------- SECIS element -- id:1 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 3077 - 3006
 Found by:  Covels (score=5.17)
 Stem2 length = 7   Apical loop length = 12   Insertion in stem2 = 0, 0
 Free Energy = -4.8
 Type = 1

         ..(((((((........((((((((((.(((((...............))))).)))))))))).........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggc-caggcCuGAUGuuu-uuucaugaccggc
         ((({({{((........([[((({((({[(........--------....)]-})))})))]]).....-...))}})})))
 target  AUCCCUAGUAUGgAUUAUGAUCACCUAuAUUCCCAGUC--------AGAAAG-cUAGAUGAGAAGCAUa-GUGGUCUGUGGU
                          ****          ^^                           ****                  

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 38537 - 38459
 Found by:  Covels (score=5.88)
 Stem2 length = 7   Apical loop length = 21   Insertion in stem2 = 0, 0
 Free Energy = -4.1   Free energy of apical portion = -0.1
 Type = 2

         ..(((((((........(((((((((((((((...............))))))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccg-gc
         .((({({([((......{[[{((((({((..........((....))...))})))))}]]}.....-)-)])})})))..
 target  UAGAUGAUAAACuAGGAUGAAAAAUGAAAAAGAAACAAAGCCUCUGCAAAUUACAUUUAGAUAAAUa-U-UGAACUUCuCA
                          ****        ^^                           ****                   

------- SECIS element -- id:3 -- grade:B ----
 Chromosome = your_sequence Strand = + Positions = 46341 - 46418
 Found by:  Covels (score=5.62)
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0
 Free Energy = -4.6
 Type = 1

         ..(((((((........(((((((((((((((....................))))))))))))))).........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-----cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
         .....((((........([[{((((((((((------(..............)))))))))))}]]).....-...)))).....
 target  ACUAAUUUUGUCaCACAUGAGAUCUAGAUGU------ucccuAACGCAAAUUGAUAUUUGGGUGGAGGGGAa-GUAGAAACCUGU
                          ****                 ^^                       ****                  

------- SECIS element -- id:4 -- grade:B ----
 Chromosome = your_sequence Strand = + Positions = 5031 - 5104
 Found by:  Covels (score=11.63)
 Stem2 length = 8   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -7.3
 Type = 1

         ..(((((((........(((((((((((((((...............)))))))))))))))...........)))))))..
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu--u-uuucaugaccggc
         .(({(((..........{[[{(({([((((..........-----....))))])}))}]]}.......---...)))})).
 target  AAAGCUUACUAUuUCCAUGACGGACAAGAAGUAGAUUGCA-----AAUAUUCUGGCCCAGAUAGUcuAg---AUCAGGGUUA
                          ****                                     ****                    

------- SECIS element -- id:5 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 48659 - 48585
 Found by:  Infernal (score=30.71) Covels (score=37.83)
 Stem2 length = 12   Apical loop length = 13   Insertion in stem2 = 0, 0
 Free Energy = -12.9   Free energy of apical portion = -1.0
 Type = 2

         ..(((((((.......(((((((((((((((...............)))))))))))))))..........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc
         ...({(([(---....{[[[((((((((((((...(((....)))))))))))))))]]]}......-.-.)]))})...
 target  UGAAUGAAA---UAAAUGAAGGUCUGUACUGAAGACAGAAAGCUGUUGGUACAGACUGGAUGAUCUA-C-UUGUCUUCAU
                         ****                                     ****