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

 Blastx evalue: e-176
 Query name: gi|825310617|gb|AKJ23340.1| deiodinase 3b [Salmo salar]
 Query range: 1-261  (total 261)

 Target: /data/www-rg/seblastian_results/973972932/tempfiles/temptarget.fasta
 Chromosome: CM007953.1:subseq_53621818,100707_ Strand: +
 Positions:
 -Exon 1  49970        50752

 Redox box: no

Query   MNTVKAMKNAIVCLILLPRFFLAAIMLWFLDFHCVRKRVFPKMKEQEGNIVDPPVCISESNRMFSWESIKAVWHGHKLDFLKSAHLGYVAPNTEVVQLRD
        ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Target  MNTVKAMKNAIVCLILLPRFFLAAIMLWFLDFHCVRKRVFPKMKEQEGNIVDPPVCISESNRMFSWESIKAVWHGHKLDFLKSAHLGNVAPNTEVVQLRD
        aaagagaaagagtcatccctttggaacttcgtctgaaagtcaaagcggaaggccgtatgtacatatgtaaggtcgcacgttatgccgaggcaagggcccg
        tactactaacttgttttcgtttcctttgttatagtgagttcataaaagattacctgtcacagttggactactgagaatattaccatgatccacattatga
        gtacgtgatatctttagtcccgagagggtctttcaaggcccaggaaaattcccaattcgttagccggacactgtctagccaaggttatagcctatggccc
                                                                                                            

Query   QSCNRILDYAKDKRPLILNFGSCTUPPFMTRLKAFQRVVQQYADISDSVVVYIEEAHPSDGWMSSDAPYQIPKHRCLEDRLSAAQIMNREVPGCLVVADS
        | |||||||||/||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  QRCNRILDYAKEKRPLILNFGSCTUPPFMTRLKAFQRVVQQYADISDFVVVYIEEAHPSDGWMSSDAPYQIPKHRCLEDRLSAAQIMNREVPGCLVVADS
        catacacgtgagaaccacatgatatcctaactagtccggcctggatgtgggtagggcctggtaatggctcacacctcggacaggcaaacggcgtcgggga
        aggagttaacaaagctttatgggcgccttcgtactagttaaacatcattttataacaccaggtgcaccaatcaaggtaagtgccattagatcggtttcag
        gaccgttctcaggagctactccccaagcgacgggcgttggacttcactctgcagagcggcaggctctccatcacctcgcactctaagctgctgcttcacc
                                *                                                                           

Query   MDNSSNAAYGAYFDRLYILQDGKIVYQGGRGPEGYRISELRDWLDQYRQSVGNSRNVVIHV
        |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target  MDNSSNAAYGAYFDRLYILQDGKIVYQGGRGPEGYRISELRDWLDQYRQSVGNSRNVVIHV
        agattaggtggttgactaccggaagtcggagcggtcatgcagtcgctacaggataaggacg
        taaccaccagcatagtattaagattaaggggcagagtcatgagtaaagagtgacgatttat
        gtcgcccataatctatcatacagtccaatagggaccctggacgatacaattataatctttc
                                                                     
 Sequence until next stop: 
TAG
 * 

 Distance CDS-SECIS: 349 ; UGA-SECIS: 757

------- SECIS element -- id:1 -- grade:A ----
 Chromosome = CM007953.1:subseq_53621818,100707_ Strand = + Positions = 51102 - 51175
 Found by:  Infernal (score=28.56) Covels (score=24.66)
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 1
 Free Energy = -16.49

         ..(((((((.......(((((((((((((((................))))))))).))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccagg-cCuGAUGuuuuuucaugaccggc
         ..(((((((---....{[[((((((((((((................))))))))).)))]]}..--..-.)))))))..
 target  GCCAGUAUU---UUUGUGAAGUUCGGUUUUUAAAAGGUACCUCACCAGAAAACCGAUACUGAUGU--UU-UAAUGCUGAU
                         ****           ^^^                         ****