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

 Blastx evalue: 5e-46
 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/685216243/tempfiles/temptarget.fasta
 Chromosome: SSNR01000008.1:subseq_3231273,100329_ Strand: -
 Positions:
 -Exon 1  51722        51776
 -Exon 2  50186        50328
 -Exon 3  49991        50113

 Redox box: no

Query   MSFCQFFGGEIYKDHFKPG <---Intron---> VYVCSKCNHPLFSSRSKFAHSSPWPAFTETIREDSVTKMMETLTAYK <---Intron---> VL
        ||||/|||||||||||||| <   1393bp   >  |||| ||||||||||||||||||||| /|||||||||||||||||| <    72bp    > ||
Target  MSFCRFFGGEIYKDHFKPG                TYVCSVCNHPLFSSRSKFAHSSPWPAFADTIREDSVTKMMETLTAYK                VL
        atttcttgggatagctacg                atgttgtacccttactatgcttctcgtggaaaggagaaaagacagta                gc
        tctggttggataaaatac                gcatgctgaacttcggcatcacccgcctcactgaagtcattactccaa                tt
        gtctgttcaaccgtttaa                agcgccgtcccgcctccgcccgtgggccccccagccccggggcccccg                cg
                                                                                                            

Query   CGKCGNGLGHEFVNDGPEEGISRFUIFSHSLKFVPGKGK
        |||||/||||||//|||||| |||||||||||||| |||
Target  CGKCGSGLGHEFLSDGPEEGTSRFUIFSHSLKFVPNKGK
        tgatgagcgcgtcaggcgggatcttatactcatgcaaga
        ggaggggtgaattgagcaagccgtgttgactattcaaga
        tggtccagacgcgtctcaaaggctatcccgcgccccata
                                *              
 Sequence until next stop: 
AAGCTGCTGCAGCGGCAGGACGTATGGTGGTGTAAACAGGAAGTGTTGATTAGCTTGTTTTAG
 K  L  L  Q  R  Q  D  V  W  W  C  K  Q  E  V  L  I  S  L  F  * 

 Distance CDS-SECIS: 314 ; UGA-SECIS: 356

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = SSNR01000008.1:subseq_3231273,100329_ Strand = - Positions = 49676 - 49603
 Found by:  Infernal (score=23.6) Covels (score=21.29)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -26.89

         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ...((((((---....([[{(((((((((((................)))))))))))}]])..--....))))))...
 target  UGGGGUCAG---CGGGUGAUGUGGGCGGGGUCAAGGCCUGAGGGGACGCCCCGCCUACUGAAGG--AUCACUGAUCAGC
                         ****            ^^                        ****