Structure #17190

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	+
Position	157,924,073 - 157,924,202
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	84
Columns	130
Mean single MFE	-60
Consensus MFE	-51.9
Combinations/base pair	45 / 39 = 1.15
SCI	0.86
z-score	-1.48
RNA class probability	0.630632

This structure is part of cluster 7144

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 130
 Columns: 130
 Strand: +
 Mean pairwise identity:  84.00
 Mean single sequence MFE: -60.00
 Consensus MFE: -51.90
 Energy contribution: -52.96
 Covariance contribution:   1.06
 Mean z-score:  -1.48
 Structure conservation index:   0.86
 SVM decision value:   0.20
 SVM RNA-class probability: 0.630632
 Prediction: RNA

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

>hg17.chr1/157924073-157924202
UGUCGGGGCCUGGGUUUCACCGUCGCACAUGGCGGCAGCACGCGGUGAGCUGAGGCCCCCGGAGGCUCUUGCGCGCCGAAUUUCACCCGCGGCCACGGCCAAAACCGGGGGUGAUUUUCAACCAACGCC
....(((((((.((((.(((((((((.....))))).(....))))))))).))))))).((.(((........)))(((..((((((.(((............))).))))))..)))..))...... ( -61.80)
>canFam1.chr6/40575893-40576020
UGUCGGGGCCUGGGUUUCACCUCUCCACAAGGACCAGUGGGCGGUGAGCUGAGGCCCCCGGUGGCUCUGGGCGCCGAAUCUCACCCGCGGCCACGGGCAGGGCCGCAGGUGAUUUUCAACCAACGCC
....(((((((.((((.((((.(.((((........))))).)))))))).))))))).((((.(....).))))(((..(((((.((((((.(.....))))))).)))))..))).......... ( -67.50)
>mm5.chr17/23317119-23317247
UGUAGGGGCCUGGGUUUCACCCUCCCACACCGGGGCAGCGGGCGGUGAGCUGAGGCCUCUGUGGCUCUGGGCGCCGAAUCUCACCCCCGGCUACAAGCCAAAGCCGAGGGUGAUUUUCAACGAACGCC
..(((((((((.((((.((((..(((.....)))((.....)))))))))).))))))))).(((...(..((..(((..((((((.(((((.........))))).))))))..)))..))..)))) ( -58.70)
>rn3.chr10/13974921-13975049
UGUAGGGGCCUGGGUUUCACCCUCCCACACUGGGGCAGCAGGGGGUGAGCUGAGGCCUCUGUGGCUCUGGGCGCCGAUUCUCAACCCCGGCCACAGGCCAAAGCCGAGGAUGAUUUUCAACGAACGCC
..(((((((((.((((.(((((((((.....))).......)))))))))).)))))))))((((.(((.(.((((...........))))).)))))))....((..((......))..))...... ( -52.01)
>consensus
UGUAGGGGCCUGGGUUUCACCCUCCCACACAGGGGCAGCAGGCGGUGAGCUGAGGCCCCCGG_GGCUC_UGGGCGCCGAAUCUCACCCCCGGCCAC_GGCCAAAGCCGAGGGUGAUUUUCAACCAACGCC
..(((((((((.((((.(((((((((.....))).......)))))))))).)))))))))..(((........)))(((..((((((.(((((.........))))).))))))..))).......... (-51.90 = -52.96 +   1.06)

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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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