------- SECIS element -- id:1 -- grade:B ----
 Chromosome = JAGGNJ010016835.1:subseq_5545251,150000_ Strand = + Positions = 146197 - 146263
 Found by:  Infernal (score=16.32) Covels (score=12.42)
 Stem2 length = 10   Apical loop length = 10   Insertion in stem2 = 0, 0
 Free Energy = -14.9

         ..(((((((.......(((((((((((((((...................))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC----cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         ..(({((((---....([[{((((((((((------(......-----..)))))))))))}]]).....-.-.))))}))..
 target  AAGGAUUUU---CUGUUGAUGACUUAAUGA------CCAGCAC-----AAGUCAUUAAGUCUGAAAAGCC-C-UGAAACCCCU
                         ****                ^^                       ****                  

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = JAGGNJ010016835.1:subseq_5545251,150000_ Strand = - Positions = 190 - 109
 Found by:  Infernal (score=14.59) Covels (score=2.18)
 Stem2 length = 11   Apical loop length = 21   Insertion in stem2 = 0, 0
 Free Energy = -18.4

         ..(((((((.......(((((((((((((((.......................))))))))))))))).........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuugggg--------cgggccaggcCuGAUGuuu-uuucaugaccggc
         .((({((((---(...([[{(((((((({(((.....................)))}))))))))}]]).....-.-)))))}))).
 target  GGGAUUGUC---AUAUUGACGCUUUGCUAGGAAAAAAAAAGGGAGAACCGAUGUCCCAGUAAAGCUGAAGAGUC-U-UGAUAUUUCG
                         ****            ^^^                              ****                  

------- SECIS element -- id:3 -- grade:B ----
 Chromosome = JAGGNJ010016835.1:subseq_5545251,150000_ Strand = - Positions = 107933 - 107841
 Found by:  Infernal (score=12.87) Covels (score=2.5)
 Stem2 length = 9   Apical loop length = 27   Insertion in stem2 = 1, 0
 Free Energy = -5.94

         ..(((((((..........((((((((((.(((((.........................)))))))))))))))..........)))))))..
 model   uucggucaugcg---UuaAUGAcGgccug-gcccuAAAcC----------cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ..(({((((..........([[(((((((.({((...........................))}))))))))]])......-...))))}))..
 target  GGUUAUUAGUCUGCUUUUAUGAGGUAACUACUCAUAAACAUUAACCCCUGUAAUUAAUAGUUGUGAGUUGCUGAAGAAAUG-GUUUUAAAAAGU
                            ****            ^^^                                 ****