Structure #44292

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	+
Position	3,231,826 - 3,231,940
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	72.1
Columns	120
Mean single MFE	-42.88
Consensus MFE	-24.99
Combinations/base pair	31 / 25 = 1.24
SCI	0.58
z-score	-1.61
RNA class probability	0.655726

This structure is part of cluster 22010

Alignment

[Download Clustal]

RNAz output

	  
###########################  RNAz 0.1.1  #############################

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  72.10
 Mean single sequence MFE: -42.88
 Consensus MFE: -24.99
 Energy contribution: -25.18
 Covariance contribution:   0.19
 Mean z-score:  -1.61
 Structure conservation index:   0.58
 SVM decision value:   0.25
 SVM RNA-class probability: 0.655726
 Prediction: RNA

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

>hg17.chr12/3231826-3231940
GCAGGUGUGUGCACAGGCCUGUGUGAGCGGGUGCUCUCUCCGGGGCCAGGGAGAAAUCCCAGCCCCUGGGCUCCCCCCAGCCCCAUGCCCUUAUAUAGCCGUCCCUGCACUCCC
((((((((....)))(((.((((((((.(((((........(((((..((((....)))).))))).(((((......)))))))).)))))))))))))...)))))...... ( -52.30)
>mm5.chr6/21081820-21081716
GCAGGUGCACACUGUGAGCUUCUGCUGGGGCCAGGAGAAACCCCAGCCCCCUGGGCUCCCCCCUAGUCCCAUGCCCUUAUAUGGCUGUCCUUAUAUAGCUGCCC
(((((.(((.......(((....)))(((((.(((.(....(((((....)))))....).))).))))).)))))).....((((((......)))))))).. ( -34.70)
>rn3.chr4/22680984-22680880
GCAGGUGCACUCUGUGGGUUCCUACUGGGGCCAGGAGAAACCCCAGCCCCCUGGGCUCCCCCUUAGUCCCAUGCCCUUAUAUGGUUGUCCUUAUAUAGCUGCCC
(((((.(.(((..(.(((..((((..(((((..((......))..))))).))))..))).)..))))))..((...((((.((....)).))))..))))).. ( -33.70)
>canFam1.chr27/4537755-4537640
GCAGGUGUGUGCACAUGCCUGCGUGCGUGUGAGCUCUUGCCGGGGCCGGGCAGAAAUCCCAGCCCCCUGGGCUCCCCCCAGCCCCAUGCCCUUGUAUAGCUGUCCCCAUGCUCUC
(((((((((....)))))))))(.(((((.((((((.....(((((.(((.(....)))).)))))..))))))....((((...((((....)))).))))....))))).).. ( -50.80)
>consensus
GCAGGUGCACGC_________UGUGAGCGUCUGCU______GGGGCCA_GGAGAAACCCCAGCCCCCUGGGCUCCCCCC_AGCCCCAUGCCCUUAUAUAGCUGUCCCUAUA____CGCCC
..(((.(((...............((((....)))).....(((((..(((((....(((((....)))))))))).....))))).))))))........................... (-24.99 = -25.18 +   0.19)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]