Structure #46545

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	+
Position	42,739,848 - 42,739,941
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	74.84
Columns	96
Mean single MFE	-27.84
Consensus MFE	-18.22
Combinations/base pair	30 / 23 = 1.30
SCI	0.65
z-score	-2.51
RNA class probability	0.997341

This structure is part of cluster 23269

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 96
 Columns: 96
 Strand: +
 Mean pairwise identity:  74.84
 Mean single sequence MFE: -27.84
 Consensus MFE: -18.22
 Energy contribution: -19.34
 Covariance contribution:   1.12
 Mean z-score:  -2.51
 Structure conservation index:   0.65
 SVM decision value:   2.84
 SVM RNA-class probability: 0.997341
 Prediction: RNA

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>hg17.chr12/42739848-42739941
AACUAUGACAUUUGUAUGUAUUUCUUUUUGACAUGCCUAUGGGCAUGUCACUGUAAAUUGUCCAUGAGGAUUGUUGUGACAGCUUUAUGGACU
.......((((....)))).........(((((((((....))))))))).........((((((((((.((((....)))))))))))))). ( -32.10)
>mm5.chr15/95228086-95228179
GAUUCUGACACUCACGUGCGUUUCUUCCUGACACGCCUAUGGGCAUGUCACUGUAAAUUGUCCUUGAGGAUCGCAGUGACAGCUUUAUGGACU
.................((((.((.....)).))))((((((((.(((((((((.....((((....)))).))))))))))).))))))... ( -28.50)
>rn3.chr7/133410712-133410805
GACUCCGACACUUAAUGUGUGUUUCUCCUGACACGCCCACGGGCAUGUCACAGUAAAUUGUCCUUGAGGAUCUCAGUGACGGCUUUAUGGACU
...(((((((........(((((......)))))(((....))).))))...((((((((((.(((((...))))).))))).)))))))).. ( -27.70)
>canFam1.chr27/36014460-36014367
GACUAUGACAUUUAUAUGUAUUUCUUCUUGACAUGCCUAUGGGCAUGUCACUGUAAAUUGUCCAUGAGGAUCGUAGUGACAGCUUUAUGGACU
.......((((....)))).........(((((((((....))))))))).........((((((((((...((....))..)))))))))). ( -29.60)
>galGal2.chr1/27084684-27084777
GAUUGCGACGUAUACGUAUAUGUUGAUUUUUGACAUGCUUGUAUACAUGCCAAUGUAAAUGUUCUGUGAAGAUGACUGACACUGUUACGCGCU
....(((..(((((((..(((((..(...)..)))))..)))))))....((.(((......(((....)))......))).))...)))... ( -21.30)
>consensus
GACUAUGACAUUU_AUGUGUAUUUC__UUCUUGACAUGCCUAUGGGCAUGUCACUGUAAAUUGUCCAUGAGGAUCGCAGUGACAGCUUUAUGGACU
.......((((.....))))...........(((((((((....))))))))).........((((((((((.............)))))))))). (-18.22 = -19.34 +   1.12)

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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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