{\rtf1\ansi\ansicpg1252\cocoartf1187\cocoasubrtf400
{\fonttbl\f0\fswiss\fcharset0 Helvetica;\f1\fmodern\fcharset0 Courier;\f2\fmodern\fcharset0 Courier-Bold;
}
{\colortbl;\red255\green255\blue255;}
\paperw11900\paperh16840\margl1440\margr1440\vieww16500\viewh13780\viewkind0
\pard\tx566\tx1133\tx1700\tx2267\tx2834\tx3401\tx3968\tx4535\tx5102\tx5669\tx6236\tx6803\pardirnatural

\f0\fs36 \cf0 \ul \ulc0 ELEMENTS SECIS TROBATS\

\fs24 \ulnone \
\

\b \ul Sel15\

\b0 \ulnone \
\pard\pardeftab720

\f1\fs26 \cf0 ------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432107065|gb|KB105184.1|:subseq_1997890,100080_ Strand = + Positions = 82710 - 82783\
 Found by:  Infernal (score=34.36) Covels (score=25.65)\
 Stem2 length = 11   Apical loop length = 15   Insertion in stem2 = 0, 1\
 Free Energy = -17.16\
\
         ..(((((((.......(((((((((((((((...............))))))))).))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccagg-cCuGAUGuuuuuucaugaccggc\
         ..(((((((.--....\{[[((((((((((((...............))))))))).)))]]\}..--..-.)))))))..\
 target  CAGAUUUGCG--UUAAUGAAGACUACACAGAAAACCUUUUUCAGGAUUUGUGUGGAUCUGAUAG--UU-AGCAAAUUCU\
                         ****           ^^^                        ****                 \
\
\
\

\f2\b \ul GPx1\

\f1\b0 \ulnone \
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432092349|gb|KB112367.1|:subseq_1442613,100359_ Strand = - Positions = 49970 - 49899\
 Found by:  Infernal (score=33.54) Covels (score=24.13)\
 Stem2 length = 11   Apical loop length = 10   Insertion in stem2 = 1, 0\
 Free Energy = -21.32\
\
         ..(((((((.......((((((((((.(((((...............)))))))))))))))..........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ((((\{((((.--....\{[[(((((((.(((((........-----..))))))))))))]]\}......-.-.))))\}))))\
 target  GGGGUGUUUA--UCCAUGAGGGUGUUGCCUCUAAACCUAC-----GCGGAGGAAUGCCUGAUGCCCUG-C-CAAACCCCCC\
                         ****            ^^^                       ****    \
\
\
\

\f2\b \ul GPx2\
\ulnone \

\f1\b0 ------- SECIS element -- id:1 -- grade:A ----\
Chromosome = gi|432107930|gb|KB104801.1|:subseq_1637463,103345_ Strand = + Positions = 53565 - 53629\
Found by:  Infernal (score=27.33) Covels (score=24.15)\
Stem2 length = 9   Apical loop length = 11   Insertion in stem2 = 0, 0\
Free Energy = -20.8\
\
      <  ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ...((((((---(...([[\{((\{[((((((......-..-----...))))))]\}))\}]])----...)))))))...\
 target  GGCCUUCAC---AGAAUGAUGGCACCGUCCUAAACC-UG-----UAUGGGCGGGAUCUGAG----ACAUGUGAAGAGC\
                        ****           ^^^                       ****       \
\
\
\

\f2\b \ul GPx3
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432098791|gb|KB109247.1|:subseq_1900000,100000_ Strand = + Positions = 91316 - 91389\
 Found by:  Infernal (score=23.59) Covels (score=29.67)\
 Stem2 length = 9   Apical loop length = 13   Insertion in stem2 = 0, 0\
 Free Energy = -22.92\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))..........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ..((((\{((---((..([[(((\{((((\{(((.....--........)))\}))))\})))]])......-.))))\}))))..\
 target  AGUGGCGUC---UCUAUGAAGGAGGGGCCCGAAGCC--CUAGUGGGCGGACCUCCCCUGAGCCUGUC-UGAGGGGCCAGC\
                         ****           ^^                        ****                   \
\
\
\

\f2\b \ul GPx4
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432101097|gb|KB108036.1|:subseq_1386629,100035_ Strand = + Positions = 50093 - 50166\
 Found by:  Infernal (score=27.72) Covels (score=31.8)\
 Stem2 length = 10   Apical loop length = 15   Insertion in stem2 = 0, 0\
 Free Energy = -13.36\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ..(\{\{\{((((......([[\{\{(((((((([(...............)]))))))))\}\}]])----...))))\}\}\})..\
 target  UUCCACCCGGCACUCAUGACAGUCUGUCUAAAAACCAGCCUGCUGGUGGGGCAGACCCGAG----AACCCGGCAUGUU\
                         ****           ^^^                       ****                 \
\
\
\

\f2\b \ul GPx5
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432115055|gb|KB101385.1|:subseq_331308,100215_ Strand = - Positions = 49934 - 49863\
 Found by:  Infernal (score=32.21) Covels (score=22.07)\
 Stem2 length = 12   Apical loop length = 8   Insertion in stem2 = 1, 0\
 Free Energy = -29.0\
\
         ..(((((((.......((((((((((.(((((...............))))))))))))))).........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc\
         ((((((((((--....\{[[(((((((.((((((.......-----.)))))))))))))]]\}.....-..))))))))))\
 target  GGGGGGUUUA--UCCAUGAAGGUGUUGCCUCUAAAUCUAC-----AUAGAGGAAUGCCUGAUGUCCA-GCUAAAUCCCCC\
                         ****             ^^                       ****                  \
\
\
\

\f2\b \ul GPx7
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432095569|gb|KB110890.1|:subseq_1350000,100000_ Strand = - Positions = 39073 - 39003\
 Found by:  Infernal (score=12.85) Covels (score=15.4)\
 Stem2 length = 9   Apical loop length = 12   Insertion in stem2 = 0, 0\
 Free Energy = -12.82\
\
         ..(((((((........(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ..(\{(((((........([[\{\{(((((((((.........-----...)))))))))\}\}]])..--..-.)))))\})..\
 target  GUAAGCGUUAGCGAGAGUGACUUAUUCUCUCCAAAGAAGC-----CAAGAGAGAAUACUGAGAG--AC-GGAUGCAUUU\
                          ****           ^^^                       ****                 \
\
\
\

\f2\b \ul DI1
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432095569|gb|KB110890.1|:subseq_2512362,100074_ Strand = + Positions = 50984 - 51055\
 Found by:  Infernal (score=28.43) Covels (score=23.21)\
 Stem2 length = 8   Apical loop length = 14   Insertion in stem2 = 0, 0\
 Free Energy = -7.98\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))..........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ...((((((.--....\{[[\{((\{((((((..........-----....))))))\}))\}]]\}......-...))))))...\
 target  UUCAUAUUUG--UUUAUGAUGGCCACAGCCUAAAGUACA-----CACAGCUGUGACUUGAUUUGAAA-AUAAAAUAUCUG\
                         ****           ^^^                       ****  \
\
\
\

\f2\b \ul DI2
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432003325|gb|KB199564.1|:subseq_5630656,100000_ Strand = - Positions = 45225 - 45153\
 Found by:  Infernal (score=22.33) Covels (score=29.84)\
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0\
 Free Energy = -17.27\
\
         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ((\{((((((---....\{[[(((((((((((..................)))))))))))]]\}..--..-.))))))\}))\
 target  ACCAGUGUG---CGAAUGAUAACUACUGACCAAAGAGUCAUCGACUCAGUUAGUGGUUGGAUGU--AG-UCACAUUCGU\
                         ****           ^^^                        ****                 \
\

\f2\b \ul DI3
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432098262|gb|KB109558.1|:subseq_2992989,100689_ Strand = + Positions = 51240 - 51309\
 Found by:  Infernal (score=15.52) Covels (score=19.78)\
 Stem2 length = 8   Apical loop length = 17   Insertion in stem2 = 0, 0\
 Free Energy = -20.13\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         (((((\{(((---(...([[\{(((\{((\{(((.................)))\}))\})))\}]])----..-))))\})))))\
 target  GCCCCGCUG---CUGAUGAUGAGCUGCCUCUAACUGGUCUUGACCACGAGCUGCUUCUGAA----UU-GCAGGGGGGC\
                         ****           ^^                        ****                 \
\
\
\

\f2\b \ul SelH
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432090520|gb|KB113170.1|:subseq_280000,100000_ Strand = + Positions = 52449 - 52516\
 Found by:  Infernal (score=27.48) Covels (score=21.38)\
 Stem2 length = 9   Apical loop length = 9   Insertion in stem2 = 0, 0\
 Free Energy = -9.82\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))..........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ...((((\{(---....([[\{((\{(((((((......--------...)))))))\}))\}]])......-...)\}))))...\
 target  GUUGGAACA---UUUAUGACGGGACAUGGCCAAACU--------ACAGUUAUGUGCCUGAAGCUAUA-GUUUCUUCCCCU\
                         ****           ^^^                       ****   \
\
\

\f2\b \ul SelI
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432096751|gb|KB110330.1|:subseq_5714462,140067_ Strand = - Positions = 48687 - 48611\
 Found by:  Infernal (score=25.53) Covels (score=23.36)\
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 1\
 Free Energy = -5.77\
\
         ..(((((((.......(((((((((((((((................))))).))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc\
         ...((\{(\{((......\{[[[((((((((((..................))).)))))))]]]\}..--..-))\})\}))...\
 target  GAAGUUUGUGCUUGAAUGAAGAGUGUAUCUUAAACCCUUUUUUUGGAUGGAUUGCACUUGGAUAA--AA-UAGGCACCAC\
                         ****           ^^^                         ****                 \
             \
\

\f2\b \ul SelK(+)
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432088519|gb|KB114370.1|:subseq_2644302,100242_ Strand = + Positions = 50404 - 50490\
 Found by:  Infernal (score=21.79) Covels (score=34.14)\
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 0\
 Free Energy = -6.79\
\
         ..(((((((..............(((((((((((((((................)))))))))))))))..........)))))))..\
 model   uucggucaugcg-------UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ...(\{((((..............\{[[((((((((((((................))))))))))))]]\}......-...))))\})...\
 target  UACUCUGUGUCCUCACAGACGAAUGAGGUCGUGUUGGGAAUUCCCUCACAGGGAUCUGGCAUGACUGACAUGCAA-UUCUAUAAAUGC\
                                ****           ^^                         **** \
\
\

\f2\b \ul SelK(-)
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432115847|gb|KB100898.1|:subseq_860350,100074_ Strand = - Positions = 48179 - 48093\
 Found by:  Infernal (score=21.79) Covels (score=34.14)\
 Stem2 length = 11   Apical loop length = 16   Insertion in stem2 = 0, 0\
 Free Energy = -6.79\
\
         ..(((((((..............(((((((((((((((................)))))))))))))))..........)))))))..\
 model   uucggucaugcg-------UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         ...(\{((((..............\{[[((((((((((((................))))))))))))]]\}......-...))))\})...\
 target  UACUCUGUGUCCUCACAGACGAAUGAGGUCGUGUUGGGAAUUCCCUCACAGGGAUCUGGCAUGACUGACAUGCAA-UUCUAUAAAUGC\
                                ****           ^^                         ****                   \
                  \
\
\

\f2\b \ul SelN
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432034144|gb|KB168745.1|:subseq_1989667,100134_ Strand = - Positions = 40450 - 40380\
 Found by:  Infernal (score=40.48) Covels (score=30.36)\
 Stem2 length = 10   Apical loop length = 12   Insertion in stem2 = 0, 0\
 Free Energy = -30.4\
\
         ..(((((((.......(((((((((((((((...............))))))))))))))).........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc\
         ...(((((((--((..\{[[\{((((((((((.........-----...))))))))))\}]]\}.....-)))))))))...\
 target  CCAGCAGCUG--CGCAUGAUGGCUGGGUCUGAAAUCCUA-----GAGGGGCCCAGCUUGAUGUCCC-UGCAGUUGCCCC\
                         ****           ^^^                       ****                  \
\
\
\

\f2\b \ul SelO
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432091612|gb|KB112774.1|:subseq_1200000,100000_ Strand = + Positions = 45078 - 45148\
 Found by:  Infernal (score=22.81) Covels (score=28.56)\
 Stem2 length = 10   Apical loop length = 18   Insertion in stem2 = 0, 0\
 Free Energy = -12.77\
\
         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ..(\{(\{\{((---....\{[[\{((((((((((..................))))))))))\}]]\}----..-.))\}\})\})..\
 target  CCCCGUCUC---UCCAUGACGACAGGGACGUCCAGUCAGGACCUGACCCGUCUCUGUCUGAC----AC-CGACUCAGCA\
                         ****           ^^                         ****                 \
\
\
\

\f2\b \ul SelP
\f1\b0 \ulnone \
\
------- SECIS element -- id:4 -- grade:A ----\
 Chromosome = gi|432087373|gb|KB115516.1|:subseq_1546558,98102_ Strand = - Positions = 49669 - 49598\
 Found by:  Infernal (score=28.59) Covels (score=29.46) SECISearch1.0 (pattern=default)\
 Stem2 length = 9   Apical loop length = 18   Insertion in stem2 = 0, 0\
 Free Energy = -13.17\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ...(\{((((.--....\{[[\{(((((((((.......-...........)))))))))\}]]\}..--..-.))))\})...\
 target  UCUACUUGCA--UUAAUGAGAACAGGAACAGAAACU-AUGACCUAGGGGUUCCUGUUGGAUAG--UU-AGCAAUUUAG\
                         ****           ^^^                       ****                 \
\
\
\

\f2\b \ul SelR1
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432102504|gb|KB107323.1|:subseq_598712,100000_ Strand = + Positions = 51964 - 52034\
 Found by:  Infernal (score=37.67) Covels (score=26.09)\
 Stem2 length = 10   Apical loop length = 14   Insertion in stem2 = 0, 0\
 Free Energy = -22.24\
\
         ..(((((((.......(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         .(\{((((((---....([[\{\{((((((((((.....-.........))))))))))\}\}]])..--..-.))))))\}).\
 target  CUCAGUCAC---UGCAUGAUUCACUCUGGUUAAACC-CUUCCAGGCAGCCAGAGUGUUGAAGA--UC-UGUGACUUGU\
                         ****           ^^^                       ****                 \
\
\
\
\

\f2\b \ul SelS
\f1\b0 \ulnone \
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432090942|gb|KB112968.1|:subseq_986001,100230_ Strand = - Positions = 49418 - 49331\
 Found by:  Infernal (score=22.7) Covels (score=35.21)\
 Stem2 length = 8   Apical loop length = 19   Insertion in stem2 = 0, 0\
 Free Energy = -11.31\
\
         ..(((((((..............(((((((((((((((.................)))))))))))))))..........)))))))..\
 model   uucggucaugcg-------UuaAUGAcGgccuggcccuAAAcC--cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         .((((((\{(..............([[\{((\{\{((((((...................))))))\}\}))\}]])......-...)\})))))).\
 target  UCUCUGUGAUAGGUUGCGUCGAAUGACGUCCUCCUUGUAAAUGGUGAAGCCACCACCAAGGAUUACCGAGGCUCAC-AGUUGACGGGGU\
                                ****           ^^^                         ****                   \
\
\
\

\f2\b \ul SelT
\f1\b0 \ulnone \
\
\pard\pardeftab720
\cf0 ------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432088674|gb|KB114215.1|:subseq_1,89015_ Strand = + Positions = 64508 - 64596\
 Found by:  Infernal (score=26.77) Covels (score=39.15)\
 Stem2 length = 11   Apical loop length = 13   Insertion in stem2 = 0, 0\
 Free Energy = -11.57\
\
         ..(((((((....................(((((((((((((((...............)))))))))))))))........)))))))..\
 model   uucggucaugcg-------------UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         ..(((((\{((...................\{[[\{((\{(((((((((.............)))))))))\}))\}]]\}..--...))\})))))..\
 target  UUUUUGCAAGAGCAGCGUGACUGACAUUAUGAAGGCCUGUACUGAAGACAGCAAGCUGUUAGUACAGACCAGAUGU--UUCUUAGCAGGCU\
                                      ****                                     ****                 \
\
\
\

\f2\b \ul SelW1
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432116217|gb|KB100806.1|:subseq_1,21857_ Strand = - Positions = 10598 - 10518\
 Found by:  Infernal (score=38.16) Covels (score=33.45)\
 Stem2 length = 10   Apical loop length = 16   Insertion in stem2 = 0, 0\
 Free Energy = -25.92\
\
         ..(((((((........(((((((((((((((................)))))))))))))))..........)))))))..\
 model   uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         .((((((((........\{[[\{((((\{((((((................))))))\}))))\}]]\}......-...)))))))).\
 target  UCUCGGCAGACGCUUCAUGAUGGGAUGGACUGAAAUGUCUCCAGACGCCGGUCUUUUCCUGAUGUUCUG-CGGCUGCCGGGC\
                          ****           ^^^                        ****                   \
\
\
\

\f2\b \ul TR1
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432094352|gb|KB111329.1|:subseq_3850000,200000_ Strand = - Positions = 57799 - 57717\
 Found by:  Infernal (score=24.81) Covels (score=18.86)\
 Stem2 length = 11   Apical loop length = 12   Insertion in stem2 = 1, 0\
 Free Energy = -18.37\
\
         ..(((((((..............((((((((((.(((((...............)))))))))))))))..........)))))))..\
 model   uucggucaugcg-------UuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc\
         .(\{(((\{((((............([[[(((((.((((((.....---.......)))))))))))]]])......-)-)))\})))\}).\
 target  CAGUGCAUCGUAGGGUGCGUCCAUGAAGUCACUGGCCUGAAGCC---CCCGCGGUGGGCCGUGAUGGAAUUACUG-G-CGAAGCAGUU\
                                ****            ^^                        ****                   \
\
\
\

\f2\b \ul TR2
\f1\b0 \ulnone \
\
------- SECIS element -- id:1 -- grade:A ----\
 Chromosome = gi|432094826|gb|KB111160.1|:subseq_332512,100080_ Strand = + Positions = 88069 - 88141\
 Found by:  Infernal (score=33.07) Covels (score=35.48)\
 Stem2 length = 9   Apical loop length = 16   Insertion in stem2 = 0, 0\
 Free Energy = -18.29\
\
         ..(((((((.......(((((((((((((((................)))))))))))))))........)))))))..\
 model   uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc\
         .((((((((---....([[\{(((\{((\{((((................))))\}))\})))\}]])..--..-.)))))))).\
 target  CGAUGCCAG---AUGAUGACGACCUGCGCAGAAACCCACCCCGUGGGCUGCCCAUGUCUGAGCC--CC-CCUGGUAUUU\
                         ****           ^^^                        ****                 \
\
\
}