Structure #201005

Summary

Genome/Assembly	hg17
Chromosome/Contig	chrX
Strand	+
Position	106,809,415 - 106,809,535
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	93.19
Columns	120
Mean single MFE	-40.55
Consensus MFE	-31.71
Combinations/base pair	38 / 35 = 1.09
SCI	0.78
z-score	-1.78
RNA class probability	0.562347

This structure is part of cluster 111626

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  93.19
 Mean single sequence MFE: -40.55
 Consensus MFE: -31.71
 Energy contribution: -33.90
 Covariance contribution:   2.19
 Mean z-score:  -1.78
 Structure conservation index:   0.78
 SVM decision value:   0.06
 SVM RNA-class probability: 0.562347
 Prediction: RNA

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>hg17.chrX/106809415-106809535
GAAGGGGAGGGCCGGAUCCUCCGGGAGAGCCCAGACGGCGGCUCUGCCAGCCAGCCCCUGUGGUUGGAACUUUCAAAAAGACCAAUGUUUCAGCAACUGAUUUCUUUUCCAACCCGAACA
..(((((..(((.((.....))((.((((((........)))))).)).)))..)))))(.(((((((((((.....))).........((((...))))......)))))))))..... ( -45.40)
>mm5.chrX/130591114-130591234
AAAGAGGAGGGCCAGAUCCUCCUGGGGAACCCAGACAGAGGCUCUGCCAGCCAGCUCCUGUGGUUGGAACUUUCAAAAAGACCAAUGUUUCAGCAACUGAUUUCUUUUCCAACCUGAACA
..(.((((((((((((.(((((((((...)))))...)))).))))...)))..))))).)(((((((((((.....))).........((((...))))......))))))))...... ( -39.10)
>rn3.chrX/128453654-128453774
AAAGAGGAGGGCCGGAUCCUCCCGGGGAACCCAGACAGAGGCUCUGCCAGCCAGCUCCUGUGGUUGGAACUUUCAAAAAGACCAAUGUUUCAGCAACUGAUUUCUUUUCCAAACUGAACA
.....(((((.((((......))))((((..(((((((..(((..(....).)))..)))).((((((((................))))))))..)))..))))))))).......... ( -31.99)
>canFam1.chrX/84325040-84325160
GAAGGGGAGGGCCAGAUCCUCUGGGGGAGCCCAGACGGCAGCUCUGCCAGCCAGCCCCUGUGGUUGGAACUUUCAAAAAGACCAAUGUUUCAGCAACUGAUUUCUUUUCCAACCCGAACA
..(((((..(((.......((((((....)))))).((((....)))).)))..)))))(.(((((((((((.....))).........((((...))))......)))))))))..... ( -45.70)
>consensus
AAAGAGGAGGGCCAGAUCCUCCGGGGGAACCCAGACAGAGGCUCUGCCAGCCAGCCCCUGUGGUUGGAACUUUCAAAAAGACCAAUGUUUCAGCAACUGAUUUCUUUUCCAACCCGAACA
..(((((..(((((((.((((((.((....))...)))))).))))...)))..)))))..(((((((((((.....))).........((((...))))......))))))))...... (-31.71 = -33.90 +   2.19)

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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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