Structure #15342

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	-
Position	119,219,611 - 119,219,727
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	91.48
Columns	120
Mean single MFE	-34.89
Consensus MFE	-31.25
Combinations/base pair	38 / 36 = 1.06
SCI	0.9
z-score	-2
RNA class probability	0.944845

This structure is part of cluster 6258

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  91.48
 Mean single sequence MFE: -34.89
 Consensus MFE: -31.25
 Energy contribution: -32.12
 Covariance contribution:   0.88
 Mean z-score:  -2.00
 Structure conservation index:   0.90
 SVM decision value:   1.33
 SVM RNA-class probability: 0.944845
 Prediction: RNA

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>hg17.chr1/119219727-119219611
UUUCUGGGUGCAACUUUGGUUCAAUUAUCUUCAGAUGUUUAAAAUAAAGGCUGUUUCCAAACCAUUUCAAAGAACGGCAGGGCAACCUGCUGAGACCUGUGUGAAAUGAACACCCU
.....(((((...(((((.......((((....)))).......))))).............(((((((.((..(((((((....)))))))....))...)))))))..))))). ( -35.04)
>mm5.chr3/61373858-61373978
UUUGAGUGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGUUUAAAAUCAAGGCUGUUUCCAGACCAUUUCAAAGGACGGCAGGGCGGCCUGCUGAGAGACCUGUGUGAAAUGAACACCCC
.....(((...(((.((((((((....((((....)))).....)))))))).)))........(((((((.(((.(((((((....))))))).....)))...)))))))..)))... ( -32.70)
>rn3.chr2/64276005-64276125
CUUGAGUGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGUUUAAAAUCAAGGCUGUUUCCAGACCAUUUCAAAGGAUGGCAGGGCGGCCUGCUGAGAGACCUGUGUGAAAUGAACACCCC
.....(((...(((.((((((((....((((....)))).....)))))))).)))........(((((((.(((.(((((((....))))))).....)))...)))))))..)))... ( -30.30)
>canFam1.chr17/58966226-58966110
UUUCUGGGUGCAACUUUGGUUCAAUUAUCUUCAGAUGUUUAAAAUCAAGGCUGUUUCCAGGCCAUUUCAAAGAACAGCAGGGCAACCUGCUGAGAACUGUGUGAAAUGAACACCCU
..((((((.(((.((((((((....((((....)))).....)))))))).))).)))))).(((((((.((..(((((((....)))))))....))...)))))))........ ( -41.50)
>consensus
UUUC__UGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGUUUAAAAUCAAGGCUGUUUCCAGACCAUUUCAAAGAACGGCAGGGCAACCUGCUGAGA__CCUGUGUGAAAUGAACACCCC
......((((.(((.((((((((....((((....)))).....)))))))).))).))))...(((((((.(((.(((((((....))))))).....)))...)))))))........ (-31.25 = -32.12 +   0.88)

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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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