Structure #15339

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	-31.2
Consensus MFE	-29.76
Combinations/base pair	37 / 35 = 1.06
SCI	0.95
z-score	-1.49
RNA class probability	0.798337

This structure is part of cluster 6258

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  91.48
 Mean single sequence MFE: -31.20
 Consensus MFE: -29.76
 Energy contribution: -29.32
 Covariance contribution:  -0.44
 Mean z-score:  -1.49
 Structure conservation index:   0.95
 SVM decision value:   0.61
 SVM RNA-class probability: 0.798337
 Prediction: RNA

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

>hg17.chr1/119219611-119219727
AGGGUGUUCAUUUCACACAGGUCUCAGCAGGUUGCCCUGCCGUUCUUUGAAAUGGUUUGGAAACAGCCUUUAUUUUAAACAUCUGAAGAUAAUUGAACCAAAGUUGCACCCAGAAA
.((((((((((((((...(((...(.(((((....))))).)..))))))))))).(((....))).((((..(((((..(((....)))..)))))..))))..))))))..... ( -30.80)
>mm5.chr3/61373978-61373858
GGGGUGUUCAUUUCACACAGGUCUCUCAGCAGGCCGCCCUGCCGUCCUUUGAAAUGGUCUGGAAACAGCCUUGAUUUUAAACAUCUGAAGAUAAUUGAACCAAAGUUGCACUCACUCAAA
.((((((((((((((...(((.....(.(((((....))))).).))).)))))))).(((....))).(((...(((((..(((....)))..)))))...)))..))))))....... ( -29.50)
>rn3.chr2/64276125-64276005
GGGGUGUUCAUUUCACACAGGUCUCUCAGCAGGCCGCCCUGCCAUCCUUUGAAAUGGUCUGGAAACAGCCUUGAUUUUAAACAUCUGAAGAUAAUUGAACCAAAGUUGCACUCACUCAAG
.((((((....((((.....((((.((((((((....))))).....((((((((((.(((....)))))...))))))))....)))))))...))))........))))))....... ( -29.10)
>canFam1.chr17/58966110-58966226
AGGGUGUUCAUUUCACACAGUUCUCAGCAGGUUGCCCUGCUGUUCUUUGAAAUGGCCUGGAAACAGCCUUGAUUUUAAACAUCUGAAGAUAAUUGAACCAAAGUUGCACCCAGAAA
.((((((((((((((...((....(((((((....)))))))..)).)))))))).(((....))).(((...(((((..(((....)))..)))))...)))..))))))..... ( -35.40)
>consensus
AGGGUGUUCAUUUCACACAGG__UCUCAGCAGGCCGCCCUGCCGUCCUUUGAAAUGGUCUGGAAACAGCCUUGAUUUUAAACAUCUGAAGAUAAUUGAACCAAAGUUGCACCCA__CAAA
.((((((...(((....(((...((((((((((....))))).....((((((((((.(((....)))))...))))))))....)).)))...)))....)))...))))))....... (-29.76 = -29.32 +  -0.44)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]