Structure #110234

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	-
Position	179,216,663 - 179,216,763
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish, fugu
Mean pairwise identity	64.88
Columns	119
Mean single MFE	-30.72
Consensus MFE	-17.93
Combinations/base pair	33 / 20 = 1.65
SCI	0.58
z-score	-3.48
RNA class probability	0.992568

This structure is part of cluster 58300

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 119
 Columns: 119
 Strand: +
 Mean pairwise identity:  64.88
 Mean single sequence MFE: -30.72
 Consensus MFE: -17.93
 Energy contribution: -16.10
 Covariance contribution:  -1.83
 Mean z-score:  -3.48
 Structure conservation index:   0.58
 SVM decision value:   2.34
 SVM RNA-class probability: 0.992568
 Prediction: RNA

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

>hg17.chr2/179216763-179216663
GAAAUGUAAGGCAUUGGUGAUGUUUGCAUUUACCCUCCUGUAAGCAACACUUUAACGUCUUACAUUUUCUCUGAUGAUGUCACACAAAAUUAUCAUGAC
((((((((((((...((((.((((((((..........)))))))).)))).....)))))))))))).(((((((((..........))))))).)). ( -28.60)
>mm5.chr2/76598702-76598600
GAAAUGUAAGGCAUUGGUGAUGUUUGCAUCUACCCUCCUGUAAGCAACACUUUAACGUCUUACGUUUUCUCUGAUGAUGUCACACUGAAAAUUAUCAUGAC
((((((((((((...((((.((((((((..........)))))))).)))).....)))))))))))).(((((((((.((.....))..))))))).)). ( -28.70)
>rn3.chr3/59301368-59301266
GAGACAUAAGGCAUUGGUGAUGUUUGCAUCUACCCUCCUGUAAGCAGCACUUUAACGUCUUAUGUUUUCUCUGAUGAUGUCACACUUAAAAUUAUCAUGAC
((((((((((((...((((.((((((((..........)))))))).)))).....)))))))))))).(((((((((............))))))).)). ( -28.50)
>galGal2.chr7/21153569-21153669
GAAAUGUAAGGCACUGGUGAUAUUUACAAUUACCCUCCUGUAAGUAUUACUUUAAUGUUUUACAUUGGAUCUGAUUACGUCGUAAUUUCCAUGCCUGAC
..(((((((((((..(((((((((((((..........)))))))))))))....)))))))))))(((...((((((...)))))))))......... ( -26.80)
>danRer1.chrUn/518-403
GAAUUUAUGACUUGAAUGUAAGACCUUGAGUGCUGUUUGCAUUUUACCCUCAUGUAAGCAGGACAACUGGGUCUUGUGUUCAGGGCGACAAAGUCAUACCGCCAUUUUAAUGAC
.....(((((((((((..((((((((...((.((((((((((.........)))))))))).))....))))))))..)))..(....).))))))))................ ( -38.40)
>fr1.chrUn/124298707-124298801
UGAACUUAAGACCCUGAGUGCUGCUUCCAUCACCCUCAUGGAAGCAGCAGGAACCGGUCCUGAGCUCAGACCGACUGCGUCGUACCUUCUUCC
.......((((..(((((((((((((((((.......)))))))))))((((.....))))..))))))..((((...)))).....)))).. ( -33.30)
>consensus
GAA____________AUGUAAGGCAUUG_GUGAUGUUUGCAUCU_ACCCUCCUGUAAGCAGCACUUUAACGUCUUACGUUUUCUCUGAUGAUGUCACAC__AAAAUUAUCAUG____AC
...............(((((((((.....(((.((((((((...........)))))))).)))......)))))))))........................................ (-17.93 = -16.10 +  -1.83)

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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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