
                                 vrnalfold 



Function

   Calculate locally stable secondary structures of RNAs

Description

   This is a port of the Vienna RNA package program RNAlfold.

Algorithm

   See the original documentation for the Vienna RNA package
   http://www.tbi.univie.ac.at/~ivo/RNA/

Usage

   Here is a sample session with vrnalfold


% vrnalfold 
Calculate locally stable secondary structures of RNAs
Input nucleotide sequence: tembl:d00596
Vienna RNALfold output file [d00596.vrnalfold]: 

   Go to the input files for this example
   Go to the output files for this example

Command line arguments

   Standard (Mandatory) qualifiers:
  [-sequence]          sequence   Nucleotide sequence filename and optional
                                  format, or reference (input USA)
  [-outfile]           outfile    [*.vrnalfold] Vienna RNALfold output file

   Additional (Optional) qualifiers: (none)
   Advanced (Unprompted) qualifiers:
   -constraintfile     infile     Vienna RNA structure constraints file
                                  (optional)
   -paramfile          infile     Vienna RNA parameters file (optional)
   -separation         integer    [150] Maximum allowed separation (Any
                                  integer value)
   -temperature        float      [37.0] Temperature (Any numeric value)
   -[no]gu             boolean    [Y] Allow GU pairs
   -[no]closegu        boolean    [Y] Allow GU pairs at end of helices
   -[no]lp             boolean    [Y] Allow lonely pairs
   -[no]convert        boolean    [Y] Convert T to U
   -nsbases            string     Non-standard bases (Any string is accepted)
   -[no]tetraloop      boolean    [Y] Stabilizing energies for tetra-loops
   -energy             menu       [0] Rarely used option to fold sequences
                                  from the ABCD... alphabet (Values: 0 (BP); 1
                                  (Any with GC); 2 (Any with AU parameters))
   -scale              float      [1.07] Estimate of ensemble free energy (Any
                                  numeric value)
   -dangles            menu       [1] Method (Values: 0 (Ignore); 1 (Only
                                  unpaired bases for just one dangling end); 2
                                  (Always use dangling energies); 3 (Allow
                                  coaxial stacking of adjacent helices))

   Associated qualifiers:

   "-sequence" associated qualifiers
   -sbegin1            integer    Start of the sequence to be used
   -send1              integer    End of the sequence to be used
   -sreverse1          boolean    Reverse (if DNA)
   -sask1              boolean    Ask for begin/end/reverse
   -snucleotide1       boolean    Sequence is nucleotide
   -sprotein1          boolean    Sequence is protein
   -slower1            boolean    Make lower case
   -supper1            boolean    Make upper case
   -sformat1           string     Input sequence format
   -sdbname1           string     Database name
   -sid1               string     Entryname
   -ufo1               string     UFO features
   -fformat1           string     Features format
   -fopenfile1         string     Features file name

   "-outfile" associated qualifiers
   -odirectory2        string     Output directory

   General qualifiers:
   -auto               boolean    Turn off prompts
   -stdout             boolean    Write first file to standard output
   -filter             boolean    Read first file from standard input, write
                                  first file to standard output
   -options            boolean    Prompt for standard and additional values
   -debug              boolean    Write debug output to program.dbg
   -verbose            boolean    Report some/full command line options
   -help               boolean    Report command line options. More
                                  information on associated and general
                                  qualifiers can be found with -help -verbose
   -warning            boolean    Report warnings
   -error              boolean    Report errors
   -fatal              boolean    Report fatal errors
   -die                boolean    Report dying program messages

Input file format

   vrnalfold reads any normal sequence USAs.

  Input files for usage example

   'tembl:d00596' is a sequence entry in the example nucleic acid
   database 'tembl'

  Database entry: tembl:d00596

ID   D00596; SV 1; linear; genomic DNA; STD; HUM; 18596 BP.
XX
AC   D00596;
XX
DT   17-JUL-1991 (Rel. 28, Created)
DT   14-NOV-2006 (Rel. 89, Last updated, Version 3)
XX
DE   Homo sapiens gene for thymidylate synthase, exons 1, 2, 3, 4, 5, 6, 7,
DE   complete cds.
XX
KW   thymidylate syntase.
XX
OS   Homo sapiens (human)
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia
;
OC   Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC   Homo.
XX
RN   [1]
RP   1-18596
RX   PUBMED; 2243092.
RA   Kaneda S., Nalbantoglu J., Takeishi K., Shimizu K., Gotoh O., Seno T.,
RA   Ayusawa D.;
RT   "Structural and functional analysis of the human thymidylate synthase
RT   gene.";
RL   J. Biol. Chem. 265(33):20277-20284(1990).
XX
DR   GDB; 163670.
DR   GDB; 182340.
XX
CC   These data kindly submitted in computer readable form by:
CC   Sumiko Kaneda
CC   National Institute of Genetics
CC   1111 Yata
CC   Mishima 411
CC   Japan
CC   Phone:  +81-559-72-2732
CC   Fax:    +81-559-71-3651
XX
FH   Key             Location/Qualifiers
FH
FT   source          1..18596
FT                   /organism="Homo sapiens"
FT                   /chromosome="18"
FT                   /map="18p11.32"
FT                   /mol_type="genomic DNA"
FT                   /clone="lambdaHTS-1 and lambdaHTS-3"
FT                   /db_xref="taxon:9606"
FT   repeat_unit     1..148
FT                   /note="Alu sequence"
FT   repeat_unit     202..477


  [Part of this file has been deleted for brevity]

     ttttgttttt agcttcagcg agaacccaga cctttcccaa agctcaggat tcttcgaaaa     1566
0
     gttgagaaaa ttgatgactt caaagctgaa gactttcaga ttgaagggta caatccgcat     1572
0
     ccaactatta aaatggaaat ggctgtttag ggtgctttca aaggagctcg aaggatattg     1578
0
     tcagtcttta ggggttgggc tggatgccga ggtaaaagtt ctttttgctc taaaagaaaa     1584
0
     aggaactagg tcaaaaatct gtccgtgacc tatcagttat taatttttaa ggatgttgcc     1590
0
     actggcaaat gtaactgtgc cagttctttc cataataaaa ggctttgagt taactcactg     1596
0
     agggtatctg acaatgctga ggttatgaac aaagtgagga gaatgaaatg tatgtgctct     1602
0
     tagcaaaaac atgtatgtgc atttcaatcc cacgtactta taaagaaggt tggtgaattt     1608
0
     cacaagctat ttttggaata tttttagaat attttaagaa tttcacaagc tattccctca     1614
0
     aatctgaggg agctgagtaa caccatcgat catgatgtag agtgtggtta tgaactttaa     1620
0
     agttatagtt gttttatatg ttgctataat aaagaagtgt tctgcattcg tccacgcttt     1626
0
     gttcattctg tactgccact tatctgctca gttccttcct aaaatagatt aaagaactct     1632
0
     ccttaagtaa acatgtgctg tattctggtt tggatgctac ttaaaagagt atattttaga     1638
0
     aataatagtg aatatatttt gccctatttt tctcatttta actgcatctt atcctcaaaa     1644
0
     tataatgacc atttaggata gagttttttt tttttttttt taaactttta taaccttaaa     1650
0
     gggttatttt aaaataatct atggactacc attttgccct cattagcttc agcatggtgt     1656
0
     gacttctcta ataatatgct tagattaagc aaggaaaaga tgcaaaacca cttcggggtt     1662
0
     aatcagtgaa atatttttcc cttcgttgca taccagatac ccccggtgtt gcacgactat     1668
0
     ttttattctg ctaatttatg acaagtgtta aacagaacaa ggaattattc caacaagtta     1674
0
     tgcaacatgt tgcttatttt caaattacag tttaatgtct aggtgccagc ccttgatata     1680
0
     gctatttttg taagaacatc ctcctggact ttgggttagt taaatctaaa cttatttaag     1686
0
     gattaagtag gataacgtgc attgatttgc taaaagaatc aagtaataat tacttagctg     1692
0
     attcctgagg gtggtatgac ttctagctga actcatcttg atcggtagga ttttttaaat     1698
0
     ccatttttgt aaaactattt ccaagaaatt ttaagccctt tcacttcaga aagaaaaaag     1704
0
     ttgttggggc tgagcactta attttcttga gcaggaagga gtttcttcca aacttcacca     1710
0
     tctggagact ggtgtttctt tacagattcc tccttcattt ctgttgagta gccgggatcc     1716
0
     tatcaaagac caaaaaaatg agtcctgtta acaaccacct ggaacaaaaa cagattttat     1722
0
     gcatttatgc tgctccaaga aatgctttta cgtctaagcc agaggcaatt aattaatttt     1728
0
     tttttttttg acatggagtc actgtccgtt gcccaggctg cagtgcagtg gcgcaatctt     1734
0
     ggctcactgc aacctccacc tcccaggttc aagtgattct cctgcctcag cctcccatgt     1740
0
     agctgggatc acaggcacct gccaccatgc ccggctaatt ttttgtattt tttgtagaga     1746
0
     cagggtttca ccatgttggc caggctggtc tcaaacacct gacctcaaat gatccacctg     1752
0
     cctcagcctc ccaaagtgtt gggattacag gcgtaagcca ccatgcccag ccctgaatta     1758
0
     atatttttaa aataagtttg gagactgttg gaaataatag ggcagaggaa catattttac     1764
0
     tggctacttg ccagagttag ttaactcatc aaactctttg ataatagttt gacctctgtt     1770
0
     ggtgaaaatg agccatgatc tcttgaacat gatcagaata aatgccccag ccacacaatt     1776
0
     gtagtccaaa ctttttaggt cactaacttg ctagatggtg ccaggttttt ttgcacaagg     1782
0
     agtgcaaatg ttaagatctc cactagtgag gaaaggctag tattacagaa gccttgtcag     1788
0
     aggcaattga acctccaagc cctggccctc aggcctgagg attttgatac agacaaactg     1794
0
     aagaaccgtt tgttagtgga tattgcaaac aaacaggagt caaagcttgg tgctccacag     1800
0
     tctagttcac gagacaggcg tggcagtggc tggcagcatc tcttctcaca ggggccctca     1806
0
     ggcacagctt accttgggag gcatgtagga agcccgctgg atcatcacgg gatacttgaa     1812
0
     atgctcatgc aggtggtcaa catactcaca caccctagga ggagggaatc agatcggggc     1818
0
     aatgatgcct gaagtcagat tattcacgtg gtgctaactt aaagcagaag gagcgagtac     1824
0
     cactcaattg acagtgttgg ccaaggctta gctgtgttac catgcgtttc taggcaagtc     1830
0
     cctaaacctc tgtgcctcag gtccttttct tctaaaatat agcaatgtga ggtggggact     1836
0
     ttgatgacat gaacacacga agtccctctg agaggttttg tggtgccctt taaaagggat     1842
0
     caattcagac tctgtaaata tccagaatta tttgggttcc tctggtcaaa agtcagatga     1848
0
     atagattaaa atcaccacat tttgtgatct atttttcaag aagcgtttgt attttttcat     1854
0
     atggctgcag cagctgccag gggcttgggg tttttttggc aggtagggtt gggagg         1859
6
//

Output file format

   vrnalfold outputs a graph to the specified graphics device. outputs a
   report format file. The default format is ...

  Output files for usage example

  File: d00596.vrnalfold

.((((..((.......))..)))). ( -3.80) 18572
.(((((((((((.....))..))))))))). (-11.00) 18553
.((((..(((((((((((.....))..))))))))).....)))). (-13.60) 18547
.((..((..((.((((...((((.((((....))))))))......)))).))....))..)). (-14.60) 18533
.(((.(..(((......)))..).))).....(((((((((((.....))..))))))))). (-15.60) 18522
.((..(((...(((.(..(((......)))..).))).....(((((((((((.....))..)))))))))......))
)..)). (-19.10) 18512
.(((.((((((............(((.(..(((......)))..).))).....(((((((((((.....))..)))))
))))...)))))).))). (-20.30) 18500
.(((.....)))......((..(((...(((.(..(((......)))..).))).....(((((((((((.....))..
)))))))))......)))..)). (-21.00) 18495
.(((((........)))))....((..(((...(((.(..(((......)))..).))).....(((((((((((....
.))..)))))))))......)))..)). (-22.00) 18490
.(((((((((((((......))))..)))))))))(..(((...(((.(..(((......)))..).))).....((((
(((((((.....))..)))))))))......)))..). (-23.20) 18479
.((.((((((((((((((......))))..)))))))))).)).....(((.(..(((......)))..).))).....
(((((((((((.....))..))))))))). (-24.50) 18475
.(((((.(((((.((((((((.....(((.....))).(((........)))....)))).)))).))))).))))).(
(((..(((((((((((.....))..))))))))).....)))). (-26.20) 18470
.((..((.((.((.((((((((((((((......))))..)))))))))).)).....(((.(..(((......)))..
).))).....(((((((((((.....))..)))))))))...)).))..)). (-26.90) 18465
.((((((.((((((((...((.((((((((((((((......))))..)))))))))).))...((((...((......
..))..((((.((....)).))))...))))......)))))))).)).)))). (-31.50) 18457
.((..((..((((((((....(((..((.((((((((((((((......))))..)))))))))).)).....(((.(.
.(((......)))..).)))....)))))))))))))..))...((((..((.......))..)))). (-32.80) 1
8450
.(((((((....))))))) ( -4.60) 18439
.((((((......(((((((....))))))).((((((((....(((..((.((((((((((((((......))))..)
))))))))).)).....(((.(..(((......)))..).)))....)))))))))))...)))))) (-35.60) 18
427
.((((.....)))). ( -4.70) 18405
.((((.((((.....)))))))). ( -7.50) 18400
.((((......((((.((((.....)))))))).......)))). (-12.42) 18390
.((((((..(((.(((........))))))....)))))). (-12.60) 18381
.(((((((((..(((.(((........))))))....))))))...))). (-13.80) 18378
.((((((...((((...))))...(((((((((((.....)))).((.(((((...((((.......(((((...((..
..))...)))))........))))))))).)).......))))))).)))))). (-34.36) 18375
.(((...(((((((..((((...)))))))))))...((((.....)))).))). (-14.60) 18369
((..(((...(((((((..((((...)))))))))))...((((.....)))).)))..)). (-15.00) 18366
.(((..(((...(((((((..((((...)))))))))))...((((.....)))).)))..))) (-15.20) 18364
.(((((.......((.(((((((..((((...))))))))))))).((((.....))))))))). (-15.30) 1836
0
.((((((((((.((.........)))))))))))). (-14.00) 18353
.((.((((((((((.((.........)))))))))))))). (-14.50) 18350
.((((....)))). ( -1.00) 18337
.(((((....((((....))))....((((((((((.((.........))))))))))))...))))). (-18.90)
18328
.((((((........((((....))))....((((((((((.((.........))))))))))))..)))))). (-19
.50) 18323
.(((((((((.........((((....))))....((((((((((.((.........))))))))))))..(((.(((.
.......))))))..))))))))). (-28.60) 18319
.(((.((((.((((((.........((((....))))....((((((((((.((.........))))))))))))..))
)))).)))).))). (-27.40) 18313
.((((((((..((((((.((.((...............))..)).)))))).(((((((((.((.........))))))
)))))....)))))))). (-30.56) 18303
.((((((........(..((.((((.((((((.........((((....))))....((((((((((.((.........
))))))))))))..)))))).)))).))..)........)))))). (-38.09) 18297
.(((((((...((((((((..((((((.((.((...............))..)).)))))).(((((((((.((.....
....)))))))))))....))))))))..((((.((((.....)))))))).....)))).))). (-43.46) 1829
3
.(((.(....).))). ( -2.30) 18282
.((((((((.(....).))........((((((((..((((((.((.((...............))..)).)))))).(
((((((((.((.........)))))))))))....)))))))).)))))) (-36.56) 18277
.((((((..((((((((.......((((((((..(((((..(((..........................)))....))
))))))))))).)))).)))))))))). (-28.87) 18272
((((((..((((......))))..)))))). ( -8.10) 18266
.((((..((((((..((((......))))..))))))........((((((((..((((((.((.((............
...))..)).)))))).(((((((((.((.........)))))))))))....))))))))..)))). (-43.06) 1
8259
.(((((...(((....)))..))))). (-10.40) 18250
.(((.....))). ( -2.80) 18234
.(((((((((.....))).....(((((...(((....)))..)))))..........)))))). (-17.10) 1822
8
.(((...((...(((.....))).....(((((...(((....)))..)))))....)).))). (-18.60) 18223
((..((..((((..(((...((...(((.....))).....(((((...(((....)))..)))))....)).)))...
..))))..))..)). (-24.00) 18210
.((((((((..(((..........)))..)))))))). (-13.60) 18207
.((((((........((((((((..(((..........)))..)))))))).......(((((...(((....)))..)
)))).............))).))). (-28.40) 18193
.(((((((((.(...........((((((((..(((..........)))..)))))))).......(((((...(((..
..)))..)))))..........))))).))))). (-33.80) 18185


  [Part of this file has been deleted for brevity]

.(((...((....)).........((((....(((....))).....)))).))). (-14.80)  424
(((((((....((...((....))...))....))))))). ( -8.90)  415
.(((((.....(((((.......))))).((....)).......))))). ( -9.90)  402
.(((((.(.((((....)))).)......(((((..(((......................(((....)))...((...
..)))))..))))).......))))). (-33.70)  395
((((..(....)..)))). ( -5.10)  393
(((((.(.((...(((((.....(((((.......))))).((....)).......))))).....(((....)))..)
).).))))). (-28.50)  390
(((.((((.(((...((.(.((((....)))).).)).))).)))).))). (-19.80)  384
((.((((.(((.(((...((.(.((((....)))).).)).))).)))..((....)).........)))).)). (-2
2.20)  381
.(((.((((.(((.(((...((.(.((((....)))).).)).))).)))..((....)).........)))).))) (
-22.40)  379
.(((((............(((.((((.(((...((.(.((((....)))).).)).))).)))).)))))))). (-29
.10)  366
.(((.((((((..(((((.((..(((.(((..(((.....)))))))))..))))))).)).)))).))). (-29.90
)  361
.((.(((.((((((..(((((.((..(((.(((..(((.....)))))))))..))))))).)).)))).))).)). (
-30.40)  358
.((((((((.....(((((............(((.((((.(((...((.(.((((....)))).).)).))).)))).)
)))))))....)))))))). (-33.00)  353
(((((((..((.(((.((((((..(((((.((..(((.(((..(((.....)))))))))..))))))).)).)))).)
)).)).....))))))). (-35.80)  350
.(((((((.(((((((..((.(((.((((((..(((((.((..(((.(((..(((.....)))))))))..))))))).
)).)))).))).)).....))))))).))))))). (-39.30)  341
.((((((..(.(((((((.(((((((..((.(((.((((((..(((((.((..(((.(((..(((.....)))))))))
..))))))).)).)))).))).)).....))))))).)))))))).)))))). (-50.30)  331
.((...((((((..(.(((((((.(((((((..((.(((.((((((..(((((.((..(((.(((..(((.....))))
)))))..))))))).)).)))).))).)).....))))))).)))))))).)))))).)). (-50.60)  326
.((.((...((((((..(.(((((((.(((((((..((.(((.((((((..(((((.((..(((.(((..(((.....)
))))))))..))))))).)).)))).))).)).....))))))).)))))))).)))))).)).)). (-51.70)  3
23
.(((.......))). ( -1.10)  297
.(((((...(((.......)))...))))). ( -5.80)  289
.((((.....(((((...(((.......)))...))))).....)))). ( -8.80)  280
.(((((.((((((.....))).....(((((...(((.......)))...)))))....)))))))). (-15.10)
264
.((..(((((......(((.....))).....(((((...(((.......)))...))))).)))))...)). (-16.
20)  258
.((((.((..(((((......(((.....))).....(((((...(((.......)))...))))).)))))...))))
)). (-20.40)  253
.((((((.((....((((.((..(((((......(((.....))).....(((((...(((.......)))...)))))
.)))))...)))))).)))))))) (-30.20)  240
((......)). ( -0.20)  228
(((((.......))))). ( -6.10)  219
(((((((.......))))).)). ( -8.00)  217
.((((...(((..........................(((((((.......))))).)).((((((..(((.(((.((.
.((.(((((......(((.....)))...))))).))..)).)))....)))..))))))...)))..)))). (-36.
40)  180
.((....)). ( -2.60)  176
.(((((((.((....)).))))))). ( -5.20)  170
.((((((....(((((((.((....)).)))))))....)))))). ( -6.00)  160
.(((.((((((....(((((((.((....)).)))))))....)))))).))). ( -6.10)  156
.((((..(((.((((((....(((((((.((....)).)))))))....)))))).)))..........(((((.....
..))))))))). (-19.00)  150
.(((((((((((((((((((((((((((((....(..........)....)))))))))))))))))))))))))))))
. (-41.90)  126
.((((((((((((((((((((((((((((((((((((....(..........)....))))))))))))))........
....)))))))))))))))))))))). (-50.20)  119
.(((((((((((..((((((((((((((((((((((((((((((((((....(..........)....)))))))))))
)))............))))))))))))))))))))))))))))))). (-64.10)  108
((.(((((((((((..((((((((((((((((((((((((((((((((((....(..........)....)))))))))
)))))............))))))))))))))))))))))))))))))).)). (-68.00)  106
.((((((((((((.(((((((((((..((((((((((((((((((((((((((((((((((....(..........)..
..))))))))))))))............))))))))))))))))))))))))))))))).)))))))))))). (-93.
50)   95
.(((....))). ( -1.40)   81
.(((((((.((((....)).))))))))). (-15.50)   64
.((((..(((((((.((((....)).))))))))))))). (-21.80)   58
.((((((((..(((((((.((((....)).))))))))))))).)))) (-27.10)   54
.((((....)))). ( -2.30)   42
.((((..........((((....))))....((((..(((((((.((((....)).))))))))))))).)))) (-29
.90)   28
((((...)))). ( -3.60)   25
.(((.....((((...)))).......((((....))))..))). (-10.60)   16
.(((.(((((.(....).))))).))). (-13.30)    6
.((((.(((.(((((.(....).))))).))).)))). (-18.40)    1
CCUGUAGUCCCAGCUACGCGAGAGGCUGAGGCAGCAGAAUUACUUGAACCCAGGAGGCGGAGGUUGCAGUGAGCCGAGA
UCGCGCCACUGCACUCCAGCCUGGGUGAGAGAGCGAGACUCUGUCUCAAAAAAAAAAAAAAAAGACCGCCAGGGCUCAA
ACAAAAAACCUCGGAAAAGCCCUGGCGGUCUUUUUUUUUUUUUUUUUUUUUUUUUUUUGGGACAGUCUUGCUCUGUCGC
CCAGGCUGGAGUACAAUGGUCGGAUCUUGGCUCACUGCAACCUCUGCCUCCCAGGUUCAAGCAAUUCUUCUGCCUCAGC
CUCCCAAGUAGCCACCACGCCCAGCUAAUUUUUGUACUUUUAGUAGAGACGGGGGUUUCACCAUGUUGUCCAGGCUGGU
CUUGAACUCCUGACCUCAGGUGAUCCACCCGCCUCGGCCCCCCAAAGUACUAGGAUUACAGGCGUGAGCCACCGCGUCC
AGCGCCCUGGCGGUUUUUAAUCAAGUAGAAAAGCUGCAUUAUACCACUUGCUUCGGUUGCUUCAGUGAGAACGAAGAAA
UGGAAAUGCAAAUCCCUUAUUAGUUGUAGGAAACAGAUCUCAAACAGCAGUUUUGUUGACAAGACCGCAGGAAAACGUG
GGAACUGUGCUGCUGGCUUAGAGAAGGCGCGGUCGACCAGACGGUUCCCAAAGGGCGCAGUCCUUCCCAGCCACCGCAC
CUGCAUCCAGGUUCCCGGGUUUCCUAAGACUCUCAGCUGUGGCCCUGGGCUCCGUUCUGUGCCACACCCGUGGCUCCUG
CGUUUCCCCCUGGCGCACGCUCUCUAGAGCGGGGGCCGCCGCGACCCCGCCGAGCAGGAAGAGGCGGAGCGCGGGACGG
CCGCGGGAAAAGGCGCGCGGAAGGGGUCCUGCCACCGCGCCACUUGGCCUGCCUCCGUCCCGCCGCGCCACUUGGCCUG
CCUCCGUCCCGCCGCGCCACUUCGCCUGCCUCCGUCCCCCGCCCGCCGCGCCAUGCCUGUGGCCGGCUCGGAGCUGCCG
CGCCGGCCCUUGCCCCCCGCCGCACAGGAGCGGGACGCCGAGCCGCGUCCGCCGCACGGGGAGCUGCAGUACCUGGGGC
AGAUCCAACACAUCCUCCGCUGCGGCGUCAGGAAGGACGACCGCACGGGCACCGGCACCCUGUCGGUAUUCGGCAUGCA
GGCGCGCUACAGCCUGAGAGGUGACGCCGCGGGCCCCUGCGGGACGGGUGGCGGGAAGGAGGGAGGCGCGGCUGGGGAG
AGCGCUCGGGAGCUGCCGGGCGCUGCGGACCCCGUUUAGUCCUAACCUCAAUCCUGCCAGGGAGGGGACGCAUCGUCCU
CCUCGCCUUACAGACGCCGAAACGGAGGGUCCCAUUAGGGACGUGACUGGCGCGGGCAACACACACAGCAGCGACAGCC
GGGAGGUAAGCCGCGUCCCAGCGGCUCCGCGGCCGGGCUCGCAGUCGCCCCAGUGAUGCCGUGGCCCCCGAGGCGGGCG
UCAUCGGGCAGCGUUUGCCCAGUGCUGGAGGGUUAGGGAGAGCUGCCUGGGCUUGACCGCGCGCCGGUCUCAAAGUCCU
GGCUUUGGCCCCUCCUCCGUUUUCCCCUGUGGACCAUUCCGCUUCGCAGCGUUUUCAAAAACUGGAGCGAAAGUGAUGU
GGGCGGGGCAAAGGCGGCGGGAAGAGGACAGCACUGAAGCUGGCGCGGGAACUUGGUUUCCUGGUGGCCUCCCAUCCAA
UCCCCACGAACCAGCUUUCCUCUUAAACCUUGAAAAGAGAAAUUCGGGAGUUCGAGUUCUUAGUCGUCCUUUCCUCUUU
CCUUUCCGACAGGAGCACCCCAGGCAAAAAAUGUCUCGCGGGUCAUUGGCGCCAGGCUUUCAGGGGACAGUGGGGCGGG
GCGGGGUGGGCACAGGACGUUAGGCAGCCGUUGGCCCUCCCUAAGGCCACACCGUCCUGCCGUCCUGGAUCCUGCGCCA
GCUGCGCGGGGGAGGGGACUCGAAGGUGUGUGAGCCAGGGGCUGACCUUGACCGCUCAGAUAAAUGGAGCGCAGCCUUG
ACACAGGGGUGGAGGUGGUUUUGAAUGGGGAAACCCAUUCGUGGUGAAGCAGAUUCACUGUAGCUAGCGGAAAAGCCCU
CCGGCCCACGGACCCAUCUAGAGACGAAUACAUAGCAGCUGCUGUGGCUGAUUGGCGUGGGACAGCGUGGGGAGUUUUG
UCUGAGGAGAGGGAUCCACUUUUCUGCAGCUCCAAGCCCAGGGGCCUUUGAUGAGCCAUAGACCUCAUUUUUAACCCAC
CUUUCUGCUUAGACAUUGAGCAAGUUACUUCUCAUAUAGCUUCCCUAUAUGUUAAAAAUGGAGAAAAUAAUGCUUAGUA
GGCAAUUCUGAUAAAAGCAGGUGCUUGCAAAAAUCUCUCUGUUGUCUGAAUAUAAACUGUACCACAAGCGAGUGCGGAU
GAACGAGGACUGCAUUUAAAGAUAAGUUUUUACACUUUCAUUUCUCUGUGGCUCGACACUUCUGAUGCCUCCCUUUUUG
UUCCUGGGACACAUGCUUGGUGUUGUCUUCACACCUUUGUGACAGGAUUAGCACUAGUGGGCAGUGGAUGAUAGCUCCU
CCUCCCUUUUGCCACAUGUUCAUCCCUGCCCUCGCCACCAUCUCACUGUGUGGAAUUCCUGUGUCCACUGGUCACCGGG
GCACAGAAGUGCUGUCUCAGCCUGAAUCGGGCCACUGAUGGGACUUGCAGCCUGGGAGCUCCACCGUGAUCUCUGGCCC
ACUUUGCGGGAGUCUAGGCUUUCUGGAUGCUCCAGGCCUCACGUCCCAGGGCAGUUUUCUUCCCUGAAGAAAGUUGGAU
GGCAUGAUCUGUCUUCCCAUCUUGAAACCGUAUGGCAAAUUGUUUUUCAGAUGAAUUCCCUCUGCUGACAACCAAACGU
GUGUUCUGGAAGGGUGUUUUGGAGGAGUUGCUGUGGUUUAUCAAGGUAAAGAAGUCGCUGCUAUUAGAAGUCAGUAGUC
UGUUCUCAACACAGCAGCCAGUGAGAUCCUUUCAAAACUCAAAGCAGCCAGGUGUGGUGGCUCACGCCUGUAAUCCCAC
CGCUUUGGGAGGCUGAGUCAGAUCACCUGAGGUUAGGAAUUUGGGACCAGCCUGGCCAACAUGGCGACACCCCAGUCUC
UACUAAUAACACAAAAAAUUAGCCAGGUGUGCUGGUGCAUGUCUGUAAUCCCAGCUACUCAGGAGGCUGAGGCAUGAGA
AUUGCUCACGAGGCGGAGGUUGUAGUGAGCUGAGAUCGUGGCACUGUACUCCAGCCUGGCGACAGAGGGAGAACCCAUG
UCAAAAACAAAAAAAGACACCACCAAAGGUCAAAGCAUAUCAUUCCUCACCCUCAAGCCCUUAGUGGCUCCAUUUCACU
CAGUAAGAGCCACGGUCCUUAUGGUGUCCGUUUUUCAGCUCUGACCUUAGCUGCUGCUCUCUGCACCACCCUGCUGUUC
UUGUGAGUUUUUGAGCACACCGGGACAUCCCCACUCCCUGGAACCUUCUUCCCCCACACUUGGCUUCUUCCUUUGAGUC
UCUACUCCACUCGGGCAAGCCUUCCUAGACCUCCUGAUUUAAAACUGUGACUCUCCCCCAACCUCCUUGGUGUUUCUCC
GUAGACGAACAUCACCAUCUGAUGUAUGUCAGCCUUUCCCUUCCCCUGUUAGAAGGGGGACAGCAGGUAGUAAAAGUGA
AAUGUGCUGUAAGCUUUAUGAGGGCAGAGGAUUUGUUUCUCGUGUUCACUGUUGUAUCGCCAGGGCCUCAAACACAGCC
UGCCACAUAGUAGGAGUCAACAUAUAUUGAUCACUAAAUGUAGAUACCACCUGUGUUCCCAUGUUCAUAUAAAUUCUAG
AAGAGUCUCUUCAGUAACAAGGUGAACCCCUUCCAGAGGGCUGAGUAGGUACCUCAGGCCGGGGCCAGAGUGCUGUGAA
GACAGCAGCAGCCCAGACCAAGCUUCUCUGUGUUCCGUGUCCUGGUCUAGAACCAGCGAUGUUCUUUCUGACCAGUGCU
UUUUGGAAGGUGGCUGAGGUCUGGGCUCAGGUCUGGGCCAUACUAGAAGCUGGGAUCCCUUCUAUAGAGCACUUGGUAU
GGCUUGUAUGGUCUUGGGGCAAGCCAGACCCAAGCCCUCUUAUCCCAUUUUAGAAAGGGCUUCAAUUUGGAUCCAGCCC
CAGGUCUGCCUUAGCUCUGUAUUCUUGGGGUAUUUUGUUCUGUAUUGGCCUAUCUUGACUAACAAUGAGCCUUGGAUUU
GAAACAUAUCAUCAGAAACCUCAGAAGACAACAUUCUUAAACUGGCUAGAGCCUGGUCUGAAUGGAUGAAAAGGAGAGA
CUUUUGAAGCAAUAUGUAAAAGAUUGAGAAAUGAUUUGUUGGAAAUUUCUCAAUUGGAGAAAUUUCUUUGAUUUGUUGG
AAAUUUCUUUGAUUCUUUCUCAAUCAAAGAAAAUCGGGACAAACUCAACAAUAGAAAGGGAGGAAGCAAGAUACUCAGA
AAUAAAAUGCAUUCCCCUGUUUCAACUUAAUGCUUCAAUUCAGGAUUCUAAGGAAUCCUUGCCAGGAAUGUCAGACUCA
CCUUGAUAGUUGGAGUUACUCCAUUGGUGACUCGAUCAAAUACAGGAGUUGAGGCACCUGCACUGUAAAAUACUGAUUA
GUCUGAUCAUUAGGAAUAUCCUGUAUGCCAGGUAGAAGAUACAUUGAACAGAUUGCAUGUAGGCAUUAAAUUCAUUUUG
GGGUAUUACAUAUAGACAACACAUUUCAUUAAGAAACAUAAAACUGUCAGAUCGGUGGAAUACUUAAAAGCACUUGGAG
GUGUUUAGCCUAAAAAGCUUAGUUGAGGGGAAUGGAAGAAAAGAUCUGGGAGGGUGGUUCCAAAGAAGGGAUCAGACUA
UCCUAAAGCCCUCAGGAAUCUGGGCUGGGACCACCUACUUAAAGAUAGGAUGGGCAGCUGGGUGUGGUGGCUCACGCCU
GUAAUCCCAGCACUUCGGGAGGCCGAAGCGGGCGGAUCACCUGAGGUCAGGAGUUCGAGGCCAGCCUGACCAACAUGGA
GAAACGCUGUCUCUACUAAAAAUACAAAAUUAGCUGGGUGUAGUGGCGCAUGCCUGUAAUCCCAGCUACUCGGGAGGCU
GAGGCAGGGGAAUCGCUUGAACCUGGGAGGUGGAGGGUGCCGUGAGCCACGAUCGCGCCAUUGCACUCCAGCCUGGGCA
ACAAGAGCGAAACUCUCAAAAAACAAAAAAAAGGAUGGGUUCCAUAUGGGUGGUGUCAAGUGCCCACCUCCUAGCAAGU
CAGCAGGGGCCAGAGGCCCUUGUAAGUGGUGUCUCGGGGGGAUCAACUGAGAUGGCUUAAGAUUUACCUGGAUGCCUGC
UCUGCUCUCCCCAUCUCUUCCAGGGAUCCACAAAUGCUAAAGAGCUGUCUUCCAAGGGAGUGAAAAUCUGGGAUGCCAA
UGGAUCCCGAGACUUUUUGGACAGCCUGGGAUUCUCCACCAGAGAAGAAGGGGACUUGGGCCCAGUUUAUGGCUUCCAG
UGGAGGCAUUUUGGGGCAGAAUACAGAGAUAUGGAAUCAGGUGAGGAGAUAGAACAAUGCCUUCCAUUUCCGGGUGCCC
UUCCUAGCACGUGUUUGCUCCGUUGUUUUAGAUAAGGUCUGGGGGAUGAGUCAAUGUCACAGGAGCUGAUGUAUAGCUU
UGACCUUGUGAGGGGUGGUGCCAGGUUGAAGCCACAAUUAACGCCUACUGAAGGCCGUUUCACAUCUUUUUUUUUUUUU
UUUUUUUAAUUAUUAUACUUUAAGUUUUAGGGUACAUGUGCACAAUGUGCAGGUUAGUUACAUAUGUAUACAUGUGCCA
UGCUGGUGCGCUGCACCACUAACUCACCAUCUAGCAUCAGGUAUAUCUCCCAAUGCUAUCCCUCCCCCCUCCUCCCACC
CCACAACAUCCCCAGAGUGUGAUGUUCCCCUUCCUGUGUCCAUAUGUUCUCGUUGUUCGAUUCCCACUAUGAGUGAGAA
UAUGCGGUGUUUGGUUUUUUGUUCUUGCGAUAGUUUACUGAGAAUGAUGAUUUCCAUUUCACCACGUCCCUACAGAGGA
CAUGAACUCAUCAUUUUUUAUGGCUGCAUAGUAUUCCAUGGUGUAUAUGUGCCACAUUUUCUUAAUCCAGUCUAUCAUG
UUGGACAUUUGGGUUGGUUCCAAGUCUUUGCCUAUUGUGAAUAGUGCCACAAUAAACAUACGUGUGCAUGUGUCUUUAU
AGCAGCAUGAUUUAAUAGUCCUUUGGGUAUAUACCCAGUAAUGGGAUGGCUGGGUCAAAUGGUAUUUCUAGUUCUAGAU
CCCCGAGGAAUCGCCACACUGACUUCCACAAUGGUUGAACUAGUUUACAGUCCCACCAACAGUGUCAAAGUGUCCUAUU
UCUCCACAUCCUCUCCAGCACCUGUUGUUUCCUGACUUUUUAAUGAUUGCCAUUCUAACUGGUGUGAGAUGGUAUCUCA
UUGUGGUUUUGAUUUGCGUUUCUCUGAUGGCCAGUGAUGGUGAGCAUUUUUUCAUGUGUUUUUUGGCUGCAUAAAUGUC
UUCUUUUGAGAAGUGUCUGUUCAUGUCCUUCGCCCACUUUUUGAUGGGGUUGUUUUUUUCUUAUAAAUUUGUUUGAGUU
CAUUGUAGAUUCUGGAUAUUAGCCCUUUGUCAGAUGAGUAGGUUGCAAAAAUGUUCUCCCAUUUUGUGGGUUGCCUGUU
CACUCUGAUGGUAGUUUCUUUUGCUGUGCAGAAGCUCUUUAGUUUAAUUAGAUCCCAUUUGUCAAUUUUGGCUUUUGUU
GCCAUUGCUUUUGGCAUAGGCAUGAAGUCCUUGCCCAUGCCUAUGUCCUGAAUGGUAAUGCCUAGGUUUUCUUCUAGGG
UUUUUAUGGUUUUAGGUCUAACGUUUAAGUCUUUAAUCCAUCUUGAAUUGAUUUUUGUAUAAGGUGUAAGGAAGGGAUC
CAGUUUCAGCUUUUUACAUAUGGCUAGCCAGUUUUCCCAGCACCAUUUAUUACAUAGGGAAUCCUUUCCCCAUUGCUUG
UUUUUCUCAGGUUUGUCAAAGAUCAGAUAGUUGUAGAUAUGCGGCGUUAUUUCUGAGGGCUCUGUUCUGUUCCAUUGAU
CUAUGUGUCUGUUUUGGUACCAGUACCAUACUGUUUUGGUUACUGUAGCCUUGUAGUAUAGUUUGAAGUCAGGUAGCGU
GAUGCCUCCAGCUUUGUUCUUUUGGCUUAGGAUUGACUUGGCGAUGCGGGCUCUUUUUUGGUUCCAUAUGAACUUUAAA
GUAGUUUUUUCCAAUUCUGUGAAGAAAGUCAUUGGUAGCUUGAUGGGGAUGGCAUUGAAUCUAUAAAUUACCUUGGGCA
GUAUGGCCAUUUUCACGAUAUUGAUUCUUCCUACCCAUGAGCAUGGAAUGGUCUUCCAUUUCUUUGUAUCCUCUUUUAU
UUCAUUGAGCAGUGGUUUGUAGUUCUCCUUGAAGAGGUCCUUCACAUCCCUUUUAAGGUGGAUUCCUAGGUAUUUUAUU
CUCUUUGAAGCAAUUGUGAGUGGAAGUUCACUCAUGAUUUGGCUCUCUGUUUGUCUGUUAUUGGUGUAUAAGAAUGCUU
GUGAUUUUUGCAGAUUGAUUUUAUAUCCUGAGACUUUGCUGAAGCUGCUUAUCAGCUUAAGGAGAUUUUGGGCUGAGAC
AAUGGGGUUUUCUAGAUAUACAAUCAUGUCGUCUGCAAACAGGGACAAUUUGACUUCCUCUUUUCCUAAUUGAAUACCC
UUUAUUUCCUUCUCCUGCCUAAUUGCCCUGGCCAGAACUUCCAACACUAUGUUGAAUAGGAGUGGUGAGAGAGGGCAUC
CCUGUCUUGUGCCAGUUUUCAAAGGGAAUGCUUCCAGUUUUUGCCCAUUCACUAUGAUAUUGGCUGUGGCUUUGUCAUA
GAUAGCUCUUAUUAUUUUGAAAUAUGUUCCAUCAAUACCUAAUUUAUUGAGAGUUUUUAGCAUGAUGUGUUGUUGAAUU
UUGUCAAAGGCUUUUUCUGCAUCUAUUGAGAUAAUCAUGUGGUUUUUGUCUUUGGAUCUGUUUAUAUGCUGGAUUACAU
UUAUUGAUUUGCGUAUAUUGAACCAGCCUUGCAUCCUAGGGAUGAAGCCCACAUGAUCAUGGUGGAUAAGCUUUUUGAU
GUGCUGCUGGAUUCGGUUUGCCAGUAUUUUAUUGAGGAUUUUUGCAUCAAUGUUCAUCAAGGAUAUUGGUCUAAAAUUC
UCUUUUUUGGUGUGUCUCUGCCCAGCUUUGGUAUCAGGAUGAUGUUGGCUUCAUAAAAUGAGUUAGGGAGGAUUCCCUC
UUUUUCUAUUGAUUGGAAUAGUUUCAGAAGGAAUGGUACCAGUUCCUCUUUGUACCUCUGGAGAAUUCGGCUGUGAAUC
CAUCUGGUCCUGGACUCUCUUUGGUUGGUAAGCUAUUGAUUAUUGCCACAAUUUCAGCUCCUGUUAUUGGUCUAUUCAG
AGAUUCAACUUCUUCCUGGUUUAGUCUUGGGAGAGUGUAUGUGUCAAGGAAUUUAUCCAUUUCUUCUAGAUUUUCUAGU
UUAUUUGCGUAGAGGUGUUUGUAGUAAUCUCUGAUGGUAGUUUGUAUUUCUGUGGGAUCGGUGGUGAUAUCCCCUUUAU
CAUUUUUUAUUGCGUCUAUUUGAUUCUUCUCUUUUUCUUUAUUAGUCUUGCUAGCGGUCUAUAAAUUUUGUUGAUCCUU
UCAAAAAACCAGCUCCUGGAUUCAUUAAUUUUUUGAAGGGUUUUUUGUGUCUCUAUUUCCUUCAGUUCUGCUCUGAUUU
UAGUUAUUUCUUGCCUUCUGCUAGCUUUUGAAUAUGUUUGCUCUUGCUUUUCUAGUUCUUUUAAUUGUGAUGUUAGGGU
GUCAAUUUUGGAUCUUUCCUGCUUUCUCUUGUGGGCAUUUAGUGCUAUAAAUUUCCCUCUACACACUGCUUUGAAUGUG
UCCCAGAGGUUCUGGUAUGUUGUGUCUUUGUUCUUGUUGGUUUCAAAGAACAUCUUUAUUUCUGCCUUCAUUUCGUUAU
GUACCCAGUAGUCAUUCAGGAGCAGGUUGUUCAGUUUCCAUGUAGUUGAGCAGUUUUGAGUGAGAUUCUUAAUCCUGAG
UUCUAGUUUGAUUGCACUGUGGUCUGAGAGAUAGUUUGUUAUAAUUUCUGUUCUUUUACAUUUGCUGAGGAGAGCUUUA
CUUCCAACUAUGUGGUCGGUUUUGGAAUAGGUGUGGUGUGGUGCUGAAAAAAAUGUAUAUUCUGUUGAUUUGGGAUGGA
GUUCUGUAGAUGUCUAUUAGGUCUGCUUGGUGCAGAGCUGAGUUCAAUUCCUGGGUAUCCUUGUUGACUUUCUGUCUCG
UUGAUCUGUGUACUGUUGACAGUGGGUGUUAAAGUCUCCCAUUAUUAAUGUGUGGAGUCUAAGUCUCUUUGUAGGUCAC
UCAGAUGAUUGGCACUUACUGGGCGCUUGGCACUUUCCAUACUGUGUCAUCGGCAGAUAGCUGCAUGGUUGGUGUUCGU
GCUGGGGAAUGGGAAGUUCAUCGGUGGGACAAGGACAAAAUGCCCCCAUUGCUUUGUUGUGGCUUUAAUCUCCCUUUCG
AGGCUGAGCCACAGCGUGCUGUAGGUGGCGCUGCUGUGAAGCGCAGUACCAGGGUCACACUCCACUCCCAGCUCUGCAG
AGGUGGAGAAAGAAUGAAACAUCUCACUCCUGGACUUCCACUUUCCUGUCACUGUUGGUGUCACCUCUUACUGGAUGUC
ACAGAGCCCAGCCCCUCCCACCUGUGCCUAGGAAAAGCAGAUGCCACCUUGGAAUGUGGGGUUUGUGUGUGCAAUUUAC
UAGCUGGGCAGAGACCAGCAACCUGGAGAGCAGGUGUCUCGUCUAAGGGGACAGUCACAUUUCACCUCCAGCCACCUGG
AGGAAUUUGGGCCUGGUGAUGUCAGAAUUCUUCAAUAAAAGCCUAAAAUCUAUAUUUUAUGUGCGGUCAUGAGAUCUGU
UAAAUGUUAGCAACUUCAGGAAGUUUAAAAAUGCUGUGUGGACCUAGAAUAGGCAAGUUCUUAAAGGCAGAAAGUGGAA
UGCUAGUUUCCAGGGACUGGGGAACAGGGAGGAAUGGGGAGUUCAUGUUUAAUGGGCACAGAGGUUUUGUUAGGGAUGA
CGAAAAAGUUCGGGAGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGUGAUGGUGAUG
GGUGAUGGUGAUGGUGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGUGAUG
GUGAUGGAGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGUGAUGGAGAUGGUGAUGGUGAUGGUGAUGGUGAUGG
UGAUGGUGAUGGUGAUGGAGAUGGAGAUGGUGAUGGUGAUGGUUGCCUAACAUCAGGAACGUGCUUAAUGCUUCUGAAU
UGCACACAAAAAUGGCAAGUUUAAUAUUAUGUGUACUUUAUCACAAUGAAAAAAGCUGCUGCGUGGGCCAAGUUACUUG
UGCAGGUAAUGUUCUGCAGGUGGUUGCCUGCACCUCAGUUGUAGGGUGUCCGUAGGAUGUGAGGCCAGUCCCCGGGCUU
AAUGAUGCUUUAAAUCCUGCCUAGUAUUCAAUUAUUUCUUGUCGCUUAAAAGGCCUAAUAAAAUUAUGGUCUUAGUUUA
CAGUGGUAUGAAUGCUUAGCUGUUGGAUUUUAGUAGGAAAGUUCGUCCCUUUUUGUUUUUAAUUUUGUUUUACAGAUUC
ACAGGAAUUUUUUUUUUUUUUUUUUUUUUUUUUUUUUAAUGCACAGAAAGUUUCCCUGGACUCUCUACCCAGUUUCCCC
AGUGAUAAUAUCUUGGGUAACAUCCUGUAUACAUUCACAUUGGUGCAUUCCUCAGAGUUGUCAGAUUUUGCUAGUUUUA
CGUGCACUUGUGUAUGUGUGUAUUUGCAAUUUUAGCACGUGUAGACUCUUGUAACCACUACAAUCAAGUUACAGAACUA
CACUACCAAGGUUCAUCUUUUUAAAAUCUUUGAUGUUACCUUUUUUGGAACAGUGACCAUGAGAGGACUUUCCUCCCAA
AAUUUUGAAAACUACUGAACCAGAAUAUAGUCUGACACUAAUAGGUAGAAAUUUAACCAAAGGAGAUUAUGAAGCUCUG
CACUUGAGUUAACAAAAUCACUUCUCAGCUUCCAGUUCCAUCUCAGAAGGAAGGAAAAGGGAUUAAAAAUCCAGAGACC
AGAAAAUGGGAGCAAAGUACAAGGUGGUGUAAUCAUUACAGAGGUUUCCUGAUGUUUCCAAGUCAGUCGUGUGUUGAGC
UGCUAAACUCUAAAGUAAUUUUAGGUGGAAUGUUGGAAACAUGCUGCUGAGGUGAUAGAAAGGAAUCCAUGGUCCUCUG
UUAGUUGGAAAGUAUAUGGAAUACUAUAUUCUACAUAAGAUACAAUACUCUCUGUGAGACAAGGAUAAAGUAGAUUUUG
UCAGUGAAAUUGUGACAAGAAUCGCUGAUGGGUUUAGAGCCUAAGUUUGCGAGGAGCACUGGAAGAAAUUAAGAUUGUU
GAGAUUGGAAAGGGUUAGCUAUGGGGGAACAGGAGGAGGUGACUCCAUGACAGACCAAAUAUUCAAAGGACUGUGUAGA
AGAGGAAAAAGACUUUGUUAGGGCUCCAGAGGACAGAGCCAGGAGUCAGACAGGGCCUUGAACUCAACCCACCGAGAUC
UGCAAACUUUGCAGGAUGCACCAGAUGUCUUGUAGCCAUGGGUCAAGGGGGGACCCUGGGUAAGAGACUGUAAUAGAUG
ACCUCUAAGGCCAUCUCAUGACAUGUGUGAUUAAUGUAUGUACCUGUCCUCUCUUUUUGACAAUUCUACAGAUUAUUCA
GGACAGGGAGUUGACCAACUGCAAAGAGUGAUUGACACCAUCAAAACCAACCCUGACGACAGAAGAAUCAUCAUGUGCG
CUUGGAAUCCAAGAGGUUGAAAGAACCCCGUCGUCUUCAUUUAUACUAACCAUACUCUUAGAGGGAAGCAAUCUGGUUU
UGUGCAGAGGCACUGAGGGAGGCAGGACCCUGGGCAACUUCCCCCAGCCACAUGGUUGUGUGACGUUGGGCAAGUCACA
UUUUGCUGCACUUUCACCUUCAGAUCAUGAGGUUGGGCCCAGAGGAUUUUUUUUUUUUUUUUUUUUUUUGAGACAGAGU
UUUGCUCUGUUGCCCAGGCUGGAAUGCAACGGCGUGAUCUUGGCUCACUGUAACCUCUGCCUCCUGGGUUCGAGUGAUU
CUCCUGCCUCAGCCUCCAAGUAGCUGGGAUUACAGCAUGUGCCACCAUGCCUGGCUAAUUUUGUAUUUUUAGUAGAGAC
GGGUUCACAUGUUGGUCAGGCUGGUCUUGACUCCUGACCCUCAGAUGAUCUGCCUUGCCUCAGCCUCCCAACCGAGUGA
UCUUAAGUUGUGUAUUAUACUCAUUCUUACACAAAAAGGGCUUUAAAUGCCUAGAAACUACAUGAAGAUGUUAACAUUU
UAAAUGGAAGCAGAUGAAGUUCCAGCUCGCUGCCACCUCACUAACAUUUUUAACAAUUAUAUUGUAAAAUUCAACUCUA
CCAGGGUGUAGAGCCAGGUGUGGUGGCUCACACCUGUAAUUCCAACAACUCCAGAGGCCAAGGCGAGAGGAUCAUUUGA
ACCCACGGAAUUUGAGGCUGUAGUGAGUCAUGAUCACGCCAUUGCACUCCAUCCUGGGCAACAGAGUGAGACCCUGAAU
AUUUAAAAACAACAACAACAACAAAACUCUAUCAGGAUAUCAUAAGUACUUAGAGUGAAAUACUUGCAUCUGUAAUAGA
GACUUAUUUUUUUUUUUUUUGAGACACAGUCUCACCCUGUUGCCCAGGCUGGAGUGCAGUGGUUUGAUCUCCGCUCACG
GCAACCUCCAUCUCCCAGGUUCAAGUGAGUUCCCAUUCCUCAGCCCCAGAGCUGGGACCACAGGCGCGCGAAUUUUUGU
AUUUUUAGCAGAGACGGGGUUUCACUAUGUUGGCCAGGCUAGUCUCAAACUCAAGUUGGCCUCAAGUGAUCUGCCCACC
CUGGCGUCCCAGUGUUGGGAUUUCAGGCAUGAGCCACUGUGCCUGGCCAUGUAAUAGAGACUUUUAAUAUAGGAGGGUG
UACCAGAAGCACCAGUUUCCUGUGGCAAACAGAAUUAUUCCUGCUGUAUUUGUAAUUUGGUGCCACGAGGUAGCCCAGA
UCCCUUCAGCUCUGAUGGAAGAGCAUUGCUUCAGCCGUAAAUGGACACCUGCAGAAACCUUGCACCGAUGGAUAGUCUC
CCUCAGCUCCGUGCCAUCGCUGCAGGGGCUGUUAUGGACAUCACUGCAGCCCAGUGGCUCUCUCUCCUGGUCUCCACCA
UAUGAGUUGGCUUCUGUUUCUCUCCUGUUUUACUUUGCCUUUAGCUGUGGUCUUUCAAACCACCAUCCCUCCUUAUCUU
CCUCUGCUGGUUCCUCAGAUCUUCCUCUGAUGGCGCUGCCUCCAUGCCAUGCCCUCUGCCAGUUCUAUGUGGUGAACAG
UGAGCUGUCCUGCCAGCUGUACCAGAGAUCGGGAGACAUGGGCCUCGGUGUGCCUUUCAACAUCGCCAGCUACGCCCUG
CUCACGUACAUGAUUGCGCACAUCACGGGCCUGAAGGUGGGCUGUCUCGGGAAGGGUGACUUGCCAGCCUACCACAUGA
GCUCUUCAGUUCUUUAAUAUGGGAAAACAAAUUGCAGAGUUUAGUCUCUGAUUAGCUUUUAAAUUUGAUAUGUGUAAGU
AAGACAUGAACCAGCUUUUACUUUGAAACCUUCCUUUUCUGGAAGGUUUUCUGGCCCUGUGGUAUAUGCACUAACAGAU
CUAUACAGGUUGUUUGUGAUACAGCUUCUAUGGAUCUUCUCAAAAGCUAUGCUGAGGUUGGGUAUGGUGGCUCAUGCCU
GUAAUCCCAGCACUUUGGAAGACUGAGACAGGAGCAAUUGCUUGAGGUCUGGAGUUCAAUACCAGCCUGGGCAACAUAA
CAAGAUGCUGUUGCUACAAAAAAAUGGAAAAGCUACACUAAAUUAUUUUUUUAAAAAAAGCCUUGCGGUGUCUGCAUAU
UCUAAUGUUUUUAAAUGAUGUUUUAAAGAAUUGAAACUAACAUACUGUUCUGCUUUCUCCCGGUUUAUAGCCAGGUGAC
UUUAUACACACUUUGGGAGAUGCACAUAUUUACCUGAAUCACAUCGAGCCACUGAAAAUUCAGGUAAGAAUUAGAUGUU
AUACUUUUGGGUUUGGUACCUUCUCUUGAUAAAAGGUUGACUGUGGAACAGGUAUCUGCUCAAUGCUGUGUCCAAGAUA
AAGAUGACUGCUCCAAAUGUGGGGCUUCAGUUUAGGGAGAAGUGGUGGGCAGGUGGGCAGGACAAGGCAGGCAUCUGCC
UCAGCAACCAUGGCACUUAACUUGUCAGGUGCUGUGAGGUACUAAGCACCAGUACCAGAGAGGGAAGAGCCACAUUCAA
GCCAGGGGAUUGUCCAAAAGGAGGCAUUUUAACUCAUUUUAACUUGAAGGAGAAUUGAAGUGCAAAUGUUUUUCCUUUU
CUUUUUUUUUGAGAUGGAGUCUUUCUCUGUCGGCCAGGCUGGAGUGUGCCGUGGUGCGAUCUCAGCUCACUGCAACCUC
CACCUCCCGGGUUCAAGCAAUUCUUCUGCCUCAGCCUCCCAGGUAGCUGGGAUUACAGGCACAUGCCACCACACCCAGC
UAAUUUUUUGUAUUAUUAGUAGAGAUGGGGUUUCGUCAUGUUGGCCAGGCUGAUCUCAAACUCCUGACUUCAAGUGUAC
CACCUGCCUCAGCCUCCGAAAGUUCUGGAAUUACAGGCAUAAGCCACCACCCUGGCCAUAAAUAUUUUUUGUUAAUUUU
ACAUUAAGUACAAUAUUUAGGUCCAAACUUCAAAAGUCUGUUGAAAUCCCUGAAGUUAUAGCAGCCAACAAUUGAUAUG
AAAUGGCAAUAAAAAUGUAAGUUCAUCUGCUUCAUGAGCCUUAAGGAAAAAAACUCAGAACCAGACACUUUUUAGCCCC
UUCCAGGUUAGAUCCAGGUUUUAAAAGUUAUUCCUUUGAGGGAGUUUGGCUGCUUUUGAGUGGAGGUGACUUCAGGCUU
AUUCUCUCUGGCUCUCUGCUCUGGUCAUUUUUAGACAUAGUAAUAGGUUGUGACCUGUCUUCACAUCCUAAUUGCCACU
GUCUGUUCAUCCCAGGAAUCCUGGCUUUCAUCCCUUUCUGUUCACUGUCCAUGCAUGUCAUCUUUCCUUCUUUCUGCCA
GGGACCAGAUGGGUUAGGGAUUGUGAAUUCAAGUAAACGUAGAGCUACUAUGAGUUACAGAUUGACUGUGUUCCUGUCU
UUAAUAAAUUUGCCAAGAGUGGUUAUAAGAACUUACACCUGAUGAGGCACCAGGCUCCUGAUGCUGUGUAAUGUCACAA
AAUACCCCUCACUCUCGAUCUGUGCAAGAGAACAGCUGGUUGCGCUCCAAUCAUGUUACAUAACCUACGCGAAGGUAUC
GACAGGAUCAUACUCCUGUAAAAUAGAACUUUGUUGAUCACAUCCUGUGUACUUGUUUCACGGACAUGAGGAGCAAUUA
CAACAGGUCGUACAAUUAUGGCAAAAUAAUGGCCUUAUUUUGUUUUUAGCUUCAGCGAGAACCCAGACCUUUCCCAAAG
CUCAGGAUUCUUCGAAAAGUUGAGAAAAUUGAUGACUUCAAAGCUGAAGACUUUCAGAUUGAAGGGUACAAUCCGCAUC
CAACUAUUAAAAUGGAAAUGGCUGUUUAGGGUGCUUUCAAAGGAGCUCGAAGGAUAUUGUCAGUCUUUAGGGGUUGGGC
UGGAUGCCGAGGUAAAAGUUCUUUUUGCUCUAAAAGAAAAAGGAACUAGGUCAAAAAUCUGUCCGUGACCUAUCAGUUA
UUAAUUUUUAAGGAUGUUGCCACUGGCAAAUGUAACUGUGCCAGUUCUUUCCAUAAUAAAAGGCUUUGAGUUAACUCAC
UGAGGGUAUCUGACAAUGCUGAGGUUAUGAACAAAGUGAGGAGAAUGAAAUGUAUGUGCUCUUAGCAAAAACAUGUAUG
UGCAUUUCAAUCCCACGUACUUAUAAAGAAGGUUGGUGAAUUUCACAAGCUAUUUUUGGAAUAUUUUUAGAAUAUUUUA
AGAAUUUCACAAGCUAUUCCCUCAAAUCUGAGGGAGCUGAGUAACACCAUCGAUCAUGAUGUAGAGUGUGGUUAUGAAC
UUUAAAGUUAUAGUUGUUUUAUAUGUUGCUAUAAUAAAGAAGUGUUCUGCAUUCGUCCACGCUUUGUUCAUUCUGUACU
GCCACUUAUCUGCUCAGUUCCUUCCUAAAAUAGAUUAAAGAACUCUCCUUAAGUAAACAUGUGCUGUAUUCUGGUUUGG
AUGCUACUUAAAAGAGUAUAUUUUAGAAAUAAUAGUGAAUAUAUUUUGCCCUAUUUUUCUCAUUUUAACUGCAUCUUAU
CCUCAAAAUAUAAUGACCAUUUAGGAUAGAGUUUUUUUUUUUUUUUUUUAAACUUUUAUAACCUUAAAGGGUUAUUUUA
AAAUAAUCUAUGGACUACCAUUUUGCCCUCAUUAGCUUCAGCAUGGUGUGACUUCUCUAAUAAUAUGCUUAGAUUAAGC
AAGGAAAAGAUGCAAAACCACUUCGGGGUUAAUCAGUGAAAUAUUUUUCCCUUCGUUGCAUACCAGAUACCCCCGGUGU
UGCACGACUAUUUUUAUUCUGCUAAUUUAUGACAAGUGUUAAACAGAACAAGGAAUUAUUCCAACAAGUUAUGCAACAU
GUUGCUUAUUUUCAAAUUACAGUUUAAUGUCUAGGUGCCAGCCCUUGAUAUAGCUAUUUUUGUAAGAACAUCCUCCUGG
ACUUUGGGUUAGUUAAAUCUAAACUUAUUUAAGGAUUAAGUAGGAUAACGUGCAUUGAUUUGCUAAAAGAAUCAAGUAA
UAAUUACUUAGCUGAUUCCUGAGGGUGGUAUGACUUCUAGCUGAACUCAUCUUGAUCGGUAGGAUUUUUUAAAUCCAUU
UUUGUAAAACUAUUUCCAAGAAAUUUUAAGCCCUUUCACUUCAGAAAGAAAAAAGUUGUUGGGGCUGAGCACUUAAUUU
UCUUGAGCAGGAAGGAGUUUCUUCCAAACUUCACCAUCUGGAGACUGGUGUUUCUUUACAGAUUCCUCCUUCAUUUCUG
UUGAGUAGCCGGGAUCCUAUCAAAGACCAAAAAAAUGAGUCCUGUUAACAACCACCUGGAACAAAAACAGAUUUUAUGC
AUUUAUGCUGCUCCAAGAAAUGCUUUUACGUCUAAGCCAGAGGCAAUUAAUUAAUUUUUUUUUUUUUGACAUGGAGUCA
CUGUCCGUUGCCCAGGCUGCAGUGCAGUGGCGCAAUCUUGGCUCACUGCAACCUCCACCUCCCAGGUUCAAGUGAUUCU
CCUGCCUCAGCCUCCCAUGUAGCUGGGAUCACAGGCACCUGCCACCAUGCCCGGCUAAUUUUUUGUAUUUUUUGUAGAG
ACAGGGUUUCACCAUGUUGGCCAGGCUGGUCUCAAACACCUGACCUCAAAUGAUCCACCUGCCUCAGCCUCCCAAAGUG
UUGGGAUUACAGGCGUAAGCCACCAUGCCCAGCCCUGAAUUAAUAUUUUUAAAAUAAGUUUGGAGACUGUUGGAAAUAA
UAGGGCAGAGGAACAUAUUUUACUGGCUACUUGCCAGAGUUAGUUAACUCAUCAAACUCUUUGAUAAUAGUUUGACCUC
UGUUGGUGAAAAUGAGCCAUGAUCUCUUGAACAUGAUCAGAAUAAAUGCCCCAGCCACACAAUUGUAGUCCAAACUUUU
UAGGUCACUAACUUGCUAGAUGGUGCCAGGUUUUUUUGCACAAGGAGUGCAAAUGUUAAGAUCUCCACUAGUGAGGAAA
GGCUAGUAUUACAGAAGCCUUGUCAGAGGCAAUUGAACCUCCAAGCCCUGGCCCUCAGGCCUGAGGAUUUUGAUACAGA
CAAACUGAAGAACCGUUUGUUAGUGGAUAUUGCAAACAAACAGGAGUCAAAGCUUGGUGCUCCACAGUCUAGUUCACGA
GACAGGCGUGGCAGUGGCUGGCAGCAUCUCUUCUCACAGGGGCCCUCAGGCACAGCUUACCUUGGGAGGCAUGUAGGAA
GCCCGCUGGAUCAUCACGGGAUACUUGAAAUGCUCAUGCAGGUGGUCAACAUACUCACACACCCUAGGAGGAGGGAAUC
AGAUCGGGGCAAUGAUGCCUGAAGUCAGAUUAUUCACGUGGUGCUAACUUAAAGCAGAAGGAGCGAGUACCACUCAAUU
GACAGUGUUGGCCAAGGCUUAGCUGUGUUACCAUGCGUUUCUAGGCAAGUCCCUAAACCUCUGUGCCUCAGGUCCUUUU
CUUCUAAAAUAUAGCAAUGUGAGGUGGGGACUUUGAUGACAUGAACACACGAAGUCCCUCUGAGAGGUUUUGUGGUGCC
CUUUAAAAGGGAUCAAUUCAGACUCUGUAAAUAUCCAGAAUUAUUUGGGUUCCUCUGGUCAAAAGUCAGAUGAAUAGAU
UAAAAUCACCACAUUUUGUGAUCUAUUUUUCAAGAAGCGUUUGUAUUUUUUCAUAUGGCUGCAGCAGCUGCCAGGGGCU
UGGGGUUUUUUUGGCAGGUAGGGUUGGGAGG
 (-5380.12)

Data files

   For details of Vienna RNA file formats, see the original documentation
   http://www.tbi.univie.ac.at/~ivo/RNA/

Notes

   None.

References

   None.

Warnings

   None.

Diagnostic Error Messages

   None.

Exit status

   It always exits with status 0.

Known bugs

   None.

See also

    Program name                   Description
   einverted      Finds inverted repeats in nucleotide sequences
   vrnaalifold    RNA alignment folding
   vrnaalifoldpf  RNA alignment folding with partition
   vrnacofold     RNA cofolding
   vrnacofoldconc RNA cofolding with concentrations
   vrnacofoldpf   RNA cofolding with partitioning
   vrnadistance   RNA distances
   vrnaduplex     RNA duplex calculation
   vrnaeval       RNA eval
   vrnaevalpair   RNA eval with cofold
   vrnafold       Calculate secondary structures of RNAs
   vrnafoldpf     Secondary structures of RNAs with partition
   vrnaheat       RNA melting
   vrnainverse    RNA sequences matching a structure
   vrnaplot       Plot vrnafold output
   vrnasubopt     Calculate RNA suboptimals

Author(s)

   This program is an EMBOSS conversion of a program written by Ivo
   Hofacker as part of his VIENNA package.

   Although we take every care to ensure that the results of the EMBOSS
   version are identical to those from the original package, we recommend
   that you check your inputs give the same results in both versions
   before publication.

   Please report all bugs in the EMBOSS version to the EMBOSS bug team,
   not to the original author.

History

   Converted (October 2005) by Alan Bleasby

Target users

   This program is intended to be used by everyone and everything, from
   naive users to embedded scripts.

Comments
