Structure #30292

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr10
Strand	-
Position	104,392,959 - 104,393,076
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	90.64
Columns	120
Mean single MFE	-38.6
Consensus MFE	-33.17
Combinations/base pair	31 / 29 = 1.07
SCI	0.86
z-score	-2.97
RNA class probability	0.990003

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:  90.64
 Mean single sequence MFE: -38.60
 Consensus MFE: -33.17
 Energy contribution: -32.98
 Covariance contribution:  -0.19
 Mean z-score:  -2.97
 Structure conservation index:   0.86
 SVM decision value:   2.19
 SVM RNA-class probability: 0.990003
 Prediction: RNA

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>hg17.chr10/104393076-104392959
UCCAAGGGGAGGGCUGGCGGCCUCCAACAAAUUAGGAGAGAGAGAGGGAGAAAAUGCCAAGUCCCGAUUUCUCUCCACCUCUGCUCCACCCACCCCGGUCCUGUCCAAAAAAUAAAA
.....(((.((((((((.((..............(((((((((..((((............))))..)))))))))................)))))))))).)))........... ( -40.71)
>canFam1.chr28/18137411-18137292
UUUUAAGGGGAGGGCUGGCGGCCUCCCUCAAAUUAGGAGAGAGAGAGAGGAGAAAAUGCCAAGUCCCGAUUUCUCUCCACCUUUGCUCCACCCACCCCGGUCCUUUCCAAAAAAUAAAA
......((..((((((((.((.......((((...(((((((((..(.(((............))))..)))))))))...)))).........))))))))))..))........... ( -40.39)
>mm5.chr??/585-466
CUCCAAGGGGAGGGCUGGUGGUCUCCAACAAAUUAGGAGAGAGAGAAGGAGAAAAAUGCCAAGUCUUGAUUUCUCUCUACCUCUGCUCCACCCAUCCCGAUCCUUUCCAAAAAAAAAAA
....(((((..(((..((((((((((.........)))))((((((((((((...........))))..))))))))..........)))))...)))..))))).............. ( -35.00)
>rn3.chr1/251987756-251987637
CUCCAAGGGGAGGGCUGGUGGCCUCCAGCAAAUUAGGAGAGAGAGAAGGAGAAAAAUGCCAAGUCUUGAUUUCUCUCUACCUCUGCUCCACCCAUCCCGAUCCUUUCCAAAAAAAAAAA
....(((((..(((..(((((.....((((....((((((((((((..((((...........))))..))))))))).))).)))))))))...)))..))))).............. ( -38.30)
>consensus
CUCCAAGGGGAGGGCUGGCGGCCUCCAACAAAUUAGGAGAGAGAGAA_GGAGAAAA_UGCCAAGUCCCGAUUUCUCUCCACCUCUGCUCCACCCACCCCGAUCCUUUCCAAAAAAAAAAA
......((..((((((((.((...)).........((((((((.(.(.(((((((...............))))))).).))))).)))).......))))))))..))........... (-33.17 = -32.98 +  -0.19)

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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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