Index >

Results for CNB 376858_6-rev

Input Alignment

CLUSTAL W(1.81) multiple sequence alignment


376858_SINFRUG00000142471_FUGU_3228_3898/1-798     GTTGCTTCCCGGCAGC-AA-CAGATACTCACGTCATTCACTTGCTGTTCCAGTTTGGACT
376858_ENSRNOG00000002987_RAT_2681_3395/1-798      GTTTCAGGAGGGCATTTGA-AACATGCTCACATCATCCACTTGCTGTTCGAGCTTGGTTT
376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798 AATTTACTTCCATGTTTAATGAAGAGCTCACATCATCAACTTGCTGCTCAAGCTTTGTCT
376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798    ACTTCAGAAGGCCATCTGA-ACCGTGCTTACGTCATCCACTTGCTGTTCCAGCTTGGTTT
                                                   . *  :       .   .*  . .:.** **.**** .******** ** ** ** *: *


376858_SINFRUG00000142471_FUGU_3228_3898/1-798     TGGCTTTGGTCAAGGTGTTGACCTTATCTTCCTCAGCCTGAAGGTCATCCAGAACCTGCT
376858_ENSRNOG00000002987_RAT_2681_3395/1-798      TGGCTTTGGTCAGGGTGTTGACTTTGTCCTCCTCTGCCTGCAGGTCATCCAGGGTCTGCT
376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798 TGGATTTGGTCAGGGTGTTGACTTTGTCCTCCTCAGCCTGAAGATCATCCAGAGTCTGCT
376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798    TGGCTTTGGTCAGGGTGTTGACTTTGTCCTCCTCTGCCTGCAGGTCATCCAGGGTCTGCT
                                                   ***.********.********* **.** *****:*****.**.********.. *****


376858_SINFRUG00000142471_FUGU_3228_3898/1-798     GATGGGCTTCCTGAAGGGCTCTCTTTTCCTTTGTCAGTTTGCCAATGTTCTCATCCTGAC
376858_ENSRNOG00000002987_RAT_2681_3395/1-798      GGTGGGCCTCCTGCAAGGCCTTCTTCTCCTTGGTCAGCTTGGCGATGGTTTCGTCCAGGC
376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798 GATGTGCCTCTTGGAGGGCTTTCTTCTCCTTTGTAAGCTTGGCAATGCTCTCATCTTGAG
376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798    GGTGGGCCTCCTGGAGGGCCTTCTTCTCCTTGGTCAGCTTGGCGATATTTTCATCCAGGC
                                                   *.** ** ** ** *.***  **** ***** **.** *** *.**. * **.** :*. 


376858_SINFRUG00000142471_FUGU_3228_3898/1-798     CACTCAGCTCGTCCATTAGATTTTTCA----TCTGC--AG-----ACAGACAC-------
376858_ENSRNOG00000002987_RAT_2681_3395/1-798      CCGCCATCTCCTCTGTGAGGTTTTTCACCT-TAGGA--AG----CAAACACACTTTG---
376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798 ATGCCATTTCCTCTGTCAAGTTCTTGACCTGTGTGATTTGATTTCAAATACACTTAGNNN
376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798    CTGCCATCTCCTCTGTCAGGTTTTTCACCT-TGGGA--AG----CAAACGTGCTTTG---
                                                   .   **  ** ** .* *..** ** *    *  *.  :*     *.* . .*       


376858_SINFRUG00000142471_FUGU_3228_3898/1-798     ------------------------------------------------------------
376858_ENSRNOG00000002987_RAT_2681_3395/1-798      --------------------------------------------------------CATT
376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798    --------------------------------------------------------CATT
                                                                                                               

376858_6-rev.aln

RNAz output

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

 Sequences: 4
 Columns: 300
 Mean pairwise identity:  64.92
 Mean single sequence MFE: -71.95
 Consensus MFE: -33.39
 Energy contribution: -34.45
 Covariance contribution:   1.06
 Mean z-score:  -1.78
 Structure conservation index:   0.46
 SVM decision value:   0.54
 SVM RNA-class probability: 0.776250
 Prediction: RNA

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

>376858_SINFRUG00000142471_FUGU_3228_3898/1-798
GUUGCUUCCCGGCAGCAACAGAUACUCACGUCAUUCACUUGCUGUUCCAGUUUGGACUUGGCUUUGGUCAAGGUGUUGACCUUAUCUUCCUCAGCCUGAAGGUCAUCCAGAACCUGCUGAUGGGCUUCCUGAAGGGCUCUCUUUUCCUUUGUCAGUUUGCCAAUGUUCUCAUCCUGACCACUCAGCUCGUCCAUUAGAUUUUUCAUCUGCAGACAGACAC
((((((....))))))....(((......))).......(((((((.(((..(((((..((((.((((((.((((..(((........(.(((((....((((........))))))))).)(((...((((((((........))))...))))...)))...)))..)))).))))))...)))).)))))...((....))..)))..))))).)). ( -59.30)
>376858_ENSRNOG00000002987_RAT_2681_3395/1-798
GUUUCAGGAGGGCAUUUGAAACAUGCUCACAUCAUCCACUUGCUGUUCGAGCUUGGUUUUGGCUUUGGUCAGGGUGUUGACUUUGUCCUCCUCUGCCUGCAGGUCAUCCAGGGUCUGCUGGUGGGCCUCCUGCAAGGCCUUCUUCUCCUUGGUCAGCUUGGCGAUGGUUUCGUCCAGGCCCGCCAUCUCCUCUGUGAGGUUUUUCACCUUAGGAAGCAAACACACUUUGCAUU
.....(((((((((.(..((((..(((((((.((......)).)))..))))...))))..)....((((((....)))))).)))))))))..(((.((((..(......)..)))).)))((((((......)))))).....(((.((((..(((((((((.....))).))))))..)))).........((((((.....))))))))).(((((.....)))))... ( -82.60)
>376858_ENSDARG00000014514_ZEBRAFISH_217_1012/1-798
AAUUUACUUCCAUGUUUAAUGAAGAGCUCACAUCAUCAACUUGCUGCUCAAGCUUUGUCUUGGAUUUGGUCAGGGUGUUGACUUUGUCCUCCUCAGCCUGAAGAUCAUCCAGAGUCUGCUGAUGUGCCUCUUGGAGGGCUUUCUUCUCCUUUGUAAGCUUGGCAAUGCUCUCAUCUUGAGAUGCCAUUUCCUCUGUCAAGUUCUUGACCUGUGUGAUUUGAUUUCAAAUACACUUAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
..........(((.....)))(((((..(((((((.(((((((((.....))).......(((((....(((((.((..((........))..)).))))).....))))))))).)).))))))).)))))(((((((((.(.........).)))).(((((....((((.....)))))))))...)))))(((((....)))))..(((((.((((....)))))))))................................................................... ( -66.00)
>376858_ENSMUSG00000055724_MOUSE_2723_3438/1-798
ACUUCAGAAGGCCAUCUGAACCGUGCUUACGUCAUCCACUUGCUGUUCCAGCUUGGUUUUGGCUUUGGUCAGGGUGUUGACUUUGUCCUCCUCUGCCUGCAGGUCAUCCAGGGUCUGCUGGUGGGCCUCCUGGAGGGCCUUCUUCUCCUUGGUCAGCUUGGCGAUAUUUUCAUCCAGGCCUGCCAUCUCCUCUGUCAGGUUUUUCACCUUGGGAAGCAAACGUGCUUUGCAUU
.......(((((((...((((((.(((.(((.((......)).)))...))).)))))))))))))..((((((((..(((((.(((((((((..((.((((..(......)..)))).))..))......)))))))...........((((..((((((.((.....))..))))))..))))...........)))))...))))))))((((((....))))))..... ( -79.90)
>consensus
AUUUCAGAACGGCAUCUAA_AACAUGCUCACAUCAUCCACUUGCUGUUCCAGCUUGGUCUUGGCUUUGGUCAGGGUGUUGACUUUGUCCUCCUCAGCCUGAAGGUCAUCCAGAGUCUGCUGAUGGGCCUCCUGGAGGGCCUUCUUCUCCUUGGUCAGCUUGGCAAUGUUCUCAUCCAGACCUGCCAUCUCCUCUGUCAGGUUUUUCACCU_UGGGA__AG____CAAACACACUUUG_______________________________________________________________
.........................(((.((.....(((...(((.....))).)))....(((...((.((((((....)))))).))......))).(((((((.(((((((...((......)).))))))).))))))).........)).))).(((((..((((.......))))))))).................................................................................................................. (-33.39 = -34.45 +   1.06) 

376858_6-rev.rnaz

RNAalifold consensus structure

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