Structure #110231

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	-
Position	179,216,571 - 179,216,664
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish
Mean pairwise identity	68.08
Columns	114
Mean single MFE	-28.55
Consensus MFE	-13.12
Combinations/base pair	24 / 17 = 1.41
SCI	0.46
z-score	-2.45
RNA class probability	0.992885

This structure is part of cluster 58300

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 114
 Columns: 114
 Strand: +
 Mean pairwise identity:  68.08
 Mean single sequence MFE: -28.55
 Consensus MFE: -13.12
 Energy contribution: -13.40
 Covariance contribution:   0.28
 Mean z-score:  -2.45
 Structure conservation index:   0.46
 SVM decision value:   2.36
 SVM RNA-class probability: 0.992885
 Prediction: RNA

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>hg17.chr2/179216664-179216571
AAAUAUUACCAGAGCAAAGUGUAACGGCCAACACUUUGUUCGCUCAUUUUACGCUGUCUCUGACAUAAGGAGUGCCUGAAUAGCUUGGAAAAG
........((((((((((((((........)))))))))))(((...((((.((...((((.......)))).)).)))).))).)))..... ( -27.00)
>canFam1.chr36/25283424-25283329
UAAAUAUUACCAGAGCAGAGUGUAACGGCCAACACUUUGUUCGCUCAUUCUACACUGUCUCUGACCAUAGAGAGUGCGGGAAUAGCUUGGAAAAG
.........((((((((((((((........)))))))))))(((.(((((.((((.(((........))).))))..)))))))).)))..... ( -32.10)
>mm5.chr2/76598601-76598506
AAAUAUAACCAGAGCAAAGUGUAACGGCCAUACACUUUGUUCGCCCACUUCACACUGUCUCUGGCAUACAGAGUGCAUGGAUAGCUUGGGAAAUG
...........((((((((((((.......)))))))))))).((((((...((.((((((((.....))))).)))))...))..))))..... ( -30.70)
>rn3.chr3/59301267-59301173
AAACAUGACCAGAGCAAAGUGUAACGGCCAACACUUUGUUCGCUCACUGCACGCUGUCUCUGACAUAAAGAGUGCGUGGAUGGCUUGGGAAAAG
........((((((((((((((........)))))))))))((.((.(.(((((...((((.......)))).))))).))))).)))...... ( -33.60)
>galGal2.chr7/21153471-21153570
UGACAAUUUUUGAACAAAGUGCAAGCGGCCAACACUUUGUUCACCCACUGUUUGGGUGCUGCUUCUGACACACUGACUGCCUGAACGGCUUUAAAAAAG
......((((((((....(((((((((((.(((.....))).(((((.....)))))))))))..)).))).......(((.....))))))))))).. ( -24.50)
>danRer1.chrUn/404-309
AAACUCGAUGUGCGAGCGGCCUGCACACUGAGUUCAUAAUAAUGUAUGUGCACUGUUUCUGUCGAAAGACUGUUUGAAUUUAGCUUUUACAAAAC
.((((((.((((((.......)))))).))))))........((((...((...((((..(((....))).....))))...))...)))).... ( -23.40)
>consensus
_AAACAUUACCAGAGCAAAGUGUAA_CGGCCA_ACACUUUGUUCGCUCAC_________UGU____ACACUGUCUCUGAC_AUAAAGAGUGCCUGAAU__AGCUUGGA_AAAAG
............(((((((((((..........)))))))))))........................((...((((........)))).))...................... (-13.12 = -13.40 +   0.28)

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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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