Structure #170968

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	+
Position	72,754,002 - 72,754,119
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	80.97
Columns	120
Mean single MFE	-49.32
Consensus MFE	-38.88
Combinations/base pair	46 / 36 = 1.28
SCI	0.79
z-score	-1.81
RNA class probability	0.841935

This structure is part of cluster 94898

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  80.97
 Mean single sequence MFE: -49.33
 Consensus MFE: -38.88
 Energy contribution: -39.38
 Covariance contribution:   0.50
 Mean z-score:  -1.81
 Structure conservation index:   0.79
 SVM decision value:   0.75
 SVM RNA-class probability: 0.841935
 Prediction: RNA

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>hg17.chr7/72754002-72754119
CAGCCCAGCCUAGGGCCGCCCGCCUGGCUGGGGCUGCCUCAUGCCUCUGCUAUGCUCUCCCCACAACCCCCAGGGAGGGGGGCUGGCCCCAGCCCCGAUGAUUCAGGCCCCCUGACA
.....(((....(((((....((.((((.(((((........))))).)))).))((((((...........))))))(((((((....))))))).........))))).)))... ( -53.00)
>mm5.chr5/16902024-16901910
CAGCCCAGCCUGGGGCUGCUUGCCUGGGCUUGGGUACUGUCUCAUGCAUUUGCUAUGUCUUCUCUCCCCCAGGAGGGGGCUGGCCACAGUCUGGAUGAUUCAGGUCUCCUGACA
..((((((((..((.(.....)))..))).))))).(((..((((.((.............((((((....))))))(((((....))))))).))))..)))(((....))). ( -46.80)
>rn3.chr12/22765101-22765215
CAGCCCAGCCUGGGGCCGCUUGCCUGGGCUUGGGUACUGUCUCAUGCAUUUGCUAUGUCUUCUCUCCCCCAGGAGGGGGCUGGCCCUAGCCUGGAUGAUUCAGGUCUCCUGACA
((..((((.((((((((((((.((((((...(((....(...(((((....)).))).)..)))...))))))...)))).)))))))).)))).))..(((((...))))).. ( -48.70)
>canFam1.chr6/69923951-69923843
CAGCCCAGUCCAGGGCCGCCUGCCUGGCCCGGGCUGCCUCAUACCUCUGCUAUGCUCUCCCCCCGGGAGGGGGCUGGCCCUGGCCCCGAUGAUUCAGGCCCCCUGACA
.......(((.((((..((((....((((.((((((((((........((...)).(((((...)))))))))).))))).))))..((....)))))).))))))). ( -48.80)
>consensus
CAGCCCAGCCUAGGGCCGCCUGCCU_GGCUUGGG__CUGCCUCAUGCAUCUGCUAUGCCCUCUCU____CCCCCAGG__AGGGGGCUGGCCCCAGCCCCGAUGAUUCAGGCCCCCUGACA
((..((((.((((((((((((.(((...((((((...........((((.....)))).............))))))..))))))).)))))))).)))).))..(((((...))))).. (-38.88 = -39.38 +   0.50)

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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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