Index >

Results for CNB 280356_6-rev

Input Alignment

CLUSTAL W(1.81) multiple sequence alignment


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       GTCTTCTTTGACGGTTT--CCAGGATAAGTTTGGCCACTGAGTCACTC-TT--GATGTCT
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TTCAGATTTTA--GTCTGATTAAAGTATTTAGCTGGGCTTTATCTTTA-CG--CTTGTCT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      CTCTTCTTTAACGGTCT--CAACTATAAGTTTCACAGAGTTGTTGGCT-TT--GTATTCC
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 CCCTGCTTTCC--TCCT--TTACTGTTTCTACAATTAACTTGACAGCA-TT--ATTCGCT
280356_ENSG00000183788_HUMAN_879_1577/1-737         TCCCGTTGCTC--ATCT--TCACTGGGTCGCCCTTTTCTTTCTCTGCACCGTCCTTGAAT
                                                      *   *         *    *                                      


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       CTGTAGTCTGTCACT-GA---GTCC-CAGC-----TATCCTCTCCTTTGAAATCAAAAGA
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     CGCTCTT-TGTATCTGTCTATATCCTTTTTATCTTTCTCTTTTCCAT---CTG---GAGT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      TTGTACTCTTTGACAGGA-GTGTCC-CAGC-----TGTCGTCTCCATAAAGGG---AGGA
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TTGTATTCTTTAACCGGG-GTATCC-CAGC-----TATCATCTCCATACAATG---AACT
280356_ENSG00000183788_HUMAN_879_1577/1-737         TTCTCCT-TCAGTTTGGC-ATCGCC-GAGCCTCGGGCCCTCGTCCCTGGACTT---GTCT
                                                       *  * *              **             *   *** *             


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       GGAGTCTGACAGGTCAGAAAACCACCTCTCTTGCTGGTCATCAGAGAGGCTGAACTTGGT
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TTTCAAAGGCTCATC-TCTTGCCCTT-TCTTTAAGGGACAGAGCTTTCTCATGCTGGGTT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      GTCGGATGACATCTCTGAACCCCATCTGTCATGATGGTCATCTGAGGCACTGAGTTTTGT
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 GTCAGAAGACATATCCGACTGCCACCGATCATGGGGGTCATCTGATGCACTCATCTTGGT
280356_ENSG00000183788_HUMAN_879_1577/1-737         TTGAGCACGCGGGGCGGGCTGTCCTTGTCCCTGGTGGCGGGCTTCTNNNNNNNNNNNNNN
                                                             *    *       *        *   **                       


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       GTCCTCGTGGTCCAGAAACTGGCTTTTGTTACAG--TAGTCGTCAAAAGC--AGCGTCGT
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TT-ACCACTG-CTGTCTC-CTGTACTGGACTTTCTCTCTTCCTGCAAATG--TTTCAAGT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      GTCCTCCATGTTGAGAAAGCGGTTGTTGTCATAG--CTTTCATACTCTGA--CTCCTCTT
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 GT-CTTCAAG-TAAGTGA-TTTTTTAAGTCAAAG--TCGTCATAGTCAGG--TTCCTCCT
280356_ENSG00000183788_HUMAN_879_1577/1-737         NN-NNNNNNN-NNNNNNN-NNNNNNNNNNNNNNNNCAGCCCATCCGCATGCCTGTCCCGG
                                                                                            * *                 


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       CCCTGCACAGCTTTTCCTTCTTGAGCTTCTCTTTGTCCTCTCTGAAGGCCTTCTC--CTT
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     -TAGTTACATTTACACTTTCTTTATCTCTAAGTTTCTCCTTCTTCTCTCCTTCCCTGTCT
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      -TCTGTGC-TTTAT-CTTTTTTACCTTTCTCTTCTTTTGCATTTTTCTCCTTGTCCACCT
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 -T-GATGCTTTTATCCCTCTTAGACTTTTCCTTCTCTTCTTTGACACT-TTTCTCAGATT
280356_ENSG00000183788_HUMAN_879_1577/1-737         -TGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                                                                                                                

280356_6-rev.aln

RNAz output

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

 Sequences: 5
 Columns: 300
 Mean pairwise identity:  37.40
 Mean single sequence MFE: -62.86
 Consensus MFE:  -4.74
 Energy contribution:  -4.46
 Covariance contribution:  -0.28
 Mean z-score:  -1.87
 Structure conservation index:   0.08
 SVM decision value:   0.17
 SVM RNA-class probability: 0.616746
 Prediction: RNA

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

>280356_ENSRNOG00000027886_RAT_3595_4278/1-737
GUCUUCUUUGACGGUUUCCAGGAUAAGUUUGGCCACUGAGUCACUCUUGAUGUCUCUGUAGUCUGUCACUGAGUCCCAGCUAUCCUCUCCUUUGAAAUCAAAAGAGGAGUCUGACAGGUCAGAAAACCACCUCUCUUGCUGGUCAUCAGAGAGGCUGAACUUGGUGUCCUCGUGGUCCAGAAACUGGCUUUUGUUACAGUAGUCGUCAAAAGCAGCGUCGUCCCUGCACAGCUUUUCCUUCUUGAGCUUCUCUUUGUCCUCUCUGAAGGCCUUCUCCUU
((((((((((((((((((..(((((((((..(((((.(((.(((....).)).))).))......((.((((...(((((..((((((..((((....)))))))))).(((((....)))))..............)))))...)))).)))))..))))))....((....))))).))))))((((.(((...))).)))))))))).((((.(....).))))..(((((.........)))))................))))))......... ( -82.10)
>280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737
UUCAGAUUUUAGUCUGAUUAAAGUAUUUAGCUGGGCUUUAUCUUUACGCUUGUCUCGCUCUUUGUAUCUGUCUAUAUCCUUUUUAUCUUUCUCUUUUCCAUCUGGAGUUUUCAAAGGCUCAUCUCUUGCCCUUUCUUUAAGGGACAGAGCUUUCUCAUGCUGGGUUUUACCACUGCUGUCUCCUGUACUGGACUUUCUCUCUUCCUGCAAAUGUUUCAAGUUAGUUACAUUUACACUUUCUUUAUCUCUAAGUUUCUCCUUCUUCUCUCCUUCCCUGUCU
.((((((....))))))..((((((((((((((((((((........((.......)).....................................((((....))))......)))))))).((((..(((((.....)))))..)))).........)))))))....(((.(((........))).)))))))).........((.((((((..(......)..)))))).))............................................. ( -44.40)
>280356_SINFRUG00000125527_FUGU_4384_5074/1-737
CUCUUCUUUAACGGUCUCAACUAUAAGUUUCACAGAGUUGUUGGCUUUGUAUUCCUUGUACUCUUUGACAGGAGUGUCCCAGCUGUCGUCUCCAUAAAGGGAGGAGUCGGAUGACAUCUCUGAACCCCAUCUGUCAUGAUGGUCAUCUGAGGCACUGAGUUUUGUGUCCUCCAUGUUGAGAAAGCGGUUGUUGUCAUAGCUUUCAUACUCUGACUCCUCUUUCUGUGCUUUAUCUUUUUUACCUUUCUCUUCUUUUGCAUUUUUCUCCUUGUCCACCU
............(((......((((((....(((((((.....)))))))....))))))......((((((((.......((.(....)..((((.((((((((((((((.(((((...(((...(((((......))))))))...(((((((........))).)))).)))))..((((((...((....))..))))))....)))))))))))))).)))).............................))......)))).)))).))). ( -71.32)
>280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737
CCCUGCUUUCCUCCUUUACUGUUUCUACAAUUAACUUGACAGCAUUAUUCGCUUUGUAUUCUUUAACCGGGGUAUCCCAGCUAUCAUCUCCAUACAAUGAACUGUCAGAAGACAUAUCCGACUGCCACCGAUCAUGGGGGUCAUCUGAUGCACUCAUCUUGGUGUCUUCAAGUAAGUGAUUUUUUAAGUCAAAGUCGUCAUAGUCAGGUUCCUCCUUGAUGCUUUUAUCCCUCUUAGACUUUUCCUUCUCUUCUUUGACACUUUUCUCAGAUU
..(((......((.((((((................((((((........(((..(((((((......)))))))...)))..((((.........)))).))))))((((((((....((((.(((.......))).))))....((((....))))...)))))))).)))))).))........(((((((..(....(((((((.....))).((((....)))).......)))).........)..)))))))........)))... ( -54.92)
>280356_ENSG00000183788_HUMAN_879_1577/1-737
UCCCGUUGCUCAUCUUCACUGGGUCGCCCUUUUCUUUCUCUGCACCGUCCUUGAAUUUCUCCUUCAGUUUGGCAUCGCCGAGCCUCGGGCCCUCGUCCCUGGACUUGUCUUUGAGCACGCGGGGCGGGCUGUCCUUGUCCCUGGUGGCGGGCUUCUNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGCCCAUCCGCAUGCCUGUCCCGGUGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
...(((.(((((....((..(((..((((......................((((.......))))(((((((...)))))))...)))).)))(((....))).))....))))))))(((((((((((((((........)).((.(((((..................................................)))))..))))).))))))))))............................................................ ( -61.56)
>consensus
CUCUGCUUUUA__GUCU__UCACUGUAUCUACCACUACUUUGUCAGCA_UU__CUUGUCUUUGUACUCUGUAACUGGA_AUAUCC_CAGC_____UAUCUUCUCCAUAGAAUG___AAGUGUCAGAAGACAGAUC_GAAUGCCAUCGUUCAUGAUGGUCAUCUGAUGCACUGA_CUUGGUGU_CUCCAUG_C_AGAAA_CGGUUUUUGUCAUAG__UCGUCAUACACAGG__UUCCUCGU_UCGGUAC_UUUAU_CCUUCUUGACCUUCUCUUCUCUCCCUCUUCACUCCUUCUC__CCU
....................................................................................................................................(((.((..((((((......))))))..)).)))...................................................................................................................................... ( -4.74 =  -4.46 +  -0.28) 

280356_6-rev.rnaz

RNAalifold consensus structure

PS | PDF	PS | PDF