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

 Blastx evalue: 9e-21
 Query name: gi|170671714|ref|NP_001116250.1| thioredoxin reductase 3 [Canis lupus familiaris]
 Query range: 521-586  (total 586)

 Target: /data/www-rg/seblastian_results/736114810/tempfiles/temptarget.fasta
 Chromosome: JSZB01010522.1:subseq_0,100000_ Strand: +
 Positions:
 -Exon 1  6725         6856
 -Exon 2  7070         7135

 Redox box: no

Query   RVIGFHVLGPNAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGE <---Intron---> VFTTLEITKSSGLDITQKGCUG
        ||||||/|||/||||||||||||||||||||||||||||||||| <   213bp    > / |/|/|||/|| |||||||||
Target  RVIGFHILGPSAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGE                ILTSLDITKASGRDITQKGCUG
        cgagtcacgcaggggacgtgggaatgcaactcggaagaccatgg                acaatgaaagtgcgaacagttg
        gttgtattgcgcgatcagtccctaggtcaattaactgtaccgga                ttcgtatcaccggatcaagggg
        ggaattttgctctaccgatataggtgcaggagtcctatcccttg                acctgtcggggaccccggccac
                                                                                        * 
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 212 ; UGA-SECIS: 215

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = JSZB01010522.1:subseq_0,100000_ Strand = + Positions = 7348 - 7431
 Found by:  Infernal (score=20.3) Covels (score=20.2)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -11.26

         ..(((((((.......(((((((((((((((................)))))))))))))))..............)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-----u-uuucaugaccggc
         ..(({({(((......{[[{(((([((((((................))))))]))))}]]}..........-..)))})}))..
 target  AGCGACACUGCCUCCUUGACGUCUGAGCUCGGAACCCCAUUGUGAGGUGAGCUAAGACUGACGCUCUUCCAA-AUCAGAGCUGAG
                         ****            ^^                        ****