Index >

Results for CNB 280356_5-rev

Input Alignment

CLUSTAL W(1.81) multiple sequence alignment


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       T--GATGTCTCTGTAGTCTGTCACT-GA---GTCC-CAGC-----TATCCTCTCCTTTGA
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     G--CTTGTCTCGCTCTT-TGTATCTGTCTATATCCTTTTTATCTTTCTCTTTTCCAT---
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      T--GTATTCCTTGTACTCTTTGACAGGA-GTGTCC-CAGC-----TGTCGTCTCCATAAA
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 T--ATTCGCTTTGTATTCTTTAACCGGG-GTATCC-CAGC-----TATCATCTCCATACA
280356_ENSG00000183788_HUMAN_879_1577/1-737         GTCCTTGAATTTCTCCT-TCAGTTTGGC-ATCGCC-GAGCCTCGGGCCCTCGTCCCTGGA
                                                                 *  * *              **             *   *** *   


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       AATCAAAAGAGGAGTCTGACAGGTCAGAAAACCACCTCTCTTGCTGGTCATCAGAGAGGC
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     CTG---GAGTTTTCAAAGGCTCATC-TCTTGCCCTT-TCTTTAAGGGACAGAGCTTTCTC
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      GGG---AGGAGTCGGATGACATCTCTGAACCCCATCTGTCATGATGGTCATCTGAGGCAC
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 ATG---AACTGTCAGAAGACATATCCGACTGCCACCGATCATGGGGGTCATCTGATGCAC
280356_ENSG00000183788_HUMAN_879_1577/1-737         CTT---GTCTTTGAGCACGCGGGGCGGGCTGTCCTTGTCCCTGGTGGCGGGCTTCTNNNN
                                                                       *    *       *        *   **             


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       TGAACTTGGTGTCCTCGTGGTCCAGAAACTGGCTTTTGTTACAG--TAGTCGTCAAAAGC
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     ATGCTGGGTTTT-ACCACTG-CTGTCTC-CTGTACTGGACTTTCTCTCTTCCTGCAAATG
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      TGAGTTTTGTGTCCTCCATGTTGAGAAAGCGGTTGTTGTCATAG--CTTTCATACTCTGA
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TCATCTTGGTGT-CTTCAAG-TAAGTGA-TTTTTTAAGTCAAAG--TCGTCATAGTCAGG
280356_ENSG00000183788_HUMAN_879_1577/1-737         NNNNNNNNNNNN-NNNNNNN-NNNNNNN-NNNNNNNNNNNNNNNNCAGCCCATCCGCATG
                                                                                                      * *       


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       --AGCGTCGTCCCTGCACAGCTTTTCCTTCTTGAGCTTCTCTTTGTCCTCTCTGAAGGCC
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     --TTTCAAGT-TAGTTACATTTACACTTTCTTTATCTCTAAGTTTCTCCTTCTTCTCTCC
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      --CTCCTCTT-TCTGTGC-TTTAT-CTTTTTTACCTTTCTCTTCTTTTGCATTTTTCTCC
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 --TTCCTCCT-T-GATGCTTTTATCCCTCTTAGACTTTTCCTTCTCTTCTTTGACACT-T
280356_ENSG00000183788_HUMAN_879_1577/1-737         CCTGTCCCGG-TGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
                                                                                                                


280356_ENSRNOG00000027886_RAT_3595_4278/1-737       TTCTC--CTTCTCCTTGGAGA-CCTCCTTCATGTCG-TTCTTCTTTT--C-TAGCTTGAA
280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737     TTCCCTGTCTCTGTCTTTAGTTCTGACCTTCTCTGATTTGGAATACT--CACTGCTGTCA
280356_SINFRUG00000125527_FUGU_4384_5074/1-737      TTGTCCACCTTTAAATGCTTTTCCTCTTTCTGCTCA-CTTTTCCTGTCAGCCTTAGAGGA
280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737 TTCTCAGATTTAAAATGTTTTTCTTCTTTTTGCTCA-TTCTTTTTGT--CAGTTTTAAGA
280356_ENSG00000183788_HUMAN_879_1577/1-737         NNNNNNNNNNTAGGATGTTGATGGCACTAGATCCATAAGGCTTTAGTTCCTTTTCTATTT
                                                                   *                              *             

280356_5-rev.aln

RNAz output

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

 Sequences: 5
 Columns: 300
 Mean pairwise identity:  37.28
 Mean single sequence MFE: -63.12
 Consensus MFE:  -4.74
 Energy contribution:  -4.46
 Covariance contribution:  -0.28
 Mean z-score:  -1.91
 Structure conservation index:   0.08
 SVM decision value:   0.18
 SVM RNA-class probability: 0.619546
 Prediction: RNA

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

>280356_ENSRNOG00000027886_RAT_3595_4278/1-737
UGAUGUCUCUGUAGUCUGUCACUGAGUCCCAGCUAUCCUCUCCUUUGAAAUCAAAAGAGGAGUCUGACAGGUCAGAAAACCACCUCUCUUGCUGGUCAUCAGAGAGGCUGAACUUGGUGUCCUCGUGGUCCAGAAACUGGCUUUUGUUACAGUAGUCGUCAAAAGCAGCGUCGUCCCUGCACAGCUUUUCCUUCUUGAGCUUCUCUUUGUCCUCUCUGAAGGCCUUCUCCUUCUCCUUGGAGACCUCCUUCAUGUCGUUCUUCUUUUCUAGCUUGAA
(((((.((((((((.......((((...(((((..((((((..((((....)))))))))).(((((....)))))..............)))))...))))(((((((....((((...((....)).)))).....))))))).)))))).)).)))))...((((.(....).))))..............(..((((..............(((((((...(((((........)))))...)))))).)...............))))..). ( -78.15)
>280356_ENSMUSG00000034647_MOUSE_1056_1743/1-737
GCUUGUCUCGCUCUUUGUAUCUGUCUAUAUCCUUUUUAUCUUUCUCUUUUCCAUCUGGAGUUUUCAAAGGCUCAUCUCUUGCCCUUUCUUUAAGGGACAGAGCUUUCUCAUGCUGGGUUUUACCACUGCUGUCUCCUGUACUGGACUUUCUCUCUUCCUGCAAAUGUUUCAAGUUAGUUACAUUUACACUUUCUUUAUCUCUAAGUUUCUCCUUCUUCUCUCCUUCCCUGUCUCUGUCUUUAGUUCUGACCUUCUCUGAUUUGGAAUACUCACUGCUGUCA
.........((.....((((...((((.(((.................((((....))))......((((...........(((((.....))))).(((((((....((.((.(((.....(((.(((........))).)))..............((.((((((..(......)..)))))).)).....................................))).))...)).....))))))).))))....))).)))))))).....))..... ( -42.60)
>280356_SINFRUG00000125527_FUGU_4384_5074/1-737
UGUAUUCCUUGUACUCUUUGACAGGAGUGUCCCAGCUGUCGUCUCCAUAAAGGGAGGAGUCGGAUGACAUCUCUGAACCCCAUCUGUCAUGAUGGUCAUCUGAGGCACUGAGUUUUGUGUCCUCCAUGUUGAGAAAGCGGUUGUUGUCAUAGCUUUCAUACUCUGACUCCUCUUUCUGUGCUUUAUCUUUUUUACCUUUCUCUUCUUUUGCAUUUUUCUCCUUGUCCACCUUUAAAUGCUUUUCCUCUUUCUGCUCACUUUUCCUGUCAGCCUUAGAGGA
.....(((((.......((((((((((((...(((..........((((.((((((((((((((.(((((...(((...(((((......))))))))...(((((((........))).)))).)))))..((((((...((....))..))))))....)))))))))))))).)))).............................((((((..................))))))...........)))..)))...))))))))).....))))) ( -75.67)
>280356_ENSDARG00000015393_ZEBRAFISH_5389_6069/1-737
UAUUCGCUUUGUAUUCUUUAACCGGGGUAUCCCAGCUAUCAUCUCCAUACAAUGAACUGUCAGAAGACAUAUCCGACUGCCACCGAUCAUGGGGGUCAUCUGAUGCACUCAUCUUGGUGUCUUCAAGUAAGUGAUUUUUUAAGUCAAAGUCGUCAUAGUCAGGUUCCUCCUUGAUGCUUUUAUCCCUCUUAGACUUUUCCUUCUCUUCUUUGACACUUUUCUCAGAUUUAAAAUGUUUUUCUUCUUUUUGCUCAUUCUUUUUGUCAGUUUUAAGA
.....(((..(((((((......)))))))...))).................((((((.((((((((((....((((.(((.......))).))))....((((....))))...))))))))(((.(((.(((.((((((((((((((.((((..((((((......))))))...............(((........)))......))))))))).....))))))))).)))...))))))...............)).))))))..... ( -54.40)
>280356_ENSG00000183788_HUMAN_879_1577/1-737
GUCCUUGAAUUUCUCCUUCAGUUUGGCAUCGCCGAGCCUCGGGCCCUCGUCCCUGGACUUGUCUUUGAGCACGCGGGGCGGGCUGUCCUUGUCCCUGGUGGCGGGCUUCUNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAGCCCAUCCGCAUGCCUGUCCCGGUGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNUAGGAUGUUGAUGGCACUAGAUCCAUAAGGCUUUAGUUCCUUUUCUAUUU
....(((((.......))))).(..((((((.((((((..((((....))))..)).)))).).....((((.(((((((((((((((........)).((.(((((..................................................)))))..))))).))))))))))))))...........................................................)))))..).((.((((((.((....)).)))))).)).......... ( -64.76)
>consensus
U__CUUGUCUUUGUACUCUGUAACUGGA_AUAUCC_CAGC_____UAUCUUCUCCAUAGAAUG___AAGUGUCAGAAGACAGAUC_GAAUGCCAUCGUUCAUGAUGGUCAUCUGAUGCACUGA_CUUGGUGU_CUCCAUG_C_AGAAA_CGGUUUUUGUCAUAG__UCGUCAUACACAGG__UUCCUCGU_UCGGUAC_UUUAU_CCUUCUUGACCUUCUCUUCUCUCCCUCUUCACUCCUUCUC__CCUUUAAAUGUUGUUCCUCCUUCAUCUCA_UUCUUCUUGU__CACUUCUAGGA
..................................................................................(((.((..((((((......))))))..)).)))........................................................................................................................................................................................ ( -4.74 =  -4.46 +  -0.28) 

280356_5-rev.rnaz

RNAalifold consensus structure

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