Locus 12122

Sequence ID dm3.chr3R
Location 25,843,800 – 25,843,861
Length 61
Max. P 0.998674
window16665 window16666

overview

Window 5

Location 25,843,800 – 25,843,861
Length 61
Sequences 4
Columns 61
Reading direction forward
Mean pairwise identity 55.19
Shannon entropy 0.69765
G+C content 0.47357
Mean single sequence MFE -18.50
Consensus MFE -15.05
Energy contribution -13.42
Covariance contribution -1.63
Combinations/Pair 1.67
Mean z-score -1.77
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.44
SVM RNA-class probability 0.998674
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25843800 61 + 27905053
CUAUGAUCGAGUGGCCAGUAGCCAUUAGGGCAACUCCUUGCCCCUUCUGGCUGGCCAUCCG
.......((..((((((...((((..(((((((....))).))))..))))))))))..)) ( -26.70, z-score =  -3.40, R)
>droEre2.scaffold_4820 8305926 60 - 10470090
CAUUGAUCGAAUGGCCAGUACCCAUUAGGGCAACUUCUUGCCGCCA-UGACUGGCCAUCCG
.......((.(((((((((...(((...(((((....)))))...)-))))))))))).)) ( -22.10, z-score =  -3.26, R)
>dp4.chr2 950730 61 + 30794189
AUGUGCGUGUGUGUCUGGUAGCAACAGAAGCGUUAAGUUGUUCUUGAAACAUAAAUAUACA
.((((..(((((.((.((.((((((...........)))))))).)).)))))..)))).. ( -12.60, z-score =  -0.21, R)
>droPer1.super_7 3736937 61 + 4445127
AUGUGCGUGUGUGUCUGGUAGCAACAGAAGCGUUAAGUUGUUCUUGAAACAUAAAUAUACA
.((((..(((((.((.((.((((((...........)))))))).)).)))))..)))).. ( -12.60, z-score =  -0.21, R)
>consensus
AUGUGAGCGAGUGGCCAGUAGCAACAAAAGCAACAACUUGCCCCUGAAACAUAAACAUACA
.......((((((((((((.......((((((......)))).))....)))))))))))) (-15.05 = -13.42 +  -1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 25,843,800 – 25,843,861
Length 61
Sequences 4
Columns 61
Reading direction reverse
Mean pairwise identity 55.19
Shannon entropy 0.69765
G+C content 0.47357
Mean single sequence MFE -16.62
Consensus MFE -10.85
Energy contribution -10.98
Covariance contribution 0.12
Combinations/Pair 1.53
Mean z-score -1.37
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.89
SVM RNA-class probability 0.996168
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25843800 61 - 27905053
CGGAUGGCCAGCCAGAAGGGGCAAGGAGUUGCCCUAAUGGCUACUGGCCACUCGAUCAUAG
((..((((((((((...(((((((....)))))))..))))...))))))..))....... ( -30.80, z-score =  -4.22, R)
>droEre2.scaffold_4820 8305926 60 + 10470090
CGGAUGGCCAGUCA-UGGCGGCAAGAAGUUGCCCUAAUGGGUACUGGCCAUUCGAUCAAUG
((((((((((((((-(((((((.....))))))...)))...))))))))))))....... ( -28.70, z-score =  -4.25, R)
>dp4.chr2 950730 61 - 30794189
UGUAUAUUUAUGUUUCAAGAACAACUUAACGCUUCUGUUGCUACCAGACACACACGCACAU
(((.......(((((...))))).......(..((((.......))))..)....)))... (  -3.50, z-score =   1.49, R)
>droPer1.super_7 3736937 61 - 4445127
UGUAUAUUUAUGUUUCAAGAACAACUUAACGCUUCUGUUGCUACCAGACACACACGCACAU
(((.......(((((...))))).......(..((((.......))))..)....)))... (  -3.50, z-score =   1.49, R)
>consensus
CGGAUAGCCAGGCAUCAAGAACAACUAAACGCCCCAAUGGCUACCAGACACACAAGCACAG
(((.(((((((((..(((((((........)))))))..))..))))))).)))....... (-10.85 = -10.98 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:09 2011