Structure #127693

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr3
Strand	+
Position	109,226,762 - 109,226,881
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	83.38
Columns	120
Mean single MFE	-40.9
Consensus MFE	-23.75
Combinations/base pair	38 / 28 = 1.36
SCI	0.58
z-score	-2.05
RNA class probability	0.563046

This structure is part of cluster 70083

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.38
 Mean single sequence MFE: -40.90
 Consensus MFE: -23.75
 Energy contribution: -22.62
 Covariance contribution:  -1.12
 Mean z-score:  -2.05
 Structure conservation index:   0.58
 SVM decision value:   0.06
 SVM RNA-class probability: 0.563046
 Prediction: RNA

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>hg17.chr3/109226762-109226881
AAAGACAUGCCCUGUGAGCAGAGCUUAAUGUAGAGGUGGAAAAAUUCAUCACGCAGGAGUGCUGGAGGGAAUAUUUUCUUCUCUUUGUGGCUCCAGAGAGCACAGUGUGUUCUGUCGAG
...(((((((((((((.(((........)))...((((((....)))))).)))))).((((.((((..(....)..))))((((((......)))))))))).)))))))........ ( -35.50)
>mm5.chr16/48959663-48959545
GAAGCCAUGCCCUAUACAGGGAGUUUUAUGUAGAGGUGGAAAAUUCAUCAUCCAGGAGUGUGGGAGGGAAUAUUUCCUCCCCUUUGUGGCUUCAGAGAGCACAGUGUGCUCUGCCGAG
((((((((.((((....)))).............((((((...)))))).....((((...((((((((....))))))))))))))))))))..(((((((...)))))))...... ( -43.20)
>rn3.chr11/52134528-52134646
AAAGCCAUGCCCUAUACAGGGAGUUUUAUGUAGAGGUGGAAAACUCAUCAUACGGGAGUGUGGGAGGGAAUAUUUCCUCCCCUUUGUGGCUCCAGAGAGCACAGUGUGCUCUGCCGAG
..((((((.((((....))))..........(((((.(((...(((.((((((....)))))))))(((.....)))))))))))))))))....(((((((...)))))))...... ( -43.10)
>canFam1.chr33/16368456-16368576
AAAGACAAGCCCUAUAAGCAGGGUUUUAUGUCGAGGGGGAAGAAUUUAUCAUGCAGGGAUAUUGGAGGGAAUAUUUUCUCCCCCUUUGUGGCUCCAGAGGGCACAGUGUGCCUUGUCGAG
...((((((((((......))))))...))))((((((((.(((..((((.(.(((.....))).)..).)))..))))))))))).....(((.(.(((((((...))))))).).))) ( -41.80)
>consensus
AAAGACAUGCCCUAUAAACAGAGUUUUAUGUAGAGGUGG_AAAAUUCAUCAUGCAGGAGUGUGGGAGGGAAUAUUUCCU_CCCCUUUGUGGCUCCAGAGAGCACAGUGUGCUCUGCCGAG
..........(((.((((..........)))).)))........(((........(((((...((((((............))))))...)))))..(((((((...)))))))...))) (-23.75 = -22.62 +  -1.12)

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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