Structure #110192

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	+
Position	178,412,571 - 178,412,685
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	81.53
Columns	120
Mean single MFE	-35.36
Consensus MFE	-24.86
Combinations/base pair	38 / 28 = 1.36
SCI	0.7
z-score	-1.92
RNA class probability	0.82369

This structure is part of cluster 58284

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.53
 Mean single sequence MFE: -35.36
 Consensus MFE: -24.86
 Energy contribution: -24.18
 Covariance contribution:  -0.68
 Mean z-score:  -1.92
 Structure conservation index:   0.70
 SVM decision value:   0.69
 SVM RNA-class probability: 0.823690
 Prediction: RNA

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>hg17.chr2/178412571-178412685
AAAGGGAAUGACCCAUAACUCAUGAAUGGCAGCGCUUAAAGUGAGUUAUGGAGGUUACUCUCCUGUGAGAGGAAAUGGAUUGGAUUAUCCUUCUGCCCAAUUGUAUGUUUGGUU
...(((...((.(((((((((((....(((...)))....)))))))))))......(((((....))))).....((((......)))).))..)))................ ( -33.20)
>canFam1.chr36/24561150-24561264
GAAGGGAAUGACCCAUAACUCAUGAAUGGCAGCGCUUAAAGUGAGUUAUGGAGGUUACUCUCCUGUGUGAGGAAAUGGAUUGGAUUAUCCUUCUGCCCAAUUGUAUGUUUGGUU
(((((((.(((((((((((((((....(((...)))....))))))))))..))))).))((((.....))))...............)))))...((((........)))).. ( -33.10)
>mm5.chr2/75962500-75962614
GAGAGGAAUGACCCAUAACUCACGAACGGUGAUGCUUAAAGUGAGUUAUGGAGGUUACUCUCCUGUGAGAGGAAAUGGAUUGGACGAUCCUUCUGCCCCGUUGUAUGUUUGGUU
.(((.(.(..(((((((((((((....((.....))....))))))))))).(((..(((((....))))).....(((((....)))))....)))..))..).).))).... ( -33.20)
>rn3.chr3/58633436-58633550
GCGAGGAAUGACCCAUAACUCAUGAACGUCGACGUUCAAAGUGAGUUAUGGAGGUUACUCUCCUGCGAGGGGAAAUGGAUUGGACGAUCCUUCUGCCCCACUGUAUGUUUGGUU
((.((((.((((((((((((((((((((....))))))...)))))))))..)))))...))))))..((((....(((((....))))).....))))............... ( -42.80)
>galGal2.chr7/20894510-20894391
AAAAAAAACGACCCAUAACUCACGAGUGGCAGAGUCUGCAGUGAGUUAUGGAGGUCAUUCUCUCGUGUGAGGAAAUGAAUUGCAUUUGUUAUAUCUUGCUCCACAUUACAUGUUUUGUU
....((((((..(((((((((((.....((((...)))).))))))))))).(((((((..(((....)))..)))))...(((............))).))........))))))... ( -34.50)
>consensus
GAAAGGAAUGACCCAUAACUCAUGAAUGGCAGCGCUUAAAGUGAGUUAUGGAGGUUACUCUCCUGUGAGAGGAAAUGGAUUGGAU______UAUCCUUCUGCCCCAUUGUAUGUUUGGUU
..(((((.(((((((((((((((....(((...)))....))))))))))..)))))(((((....)))))......................)))))...................... (-24.86 = -24.18 +  -0.68) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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