Index >

Results for CNB 280356_4-rev

Input Alignment

CLUSTAL W(1.81) multiple sequence alignment


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       TCTCCTTTGAAATCAAAAGAGGAGTCTGACAGGTCAGAAAACCACCTCTCTTGCTGGTCA
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TTTCCAT---CTG---GAGTTTTCAAAGGCTCATC-TCTTGCCCTT-TCTTTAAGGGACA
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      TCTCCATAAAGGG---AGGAGTCGGATGACATCTCTGAACCCCATCTGTCATGATGGTCA
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TCTCCATACAATG---AACTGTCAGAAGACATATCCGACTGCCACCGATCATGGGGGTCA
280356_ENSG00000183788_HUMAN_879_1577/1-737         CGTCCCTGGACTT---GTCTTTGAGCACGCGGGGCGGGCTGTCCTTGTCCCTGGTGGCGG
                                                      *** *                      *    *       *        *   **   


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       TCAGAGAGGCTGAACTTGGTGTCCTCGTGGTCCAGAAACTGGCTTTTGTTACAG--TAGT
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     GAGCTTTCTCATGCTGGGTTTT-ACCACTG-CTGTCTC-CTGTACTGGACTTTCTCTCTT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      TCTGAGGCACTGAGTTTTGTGTCCTCCATGTTGAGAAAGCGGTTGTTGTCATAG--CTTT
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TCTGATGCACTCATCTTGGTGT-CTTCAAG-TAAGTGA-TTTTTTAAGTCAAAG--TCGT
280356_ENSG00000183788_HUMAN_879_1577/1-737         GCTTCTNNNNNNNNNNNNNNNN-NNNNNNN-NNNNNNN-NNNNNNNNNNNNNNNNCAGCC
                                                                                                                


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       CGTCAAAAGC--AGCGTCGTCCCTGCACAGCTTTTCCTTCTTGAGCTTCTCTTTGTCCTC
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     CCTGCAAATG--TTTCAAGT-TAGTTACATTTACACTTTCTTTATCTCTAAGTTTCTCCT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      CATACTCTGA--CTCCTCTT-TCTGTGC-TTTAT-CTTTTTTACCTTTCTCTTCTTTTGC
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 CATAGTCAGG--TTCCTCCT-T-GATGCTTTTATCCCTCTTAGACTTTTCCTTCTCTTCT
280356_ENSG00000183788_HUMAN_879_1577/1-737         CATCCGCATGCCTGTCCCGG-TGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                                                    * *                                                         


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       TCTGAAGGCCTTCTC--CTTCTCCTTGGAGA-CCTCCTTCATGTCG-TTCTTCTTTT--C
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TCTTCTCTCCTTCCCTGTCTCTGTCTTTAGTTCTGACCTTCTCTGATTTGGAATACT--C
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      ATTTTTCTCCTTGTCCACCTTTAAATGCTTTTCCTCTTTCTGCTCA-CTTTTCCTGTCAG
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TTGACACT-TTTCTCAGATTTAAAATGTTTTTCTTCTTTTTGCTCA-TTCTTTTTGT--C
280356_ENSG00000183788_HUMAN_879_1577/1-737         NNNNNNNNNNNNNNNNNNNNTAGGATGTTGATGGCACTAGATCCATAAGGCTTTAGTTCC
                                                                             *                              *   


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       -TAGCTTGAACGGTC--GATCTTTGGACTTTTTCTTCCTTTCTTCTTTGTACAGTCTTAA
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     ACTGCTGTCA-GATTGCTTTCTTTTCTCTAAGTGCTTTTCTTTGTTTTCTGCTAAGTACC
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      CCTTAGAGGATGATT--TTTCTTTAGATTTCTTCTTTTTATCCTCTTTGTGAGCCTTTTG
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 AGTTTTAAGA-GATT--TATCTTTTGACTTCTTCTTTTTATCATCTTTATGGGCTTTTTG
280356_ENSG00000183788_HUMAN_879_1577/1-737         TTTTCTATTT-TCTTGGAAGGTTCTCTCTCGGAATCATTTTTATCTTTCTTTTCGGTAGA
                                                                 *       **     *         * *    *** *      *   

280356_4-rev.aln

RNAz output

############################  RNAz 0.1  ##############################

 Sequences: 5
 Columns: 300
 Mean pairwise identity:  38.14
 Mean single sequence MFE: -63.28
 Consensus MFE:  -4.74
 Energy contribution:  -4.46
 Covariance contribution:  -0.28
 Mean z-score:  -2.67
 Structure conservation index:   0.07
 SVM decision value:   0.27
 SVM RNA-class probability: 0.664130
 Prediction: RNA

######################################################################

>280356_ENSRNOG00000027886_RAT_3595_4278/1-737
UCUCCUUUGAAAUCAAAAGAGGAGUCUGACAGGUCAGAAAACCACCUCUCUUGCUGGUCAUCAGAGAGGCUGAACUUGGUGUCCUCGUGGUCCAGAAACUGGCUUUUGUUACAGUAGUCGUCAAAAGCAGCGUCGUCCCUGCACAGCUUUUCCUUCUUGAGCUUCUCUUUGUCCUCUCUGAAGGCCUUCUCCUUCUCCUUGGAGACCUCCUUCAUGUCGUUCUUCUUUUCUAGCUUGAACGGUCGAUCUUUGGACUUUUUCUUCCUUUCUUCUUUGUACAGUCUUAA
.(((.((((....)))).)))(((.((((((((..(((((((((.(......).))))....(((((((((.((..(((...((....)).)))((((((((((((((..((....))...))))))).(((.......))).)))..))))....)).)))))))))..((((....((((((...(((((........)))))...))))))((((((((..((.....))...)))))).))......))))..........)))))..))))).))).))).. ( -77.10)
>280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737
UUUCCAUCUGGAGUUUUCAAAGGCUCAUCUCUUGCCCUUUCUUUAAGGGACAGAGCUUUCUCAUGCUGGGUUUUACCACUGCUGUCUCCUGUACUGGACUUUCUCUCUUCCUGCAAAUGUUUCAAGUUAGUUACAUUUACACUUUCUUUAUCUCUAAGUUUCUCCUUCUUCUCUCCUUCCCUGUCUCUGUCUUUAGUUCUGACCUUCUCUGAUUUGGAAUACUCACUGCUGUCAGAUUGCUUUCUUUUCUCUAAGUGCUUUUCUUUGUUUUCUGCUAAGUACC
........(((((......(((((..((((.....((((.....))))((((((((........)))((((....(((.(((........))).))).....................((((((((((((..........((((...........)))).......................(((.(((....)))....))).....))))))))))))))))....))))))))).))))).....))))).((((((..(..........)..)))))). ( -47.50)
>280356_SINFRUG00000125527_FUGU_4384_5074/1-737
UCUCCAUAAAGGGAGGAGUCGGAUGACAUCUCUGAACCCCAUCUGUCAUGAUGGUCAUCUGAGGCACUGAGUUUUGUGUCCUCCAUGUUGAGAAAGCGGUUGUUGUCAUAGCUUUCAUACUCUGACUCCUCUUUCUGUGCUUUAUCUUUUUUACCUUUCUCUUCUUUUGCAUUUUUCUCCUUGUCCACCUUUAAAUGCUUUUCCUCUUUCUGCUCACUUUUCCUGUCAGCCUUAGAGGAUGAUUUUUCUUUAGAUUUCUUCUUUUUAUCCUCUUUGUGAGCCUUUUG
....((((.((((((((((((((.(((((...(((...(((((......))))))))...(((((((........))).)))).)))))..((((((...((....))..))))))....)))))))))))))).)))).............................((((((..................)))))).............((((((................(((((((((.........(((.....)))..)))))))))..))))))...... ( -72.24)
>280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737
UCUCCAUACAAUGAACUGUCAGAAGACAUAUCCGACUGCCACCGAUCAUGGGGGUCAUCUGAUGCACUCAUCUUGGUGUCUUCAAGUAAGUGAUUUUUUAAGUCAAAGUCGUCAUAGUCAGGUUCCUCCUUGAUGCUUUUAUCCCUCUUAGACUUUUCCUUCUCUUCUUUGACACUUUUCUCAGAUUUAAAAUGUUUUUCUUCUUUUUGCUCAUUCUUUUUGUCAGUUUUAAGAGAUUUAUCUUUUGACUUCUUCUUUUUAUCAUCUUUAUGGGCUUUUUG
..((((((..((((((((.((((((((((....((((.(((.......))).))))....((((....))))...))))))))(((.(((.(((.((((((((((((((.((((..((((((......))))))...............(((........)))......))))))))).....))))))))).)))...))))))...............)).)))).((((((((....)))))))).............))))...))))))....... ( -57.90)
>280356_ENSG00000183788_HUMAN_879_1577/1-737
CGUCCCUGGACUUGUCUUUGAGCACGCGGGGCGGGCUGUCCUUGUCCCUGGUGGCGGGCUUCUNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGCCCAUCCGCAUGCCUGUCCCGGUGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNUAGGAUGUUGAUGGCACUAGAUCCAUAAGGCUUUAGUUCCUUUUCUAUUUUCUUGGAAGGUUCUCUCUCGGAAUCAUUUUUAUCUUUCUUUUCGGUAGA
.(((....)))...(((((((((((.(((((((((((((((........)).((.(((((..................................................)))))..))))).)))))))))))))).........................................................((((((..(((((.((((((.((....)).)))))).))..(((((......)))))((((((.....)))))))))..)))))).....)))).))) ( -61.66)
>consensus
UCUCCAUAGAAUG___AAGUGUCAGAAGACAGAUC_GAAUGCCAUCGUUCAUGAUGGUCAUCUGAUGCACUGA_CUUGGUGU_CUCCAUG_C_AGAAA_CGGUUUUUGUCAUAG__UCGUCAUACACAGG__UUCCUCGU_UCGGUAC_UUUAU_CCUUCUUGACCUUCUCUUCUCUCCCUCUUCACUCCUUCUC__CCUUUAAAUGUUGUUCCUCCUUCAUCUCA_UUCUUCUUGU__CACUUCUAGGA_GAUU__UAUCUUUUGACUUCUUCUUUUUAUCAUCUUUCUGCGCUGUUUA
................................(((.((..((((((......))))))..)).))).......................................................................................................................................................................................................................................... ( -4.74 =  -4.46 +  -0.28) 

280356_4-rev.rnaz

RNAalifold consensus structure

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