Structure #119691

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	60,561,946 - 60,562,030
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, fugu
Mean pairwise identity	82.51
Columns	86
Mean single MFE	-25.89
Consensus MFE	-20.78
Combinations/base pair	27 / 25 = 1.08
SCI	0.8
z-score	-3.8
RNA class probability	0.964489

This structure is part of cluster 63519

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 86
 Columns: 86
 Strand: +
n….¢?V
 Mean pairwise identity:  82.51
 Mean single sequence MFE: -25.89
 Consensus MFE: -20.78
 Energy contribution: -21.22
 Covariance contribution:   0.45
 Mean z-score:  -3.80
 Structure conservation index:   0.80
 SVM decision value:   1.57
 SVM RNA-class probability: 0.964489
 Prediction: RNA

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>hg17.chr20/60562030-60561946
CCUGAGAUACAUACUUCUUUACAUUCCAUAGCUUAGCAGGUCCAUAUGGGCAUAUAAAGAAGUAUGUUUCCCAAGCAGGCAGUC
((((.((.(((((((((((((.(((((((((((.....)))...)))))).)).))))))))))))).)).....))))..... ( -27.00)
>canFam1.chr24/49502341-49502260
CCUGAAAUACAUACUUCUUUACAUUCCAUAGCUUAGCAGGUCCAUAUGGGCAUAUAAAGAAGUAUGUUCCCCAAGCGGGUA
((((....(((((((((((((.(((((((((((.....)))...)))))).)).)))))))))))))........)))).. ( -24.90)
>mm5.chr2/180077330-180077244
CCUGAAAUACAUACUUCUUUACAUUCCAUAGCUUAGCAGGUUCAUAUGGGCAUAUAAAGAAGUAUGUGUCCCAAGCAGGUAGGUUC
((((..(((((((((((((((.(((((((((((.....)))...)))))).)).)))))))))))))))......))))....... ( -27.70)
>rn3.chr18/85146787-85146868
CCCAAAAUACACACUUCUUUACAUUCCAUAGCAUUCUAUGUUCAUAUGGGUACAUAAAGAAGUAUGUGCUCUGAGUAGGCA
........(((.(((((((((...((((((((((...))))...))))))....))))))))).)))(((.......))). ( -18.50)
>galGal2.chr20/7845645-7845559
CCUGAAAUACAUACUUCUUUACAUUCCAUAGAUUGCCAGGUUCAUAUGGGCAUAUAAAGAAGUAUGUCUCUCAAGCAGGUAGGUUC
((((....(((((((((((((.((((((((((.........)).)))))).)).)))))))))))))........))))....... ( -24.90)
>fr1.chrUn/53910793-53910874
CCUGGGGUACAUACUUCUUUACAUUCCACAGUUGCUCAUGUUCAUAUGGGCAUAUAAAGAAGGAUGUGCCCCAAGCAGGUC
..((((((((((.((((((((...........((((((((....))))))))..)))))))).))))))))))........ ( -32.32)
>consensus
CCUGAAAUACAUACUUCUUUACAUUCCAUAGCUUAGCAGGUUCAUAUGGGCAUAUAAAGAAGUAUGUGCCCCAAGCAGGUA_____
((((....(((((((((((((.((((((((..............)))))).)).)))))))))))))........))))....... (-20.78 = -21.22 +   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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