Structure #48195

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	-
Position	53,362,823 - 53,362,937
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	79.94
Columns	120
Mean single MFE	-39.32
Consensus MFE	-21.36
Combinations/base pair	34 / 29 = 1.17
SCI	0.54
z-score	-2.4
RNA class probability	0.821348

This structure is part of cluster 24036

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  79.94
 Mean single sequence MFE: -39.32
 Consensus MFE: -21.36
 Energy contribution: -23.43
 Covariance contribution:   2.06
 Mean z-score:  -2.40
 Structure conservation index:   0.54
 SVM decision value:   0.68
 SVM RNA-class probability: 0.821348
 Prediction: RNA

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

>hg17.chr12/53362937-53362823
AAAACCAGAGGGAACCCAGCAGGGAUUGUGGCCAUUUAGGACAUUUCAGGACACAAUGACCUCCUGAGUUCCUGGAAUCUCAGCAGGGAAUAGGAACUCUUGUGUCCUUCAUAC
.......((((((....((.(((.((((((.((...............)).))))))..))).))(((((((((...((((....)))).))))))))).....)))))).... ( -36.26)
>mm5.chrUn_random/17694774-17694889
AAAACCAGAUGCAACCAGGCCAAGGGGUUGUGCCCAUUGGAACAUUUCAGAACACAAGGGCUUCCUGCGGUUCCUGGAAUUUCACCAGGGAACAGGAGCCCUGUGUCCUUCACAC
................(((((((.(((.....))).))))...........(((((.(((((.((((...(((((((.......))))))).)))))))))))))))))...... ( -42.40)
>rn3.chr7/142634325-142634210
AGAACCAGAUGCAACCAGGUGGGGGUAGGGUGCCCAUUGGAACAUUUCAGAACACAAGGGCCUCCUGUAGUUCCUGGAAUUUCAGCAGGGAACAGGAGCCCUGUGUCCUUCACAC
.((.((((.(((..((....))..)))((....)).))))........((.(((((.((((.((((((..((((((.........))))))))))))))))))))).)))).... ( -41.20)
>canFam1.chr27/45401044-45401157
AAAACCAGAGGGAACCAAGCGUUUGUGGCCCGUUUGGGACAUUUCAGGAUACAAAGGCCUCCCAAGGUUCCUGGAAUCUCAGCAGAGAACACAAACCCUAGUGUCCUUCACAC
.......((((((..(.((.(((((((.(((....)))...((((((((.......((((....))))))))))))((((....)))).))))))).)).)..)))))).... ( -37.41)
>consensus
AAAACCAGAGGCAACCAAGC__AGGGGU__UGUGCCC_AUU_GGAACAUUUCAGAACACAAGGGCCUCCUG_AGUUCCUGGAAUCUCAGCAGGGAACAGGAACCCU_GUGUCCUUCACAC
...............................(((.........(((...)))(((((((.(((((.(((((...((((((.........)))))).)))))))))).))))))).))).. (-21.36 = -23.43 +   2.06)

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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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