Structure #110229

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	-
Position	179,216,493 - 179,216,606
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish
Mean pairwise identity	76
Columns	118
Mean single MFE	-33.82
Consensus MFE	-16.85
Combinations/base pair	40 / 26 = 1.54
SCI	0.5
z-score	-2.24
RNA class probability	0.928897

This structure is part of cluster 58300

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 118
 Columns: 118
 Strand: +
 Mean pairwise identity:  76.00
 Mean single sequence MFE: -33.82
 Consensus MFE: -16.85
 Energy contribution: -17.30
 Covariance contribution:   0.45
 Mean z-score:  -2.24
 Structure conservation index:   0.50
 SVM decision value:   1.19
 SVM RNA-class probability: 0.928897
 Prediction: RNA

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

>hg17.chr2/179216606-179216493
UCUGACAUAAGGAGUGCCUGAAUAGCUUGGAAAAGUAACAUCUCCUGGCCAUCCCUUCAUUUAACCAAGCUAUUCAAGUAUUCCUAUGCCAGAGCAGUGCCAACUCUUGGAGG
((((.((((.(((((((.((((((((((((...((......))...((.....)).........)))))))))))).))))))))))).))))......(((.....)))... ( -37.20)
>canFam1.chr36/25283365-25283251
UCUGACCAUAGAGAGUGCGGGAAUAGCUUGGAAAAGUAACAUCGCCUGGCCAUCCCUUUAUUUCACCAGGCUAUUCAAGUAUUCCUAUGCCAGAGCAGUGUCAACUCUUGGAGG
......(((((.((((((..(((((((((((..((((((..................))))))..)))))))))))..)))))))))))(((.((.(((....))))))))... ( -35.77)
>mm5.chr2/76598542-76598428
UCUGGCAUACAGAGUGCAUGGAUAGCUUGGGAAAUGUACCAUCUCCUGGCCAUCCCCUCGUCUAACCAAGCUAUGCAAGUAUUCCUAUGCCAGAGCGGUGUCGACUCCUGGAGG
(((((((((..((((((.((.(((((((((((.(((...))).))).((......)).........)))))))).)).)))))).)))))))))..((.(....).))...... ( -38.90)
>rn3.chr3/59301209-59301095
UCUGACAUAAAGAGUGCGUGGAUGGCUUGGGAAAAGUACCAUCUCCUGGCCAUCCCCUCGAUUAACCAAGCUAUUCAUGUAUUCUUAUGCCAGAGCAGUGUCAACUCCUGGAGG
..((((((.(((((((((((((((((((((........(((.....)))..(((.....)))...))))))))))))))))))))).(((....))))))))).(((...))). ( -40.60)
>galGal2.chr7/21153393-21153507
UCUGACACACUGACUGCCUGAACGGCUUUAAAAAAGUAACAUCACCUGGCCAUCCCCAUAAUCAACAAAGCCAUUCAGGUACUCAAGUGCAGCAGCAGUACCAACUCUUGGAGG
.(((...((((((.((((((((.((((((......((......)).(((......)))........)))))).)))))))).)).))))...))).....(((.....)))... ( -29.60)
>danRer1.chrUn/347-236
UCUGUCGAAAGACUGUUUGAAUUUAGCUUUUACAAAACUACCAUCACCUGGCCAUUAAUUGUAAACUCAAUUCAAGUACUCAUUUGCAGAAACUGUGCCAGCUCUUGGAGG
...(((....)))........................((.(((....(((((((....(((((((.................)))))))....)).)))))....))))). ( -20.83)
>consensus
UCUGAC_AUAAAGAGUGCCUGAAU__AGCUUGGA_AAAAGUAACAUCUCCUGGCCAUCCCCUCAAUUAACCAAGCUAUUCAAGUAUUCCUAUGCCAGAGCAGUGCCAACUCUUGGAGG
............((((((((((((..(((((((....................................))))))))))))))))))).....((((...(((....))).))))... (-16.85 = -17.30 +   0.45)

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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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