------- SECIS element -- id:1 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 208 - 131
 Found by:  Covels (score=5.14)
 Stem2 length = 8   Apical loop length = 14   Insertion in stem2 = 0, 0
 Free Energy = -10.8
 Type = 1

         ..(((((((........(((((((((((((((...............))))))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccg-gc
         ...((({({(((.....([[((((({(({({(.....-.........)})}))})))))]])....)-)-)})})))....
 target  AAAGGAAAAGAGgCCCAAGAAAUAAUGUUAUAAAUUU-AUUUAUUUAUUUUAUUUUAUUGAUGGGAu-U-UAUAUCCCgCC
                          ****           ^^                        ****                   

------- SECIS element -- id:2 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 6428 - 6347
 Found by:  Covels (score=5.31)
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0
 Free Energy = -5.6   Free energy of apical portion = -3.8
 Type = 2

         ..(((((((........(((((((((((((((..................))))))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccg-gc
         ...({([((........{[[{([[([(({({(....(((....)))....)})}))])]])}]]}.....-.-.))])})....
 target  AUCUAUGGAAAGuAAGAUGAACAAAAUCUUGAAAAUGccgCUCGGCUUUAUGGUGAGUGGGCGAUGUAUa-G-AUCAAAACuAC
                          ****           ^^^                          ****                   

------- SECIS element -- id:3 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 77959 - 77884
 Found by:  Covels (score=7.68)
 Stem2 length = 8   Apical loop length = 17   Insertion in stem2 = 0, 1
 Free Energy = -10.2
 Type = 1

         ..(((((((........(((((((((((((((...............))))))).))))))))........)))))))....
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggcca-ggcCuGAUGuuuuuucaugaccg--gc
         ....(({(((.......([[{([((-((((.......--..........))).-)))])}]])..--...)))}))......
 target  UUCGGGAUCUGUgGUCAUGAUCAGU-GGCCACAAAAG--AUAUUUAAAGGGUC-cAUGGUGAAGG--UUGAGAACCACuaAG
                          ****           ^^^                        ****                   

------- SECIS element -- id:4 -- grade:C ----
 Chromosome = your_sequence Strand = + Positions = 27610 - 27682
 Found by:  Covels (score=6.63)
 Stem2 length = 8   Apical loop length = 8   Insertion in stem2 = 1, 0
 Free Energy = -10.2
 Type = 1

         ..(((((((........((((((((((((.(((...............))))))))))))))).........)))))))...
 model   uucggucaugcg-UuaAUGAcGgccuggc-ccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccg-gc
         ..(([[(((........([[{{(({({(-.(((((......-----)))))-)})}))}}]]).....-.-.)))]]))...
 target  CCAGGGCUGAGAgAAAAUGACUGGUCUA-aAGUCACCCAGC-----UGGCU-UUGUCCUUGAAGCAAg-A-CUAGAACUuAC
                          ****              ^^                      ****                   

------- SECIS element -- id:5 -- grade:B ----
 Chromosome = your_sequence Strand = - Positions = 56825 - 56750
 Found by:  Infernal (score=13.21) Covels (score=8.51)
 Stem2 length = 8   Apical loop length = 16   Insertion in stem2 = 4, 3
 Free Energy = -17.8   Free energy of apical portion = -5.2
 Type = 2

         ..(((((((.......(((((((.................................)))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccgAAAcCcuuuuuggggugggccag--gcCuGAUGuuuuuucaugaccggc
         ...(((({(.--....{[[(((((...((.((((............)))).))..)))))]]}..--....)}))))...
 target  UUUGGAAAGU--UAAAUGAAGGCUGAAGGCCAGUUCAUAUGUGCUUGCUGCCCAAGGCCUGAUGA--CUAUCCUUCCCCC
                         ****                                       ****                 

------- SECIS element -- id:6 -- grade:A ----
 Chromosome = your_sequence Strand = - Positions = 46555 - 46491
 Found by:  Infernal (score=30.76) Covels (score=24.18)
 Stem2 length = 10   Apical loop length = 11   Insertion in stem2 = 0, 0
 Free Energy = -19.3
 Type = 1

         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc
         .(((({(((---....([[{((((((((((......-..-----...))))))))))}]])----....)))})))).
 target  GACUUCUAC---UGAAUGACAGUCUCCUUUAAAAGC-UU-----CAAGGAGGAGGCUUGAA----AAGUGUAAAAGUA
                         ****          ^^^                        ****