Structure #170228

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	+
Position	61,948,571 - 61,948,689
Number of sequences	3
Organisms	human, mouse, rat, dog
Mean pairwise identity	87.39
Columns	119
Mean single MFE	-37.52
Consensus MFE	-28.49
Combinations/base pair	34 / 31 = 1.10
SCI	0.76
z-score	-2.03
RNA class probability	0.588675

This structure is part of cluster 94490

Alignment

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RNAz output

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

 Sequences: 3
 Slice: 1 to 119
 Columns: 119
 Strand: +
 Mean pairwise identity:  87.39
 Mean single sequence MFE: -37.52
 Consensus MFE: -28.49
 Energy contribution: -29.16
 Covariance contribution:   0.67
 Mean z-score:  -2.03
 Structure conservation index:   0.76
 SVM decision value:   0.11
 SVM RNA-class probability: 0.588675
 Prediction: RNA

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

>hg17.chr7/61948571-61948689
UUCCUGGGCUUUCAAACCCGAGCAGUUUGAUAAGCUGGGACCAAAGUCUUCUUUCUGCCCAGCAAGUAAAGCAAACAGGGCCACUCACUAACCCCAGCCCUGGCCUCUGGUGCCAUCU
......(((......(((.((((.((((.....((((((...((((....))))...)))))).....))))...((((((...............))))))).))).)))))).... ( -36.06)
>mm5.chr14/55314641-55314760
UUCCUGGGCUUUCAAACUCAGGGCAGUUUGAUAAGCUGAGACCAAAGUCCCCUUUCCUCCCAACAAGGAGAGCAAACAGGGCUACUCACUAAUCCCAACCCUGGCCUCCAGGGCCGUUU
...((.((((((((((((......))))))).))))).)).....(((((..(((.(((((.....)).))).)))..)))))...............((((((...))))))...... ( -36.30)
>canFam1.chr25/29285627-29285746
UUCCUAGGCUUUCAAACCCGGGGCAGUUUGAUAAGCUGAGACCAAAGUCCUCUUUCCUUCCAGCAAGGAGAGCAAACAGGGCCACUCGCUAAUCCCAGCCCUGGCCUCUGGGGCCGUCU
......((((((.....(((((((.....(((.(((.(((......(((((((((((((.....)))))))).....)))))..)))))).)))...))))))).....)))))).... ( -40.20)
>consensus
UUCCUGGGCUUUCAAACCC_GGGCAGUUUGAUAAGCUGAGACCAAAGUCCUCUUUCCUCCCAGCAAGGAGAGCAAACAGGGCCACUCACUAAUCCCAGCCCUGGCCUCUGGGGCCGUCU
...((.(((((((((((........)))))).))))).))......((...(((((((.......)))))))...))(((((...............)))))((((.....)))).... (-28.49 = -29.16 +   0.67) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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