Structure #1390

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr22
Strand	+
Position	18,488,478 - 18,488,534
Number of sequences	6
Organisms	human, mouse, rat, dog, chicken, fugu, zebrafish
Mean pairwise identity	72.53
Columns	59
Mean single MFE	-22.71
Consensus MFE	-16.44
Combinations/base pair	28 / 16 = 1.75
SCI	0.72
z-score	-4.53
RNA class probability	0.976224

This structure is part of cluster 64435

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 59
 Columns: 59
 Strand: +
 Mean pairwise identity:  72.53
 Mean single sequence MFE: -22.71
 Consensus MFE: -16.44
 Energy contribution: -15.26
 Covariance contribution:  -1.19
 Mean z-score:  -4.53
 Structure conservation index:   0.72
 SVM decision value:   1.77
 SVM RNA-class probability: 0.976224
 Prediction: RNA

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>hg17.chr22/18488478-18488534
GCAGACUCACUCUGCAUCUGACUAUACUUCCAGGCGGGUGCUUUUUCUGUCUGCCA
((((((.......(((((((.((........)).))))))).......)))))).. ( -19.84)
>mm5.chr16/80784111-80784055
GCAGAUUCACUCUGCACCUGGCUGCAGCUCCAGUCUGGUGCUUUUUCCAUCUGCCA
((((((.......(((((.(((((......))))).))))).......)))))).. ( -23.14)
>canFam1.chr26/9779046-9778990
GCAGACUCACUCUGCAUCCGGCUGCAGCCCCAGGCGGGUGCUUUUUCCGUCUGCCA
((((((.......(((((((.(((......))).))))))).......)))))).. ( -26.54)
>galGal2.chr15/1292179-1292237
GCAGACUCACUCUGUACUGAACUGCAGUCUUCAGUUCAGGUGCUUUUUCUGUCUGCAA
((((((.......(((((((((((.......))))))).)))).......)))))).. ( -22.84)
>fr1.chrUn/277631214-277631157
GCGGGCCCACUCUGUUCCUUGCUGCUCACUCCAGCCUGGAACUUUUUUCGCCUGCUA
((((((.......(((((..((((.......))))..))))).......)))))).. ( -23.34)
>danRer1.chr5/3207032-3207089
GCAGACUCACUCUGUGUAAGGCAGAUACCUCCAGCCUUAGACUUUUUCUGUCUGCUA
((((((.......((.((((((.((....))..)))))).)).......)))))).. ( -20.54)
>consensus
GCAGACUCACUCUGCACCUGGCUG_CAC_CUCCAG_CCUGGUGCUUUUUCCGUCUGCCA
((((((.......(((((.(((((........))).)).))))).......)))))).. (-16.44 = -15.26 +  -1.19)

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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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