Structure #196496

Summary

Genome/Assembly	hg17
Chromosome/Contig	chrX
Strand	+
Position	40,146,782 - 40,146,901
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.49
Columns	120
Mean single MFE	-40.6
Consensus MFE	-23.67
Combinations/base pair	38 / 30 = 1.27
SCI	0.58
z-score	-2.1
RNA class probability	0.82181

This structure is part of cluster 109345

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.49
 Mean single sequence MFE: -40.60
 Consensus MFE: -23.67
 Energy contribution: -26.42
 Covariance contribution:   2.75
 Mean z-score:  -2.10
 Structure conservation index:   0.58
 SVM decision value:   0.68
 SVM RNA-class probability: 0.821810
 Prediction: RNA

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

>hg17.chrX/40146782-40146901
CAGGCGUGCAAGUCCACCAAGGGCCCAUAAAACUUCUCCAGGCUUUGUGUGGGUGACCCCACAGGCCCGCGCAUCAGCAAUACCACCCUUACACCCGCAGUGGAACUGUUGCCGGGUUC
..((((.(((..(((((...(((.................(((((.(((.((....)).)))))))).((......))...............)))...)))))..)))))))...... ( -39.70)
>mm5.chrX/10857015-10857132
CAGGAGUAAGAGCCCACCAAGGGCUCAUAAAACUUCCCCAGGCUUUGUGCAUGGACCGCCAGGCCCACGCCCAGCCUGGCCAACACUUUAGCCCACAGCCAAACUGUUGCUGGGUUU
..(((((..((((((.....))))))...........(((((((..(.((.(((.((....)).))).))).))))))).....)))))((((((((((......)))).)))))). ( -46.10)
>rn3.chrX/138366879-138366762
CAGCAGUGAGAGCCCACCAAGGGCCCAUAAAACUUCCCCAGGCUUUGUGCAUGGAUCGCCAGACCCACGCCCAGCCUGGCCAACUCUCUAGCCCACAGCCAAACUGUUGCUGGGUUU
....((.(((.((((.....)))).............(((((((..(.((.(((.((....)).))).))).)))))))....))).))((((((((((......)))).)))))). ( -41.00)
>canFam1.chrX/34821235-34821354
CAGGCAUGCAAGUCCACCAAGGGCCCAUAAAACUUCCCCAGGCUUUGUGCGGGUGACCCCACAGGCCUGCGCCGUAGCAAUCCCACCCUUAAGCCCACAAUGAAACUGUUUCUGGGUUC
..(((......((((.....))))..............(((((((.(((.((....)).)))))))))).)))..................((((((.(((......)))..)))))). ( -35.60)
>consensus
CAGGAGUGAAAGCCCACCAAGGGCCCAUAAAACUUCCCCAGGCUUUGUGC__AUGAACCCACAGGCCCACGC_CCAGCAAGGCC_ACCCUUAAGCCCACAGCCAAACUGUUGCUGGGUUC
...........((((.....)))).............(((((((..(((((((....((....)))))))))...)))))))..........((((((((((......)))).)))))). (-23.67 = -26.42 +   2.75)

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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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