------- SECIS element -- id:1 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 54968 - 54890
 Found by:  Covels (score=8.51)
 Stem2 length = 11   Apical loop length = 15   Insertion in stem2 = 0, 0
 Free Energy = -7.1   Free energy of apical portion = -3.3
 Type = 2

         ..(((((((........(((((((((((((((.................)))))))))))))))........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ......(({((......([[{[(((({((([((...((((...)))).))])))}))))]}]])..--..))}))......
 target  AGCACUAUCUACuAUAAUGAAAAAUAUGGGGGAAAGGggCUCCGUCCAUCACUUUUAUUGAGAAUG--GUUACAUUUAACU
                          ****            ^^                         ****                 

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 140529 - 140457
 Found by:  Covels (score=8.79)
 Stem2 length = 9   Apical loop length = 11   Insertion in stem2 = 0, 0
 Free Energy = -7.5
 Type = 1

         ..(((((((........(((((((((((((((...............)))))))))))))))..........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccg-gc
         .([([(...........{[[{({((((((((------...........))))))))})}]]}....-.-.-....)])])..
 target  AUAAGACCCAGGaGGUAUGACGUGUCUCUUG------CUGUAUCUAUCCAGGAGACCCAGAUGGAc-c-U-AAUCUAUGaCG
                          ****                                     ****                    

------- SECIS element -- id:3 -- grade:C ----
 Chromosome = your_sequence Strand = + Positions = 16199 - 16277
 Found by:  Covels (score=5.22)
 Stem2 length = 8   Apical loop length = 13   Insertion in stem2 = 2, 0
 Free Energy = -13.4
 Type = 1

         ..(((((((........(((((((...((((((((...............))))))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgc---cuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccg-gc
         ...(([(([((......([[(({-..(({(((({(.....--........)}))))}))}))]]).....-)-)]))]))....
 target  UUAGCAACAUCCaGCGAUGAAAU-guaCCCGCCGGAAAAU--AUCAUUGACGGGUGAGUCUUGAGUCUUc-G-GGGUGGCGuUG
                          ****              ^^^                       ****                   

------- SECIS element -- id:4 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 67500 - 67416
 Found by:  Infernal (score=11.86)
 Stem2 length = 11   Apical loop length = 20   Insertion in stem2 = 0, 0
 Free Energy = -17.0
 Type = 1

         ..(((((((........(((((((((((((((......................))))))))))))))).........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuugggg-------cgggccaggcCuGAUGuuu-uuucaugaccggc
         ..((((((.........{[[(((((({((((((....................))))))}))))))]]}.....-.-..))))))..
 target  UAUUUCCUACCUGAACGUGAUGUCCAUAGUUUUGGUCCUCUUCUCAUAAUAUGGGGACUUUGGACAGAUCCAUG-C-CAAGGAGAGU
                          ****               ^^                           ****                  

------- SECIS element -- id:5 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 22265 - 22197
 Found by:  Infernal (score=20.87) Covels (score=23.58)
 Stem2 length = 10   Apical loop length = 10   Insertion in stem2 = 0, 0
 Free Energy = -5.7
 Type = 1

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         ..(((((((.--....{[[{{((((((((((........-----..))))))))))}}]]}..--....)))))))..
 target  UUAAUAUUUG--UUUAUGAUAGUCAUAGUUUAAAACAUA-----GAGGAUUAUGACCUGAUAC--AGAAAAAUAUUUA
                         ****           ^^^                       ****