Structure #116862

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	21,196,730 - 21,196,846
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	65.64
Columns	120
Mean single MFE	-32.88
Consensus MFE	-14.72
Combinations/base pair	51 / 32 = 1.59
SCI	0.45
z-score	-2.4
RNA class probability	0.989825

This structure is part of cluster 61977

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  65.64
 Mean single sequence MFE: -32.88
 Consensus MFE: -14.72
 Energy contribution: -13.88
 Covariance contribution:  -0.84
 Mean z-score:  -2.40
 Structure conservation index:   0.45
 SVM decision value:   2.18
 SVM RNA-class probability: 0.989825
 Prediction: RNA

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>hg17.chr20/21196730-21196846
ACUCCUCCUAAGGAAAGACUCUUUAGCAUUCAGCAGCCGAGAUUUCAAGUCUAACUGCUUUUGGUGGUAGUUUCAUAUGUGUAUUUCAAAAAUCACCUGGAAAUCUCCAGCUCCUU
.......(((((((.....))))))).....((.(((.((((((((.((...(((((((......)))))))......(((.(((.....)))))))).))))))))..))).)). ( -25.10)
>canFam1.chr24/45560207-45560092
ACUCAUCCAGUGGAAACACACAUUAGCAUUCAGCAGCCAAGAUUUCAAGUCUAACUGCUUCUGGUAGUGGUUCUGUAUAUUUAUUUCGGAAUCAUCUGGAAAUCUCUGGCUCCUU
.........(((....)))......((.....))((((((((((((.((....(((((.....)))))(((((((...........)))))))..)).))))))).))))).... ( -32.80)
>mm5.chr2/146727866-146727981
CCUUGUCCAGUGGAAAGGCUCAUUGGCAUUCAGCAGCUAAGAUUUCAAGUCCAACUGCUUUAGGUAGUAGUUGUAGAUAUUUGCUUCUAACGCAUCUGGAAAUCUCUGGCUCCUU
...((.(((((((......)))))))))...((.((((((((((((.....((((((((......))))))))((((....(((.......)))))))))))))).))))).)). ( -33.20)
>rn3.chr3/135523048-135523163
CCUUGUCCAAUGGGAAGGCUCAUUGGCAUUCAGCAGCUAAGAUUUCAAGUCCAACUGCUUUAGGUAGUGGUUGUAGAUAUUUGCUUCAAAAGCAUCUGGAAAUCUCUGGCUCCUU
...((.((((((((....))))))))))...((.((((((((((((.....((((..((......))..))))((((....((((.....))))))))))))))).))))).)). ( -36.00)
>galGal2.chr3/105171937-105171831
AGUUCAUCUGGAAAAAGUCUCUGCGAGCUGCGCUGCGAAGUAACGCUGCAUCACAUCUGCAGCGCCUUUGUAGUUUUAAGCUCUUUCUGAGUGAUUCUGGGUUCUU
.....(((..(((..(.((.....(((((..(((((((((...(((((((.......))))))).)))))))))....))))).....)).)..)))..))).... ( -37.30)
>consensus
ACUUCUCCAGUGGAAAGACUCAUUGGCAUUCAGCAGCUAAGAUUUCAAGUCCAACUGCUU____UAGGUAGUGGUUGUAUAUAUUUGUUUCAAAAG_CAUCUGGAAAUCUCUGGCUCCUU
......(((((((......))))))).....((.((((((((((((.((....((((((.......))))))(((...........)))...........)).))))))).))))).)). (-14.72 = -13.88 +  -0.84) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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