Structure #145109

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	40,868,515 - 40,868,594
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, fugu
Mean pairwise identity	78.66
Columns	81
Mean single MFE	-15.82
Consensus MFE	-10.93
Combinations/base pair	17 / 15 = 1.13
SCI	0.69
z-score	-1.7
RNA class probability	0.875004

This structure is part of cluster 80237

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 81
 Columns: 81
 Strand: +
 Mean pairwise identity:  78.66
 Mean single sequence MFE: -15.82
 Consensus MFE: -10.93
 Energy contribution: -10.85
 Covariance contribution:  -0.08
 Mean z-score:  -1.70
 Structure conservation index:   0.69
 SVM decision value:   0.89
 SVM RNA-class probability: 0.875004
 Prediction: RNA

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>hg17.chr5/40868594-40868515
AGCUUAUCAGUGAUGUUGUAAAAAUAAAUGUCUGAACAUAUGAAUGCAGUAUUGAUUUCAGCAUUUAACUGAGAUAAGC
.(((((((((((((((((...((((.((((.(((..(((....)))))))))).)))))))))))..)))))..))))) ( -17.50)
>canFam1.chr4/19596926-19597005
AGCUUAUCAAUGAUGUUGUAAAAAUAAAUGUCUGAACAUAUGAAUUUGAUACUGAUUUCAGCAUUUAACUGAGAUAAGC
.(((((((...((((((.........))))))........(((((((((........)))).))))).....))))))) ( -13.70)
>mm5.chr15/99200049-99200129
AGCUUAUCAAUGAUGUCCUAAAAAAUAAAUGUCUGAACAUAUGACUGCUAUAAUGAUUUCAGCAUUUAACUGAGAUAAGC
.(((((((...(....)........((((((.(((((((((((.....))).)))..))))))))))).....))))))) ( -14.40)
>rn3.chr2/203989793-203989872
AGCUUAUCGAUGAUGUCCUAAAAGUAAAUGUCUGAACAUAUGAAUGCUAUACUGAUUUCAGCAUUUAACUGAGAUAAGC
.((((((((((...))).....((((((((.(((((((((((.....)))).))..)))))))))).)))..))))))) ( -16.20)
>galGal2.chrZ/6023186-6023107
AGCUUGUCAAUGAUGUUUCUUACUAAAAUGUCUGAACAUAUGAACUUCAUAGUGAUUUCAGUGCAUUACUGAGAUAAGC
.(((((((...((....)).......((((((((((((((((.....))).)))..))))).))))).....))))))) ( -17.20)
>fr1.chrUn/290521634-290521710
CUUACCGAUGAUGGAAUGAGGAAAAUGUCCGAACAAAUGAAUCAAAUGUGAAAUCAGUAUUCAUUCUGAGGUAAGC
((((((.....(((((((((((.....))).......(((.(((....)))..)))....)))))))).)))))). ( -15.90)
>consensus
AGCUUAUCAAUGAUGUUCUAAAAA_UAAAUGUCUGAACAUAUGAAUGCAAUACUGAUUUCAGCAUUUAA_CUGAGAUAAGC
.(((((((....................((((....))))..................((((........))))))))))) (-10.93 = -10.85 +  -0.08)

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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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