Locus 8320

Sequence ID dm3.chr3L
Location 21,983,540 – 21,983,622
Length 82
Max. P 0.881039
window11430 window11431

overview

Window 0

Location 21,983,540 – 21,983,622
Length 82
Sequences 5
Columns 82
Reading direction forward
Mean pairwise identity 93.54
Shannon entropy 0.11660
G+C content 0.59024
Mean single sequence MFE -29.48
Consensus MFE -23.56
Energy contribution -25.74
Covariance contribution 2.18
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881039
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21983540 82 + 24543557
CGCCGGUGGAGAUGGUGGCAGGGAUCUACUCCACCCACCUCCGCAGUGAUGCGAAGAAUGCCAACCGAGAUUAAACCGAACC
...((((((.((.(((((...(((.....)))..)))))))((((....)))).......)).))))............... ( -25.70, z-score =  -1.45, R)
>droEre2.scaffold_4784 21658380 82 + 25762168
UGCCGGUGGAGGUGGUGGCAGGCACCUACUCCACCCACCUUCGCAGUGAUGCGGAGAAUGCCAACCGAGAUUAAAGCGAGCC
.((.(((((((..((((.....))))..)))))))...(((((((....)))))))...................))..... ( -32.10, z-score =  -2.02, R)
>droYak2.chr3L 22311534 82 + 24197627
UGCCGGUGGAGAUGGCGGCAGAGACCUACUCCACCCACCUCCACAGUGAUGCGGAGAAUGCCAACCGAGAUUAAACCGACCC
.((.(((((((..(((......).))..)))))))...((((.((....)).))))...))..................... ( -23.90, z-score =  -1.78, R)
>droSec1.super_11 1909255 82 + 2888827
UGCCGGUGGAGAUGGUGGCAGGGAUCUACUCCACCCACCUCCGCAGUGAUGCGGAGAAUGCCAACCGAGAUUAAACCGAACC
...((((.....(((((((((((..........)))..(((((((....)))))))..)))).)))).......)))).... ( -32.50, z-score =  -3.22, R)
>droSim1.chr3L 21323411 82 + 22553184
UGCCGGUGGAGAUGGUGGCAGGGAUCUACUCCACCCACCUCCGCAGUGAUGCGGAGAAUGCCAACCAAGAUUAAACCGAACC
...((((.....(((((((((((..........)))..(((((((....)))))))..)))).)))).......)))).... ( -33.20, z-score =  -3.55, R)
>consensus
UGCCGGUGGAGAUGGUGGCAGGGAUCUACUCCACCCACCUCCGCAGUGAUGCGGAGAAUGCCAACCGAGAUUAAACCGAACC
...((((((....(((((.((.......)))))))...(((((((....)))))))....)).))))............... (-23.56 = -25.74 +   2.18)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,983,540 – 21,983,622
Length 82
Sequences 5
Columns 82
Reading direction reverse
Mean pairwise identity 93.54
Shannon entropy 0.11660
G+C content 0.59024
Mean single sequence MFE -30.98
Consensus MFE -27.74
Energy contribution -27.34
Covariance contribution -0.40
Combinations/Pair 1.15
Mean z-score -1.28
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.526822
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21983540 82 - 24543557
GGUUCGGUUUAAUCUCGGUUGGCAUUCUUCGCAUCACUGCGGAGGUGGGUGGAGUAGAUCCCUGCCACCAUCUCCACCGGCG
.((.((((.......((((..((.......))...)))).((((((((...(.((((....))))).)))))))))))))). ( -27.00, z-score =  -0.43, R)
>droEre2.scaffold_4784 21658380 82 - 25762168
GGCUCGCUUUAAUCUCGGUUGGCAUUCUCCGCAUCACUGCGAAGGUGGGUGGAGUAGGUGCCUGCCACCACCUCCACCGGCA
.(((.(((........))).)))...((.((((....)))).))((.(((((((..((((.....))))..))))))).)). ( -32.20, z-score =  -1.33, R)
>droYak2.chr3L 22311534 82 - 24197627
GGGUCGGUUUAAUCUCGGUUGGCAUUCUCCGCAUCACUGUGGAGGUGGGUGGAGUAGGUCUCUGCCGCCAUCUCCACCGGCA
..((((((........((.((((..((((((((....))))))))..((..(((.....)))..))))))...)))))))). ( -36.00, z-score =  -2.62, R)
>droSec1.super_11 1909255 82 - 2888827
GGUUCGGUUUAAUCUCGGUUGGCAUUCUCCGCAUCACUGCGGAGGUGGGUGGAGUAGAUCCCUGCCACCAUCUCCACCGGCA
..............(((((.(((((.(((((((....))))))))))(((((.((((....))))..))))).))))))).. ( -29.00, z-score =  -0.75, R)
>droSim1.chr3L 21323411 82 - 22553184
GGUUCGGUUUAAUCUUGGUUGGCAUUCUCCGCAUCACUGCGGAGGUGGGUGGAGUAGAUCCCUGCCACCAUCUCCACCGGCA
.((.((((.......((((.((((.((((((((....)))))))).(((..........))))))))))).....)))))). ( -30.70, z-score =  -1.29, R)
>consensus
GGUUCGGUUUAAUCUCGGUUGGCAUUCUCCGCAUCACUGCGGAGGUGGGUGGAGUAGAUCCCUGCCACCAUCUCCACCGGCA
..............(((((.(((((.(((((((....))))))))))(((((.((((....))))..))))).))))))).. (-27.74 = -27.34 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:43:27 2011