Structure #165563

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	148,188,892 - 148,188,980
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	77.04
Columns	110
Mean single MFE	-26.04
Consensus MFE	-15.8
Combinations/base pair	27 / 20 = 1.35
SCI	0.61
z-score	-2.58
RNA class probability	0.994454

This structure is part of cluster 91809

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 5
 Slice: 1 to 110
 Columns: 110
 Strand: +
 Mean pairwise identity:  77.04
 Mean single sequence MFE: -26.04
 Consensus MFE: -15.80
 Energy contribution: -16.68
 Covariance contribution:   0.88
 Mean z-score:  -2.58
 Structure conservation index:   0.61
 SVM decision value:   2.48
 SVM RNA-class probability: 0.994454
 Prediction: RNA

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

>hg17.chr6/148188892-148188980
UGCCUUAUGGUAGAGGUUUCCAUGGCAACAUUUUUGUUCAAGGAACAUAGAACUUGAAGAAUAUGCUACGAGUCUCUUUUAAAUGUGU
((((....))))(((..((...(((((......((.((((((..........)))))).))..))))).))..)))............ ( -17.90)
>mm5.chr10/121563780-121563690
UGCCUUAUGGUAGAGGUUUCCAUGGCAACAUUUUUGUUCAGGGAACACAGAACUUGAGCAGAAUAUGCCAGGAGUCUCUUUUAAAUAUGU
((((....))))(((..(.((.(((((....(((((((((((..........)))))))))))..))))))))..)))............ ( -30.00)
>rn3.chr1/264096232-264096142
UGCCUUAUGGCAGAGGUUUCCAUGGCAACGUUUUUGUUCAGGGAACAUAGGACUUGAACAGAAUAUGCCAGGAGUCUCUUUUAAAUAUGU
((((....))))(((..(.((.(((((....(((((((((((..........)))))))))))..))))))))..)))............ ( -32.00)
>canFam1.chr1/41796472-41796563
UGCCUUAUGGUAGAGGUUUCCAUGGCAACAUUUUUGUUCAGGGAACAUAGAACUUGAACAGAAUAUGCCACGAUUCUCUUUUAAAAUAUAU
((((....))))((((..((..(((((....(((((((((((..........)))))))))))..))))).)).))))............. ( -25.90)
>galGal2.chr3/46391861-46391967
UUCCUUGUGGCAAAGGUGUUUCUAUAGCAACAUUUACUGGAGGCCAUAGAACUUACACAGGAUGUGCCAUAAGACUUCUUUUGCACAUUAUCUGUCUUAAAUAUGU
...(((((((((...((((((((((.((..((.....))...)).))))))...))))......)))))))))................................. ( -24.40)
>consensus
UGCCUUAUGGUAGAG__GUUUCCAUGGCAACAUUUUUGUUCAGGGAACAUAGAACUUGAACAGAAUAUGCCACGAG_________________UCUCUUUU_AAAUAUGU
((((....))))............(((((....(((((((((((..........)))))))))))..)))))...................................... (-15.80 = -16.68 +   0.88)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]