Structure #30276

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr10
Strand	+
Position	104,392,853 - 104,392,959
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	80.43
Columns	120
Mean single MFE	-50.45
Consensus MFE	-37.74
Combinations/base pair	35 / 31 = 1.13
SCI	0.75
z-score	-1.96
RNA class probability	0.90179

This structure is part of cluster 14402

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  80.43
 Mean single sequence MFE: -50.45
 Consensus MFE: -37.74
 Energy contribution: -39.18
 Covariance contribution:   1.44
 Mean z-score:  -1.96
 Structure conservation index:   0.75
 SVM decision value:   1.02
 SVM RNA-class probability: 0.901789
 Prediction: RNA

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

>hg17.chr10/104392853-104392959
UCGGACCGAGCAACGGGUGCGGGCCCGCCCCGGACGCGUCGCCUGGGCAGCAGCCGGGGACCGCGGGCUCUCGCCUUUCUGCCGACUUCUUCCAAUUCUCAUCUUC
..(((.((.(((..(((((.(((((((((((((..((...((....)).))..)))))....)))))))).)))))...)))))......)))............. ( -45.40)
>canFam1.chr28/18137186-18137292
CACAGACAGAGCGACCGGCUGGGCCCGCCCCGGACGCGUCGCCUGGGCAGCAGCCGGGGGCCGCCGGUGCUCGCCUUUCUGCCGACUUCUUCCAAUUCUAAUCUUU
..((((..((((.((((((..(((((...((((..((...((....)).))..))))))))))))))))))).....))))......................... ( -43.30)
>mm5.chr??/347-466
CACGGACAGAGCGACGGGCGCGGGCCCGCCCCGGACGCGUCUCCCGGGCAGCGCUGGGGGCAGCAGGCGCUCGUCGUUCUGCCGACUUCUUCCAAUUUUAAUCUUUUUAAAAGAUUUUU
..(((.(((((((((((((((..((..(((((.(.((((((.....))).))).).))))).))..))))))))))))))))))...............((((((.....))))))... ( -60.20)
>rn3.chr1/251987521-251987637
CACGGACAGAACGACGGGCGCGGGCCCGCCCCGGACGCGUCGCCCGGGCAGCGCUGGGGGCAAUAGGCGCUCGCCGUUCUGCCGACUUCUUCCAAUUCUAAUCUUUUUAAAAGAUU
..(((.(((((((.((((((((....)(((((.(..((((.((....)).))))).))))).....))))))).))))))))))...............((((((.....)))))) ( -52.90)
>consensus
CACGGACAGAGCGACGGGCGCGGGCCCGCCCCGGACGCGUCGCCCGGGCAGC_GCCGGGGGCAGCAGGCGCUCGCCGUUCUGCCGACUUCUUCCAAUUCUAAUC_____________UUU
..(((.(((((((.(((((((..((...((((((.((((((.....))).)).)))))))...))..))))))).))))))))))................................... (-37.74 = -39.18 +   1.44)

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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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