score=15.13)
 Stem2 length = 9   Apical loop length = 19   Insertion in stem2 = 0, 0
 Free Energy = -24.31

         ..(((((((.......(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         (((((((((---....([[{((((({((((...................))))})))))}]])..--....)))))))))
 target  CCGGGUCAG---CGGGUGACGUGGACGGGGGAAAAGCCUGACAGGGACAUCCCAUCCACUGAAGG--UUGUUUGACCUGG
                         ****           ^^^                         ****