Locus 11628

Sequence ID dm3.chr3R
Location 22,589,809 – 22,589,912
Length 103
Max. P 0.774754
window15976 window15977

overview

Window 6

Location 22,589,809 – 22,589,912
Length 103
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 91.75
Shannon entropy 0.15066
G+C content 0.53245
Mean single sequence MFE -31.54
Consensus MFE -23.80
Energy contribution -25.12
Covariance contribution 1.32
Combinations/Pair 1.07
Mean z-score -2.27
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774754
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22589809 103 + 27905053
AAUUGUAUUAAAAUAUAUAUCUGCGAACGCGCCGAACUCCUGCUUUCGCUCGACCGGCCGACUGGUCGAAUGGCCGUGGCCAGUGCAUCCUGUCCAUUUCCGG
...(((((......)))))...(((((.(((.........))).)))))((((((((....)))))))).(((..((((.(((......))).))))..))). ( -30.00, z-score =  -1.16, R)
>droSim1.chr3R 22421105 103 + 27517382
AAUUGUAUUAAAAUAUAUAUCUGCGAACGCGCCGAACUCCUGCUUUCGCUCGACCGGCCGACUGGUCGAAUGGCCGUGGCCAGUGCAUCCUGUCCACUUCCGG
...(((((......)))))...(((((.(((.........))).)))))((((((((....)))))))).(((..((((.(((......))).))))..))). ( -31.50, z-score =  -1.71, R)
>droSec1.super_13 1363808 103 + 2104621
AAUUGUAUUAAAAUAUAUACCUGCGAAAGCGUCGAACUCCUGCUUUCGCUCGACCGGCCGACUGGUCGAAUGGCCGUGGCCAGUGCAUCCUGUCCACUUCCGG
....((((........))))..(((((((((.........)))))))))((((((((....)))))))).(((..((((.(((......))).))))..))). ( -35.80, z-score =  -3.32, R)
>droYak2.chr3R 4927510 103 - 28832112
AAUUGUAUUAAAAUAUAUAUCUGCGAAUGCGCCGAACUCCGGCUUUCGCUCUACUGGUCGACUGGUCGACUGGCCGUGGCCAGUGCAUCCUGUCCACUUCCGG
...(((((......)))))...(((((...((((.....)))).)))))....((((..(((.((..(((((((....)))))).)..)).))).....)))) ( -33.90, z-score =  -2.79, R)
>droEre2.scaffold_4820 5013050 95 - 10470090
AAUUGUAUUAAAAUAUAUAUCUGCGAAUGCGCCGAACUCCGGCUUUCGCCC--------GACUGCUCGACUGGCCGUGGCCAGUGCAUCCUGUCCACUUCCUG
...(((((......)))))...(((((...((((.....)))).)))))..--------((((((...((((((....)))))))))....)))......... ( -26.50, z-score =  -2.35, R)
>consensus
AAUUGUAUUAAAAUAUAUAUCUGCGAACGCGCCGAACUCCUGCUUUCGCUCGACCGGCCGACUGGUCGAAUGGCCGUGGCCAGUGCAUCCUGUCCACUUCCGG
...(((((......)))))...(((((.((...........)).)))))((((((((....))))))))..((..((((.(((......))).))))..)).. (-23.80 = -25.12 +   1.32)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,589,809 – 22,589,912
Length 103
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 91.75
Shannon entropy 0.15066
G+C content 0.53245
Mean single sequence MFE -34.32
Consensus MFE -24.28
Energy contribution -25.52
Covariance contribution 1.24
Combinations/Pair 1.05
Mean z-score -2.33
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.694552
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22589809 103 - 27905053
CCGGAAAUGGACAGGAUGCACUGGCCACGGCCAUUCGACCAGUCGGCCGGUCGAGCGAAAGCAGGAGUUCGGCGCGUUCGCAGAUAUAUAUUUUAAUACAAUU
(((....)))...((((((.(((..(.(((((..((((....))))..))))).((....))....)..))).))))))........................ ( -31.00, z-score =  -0.73, R)
>droSim1.chr3R 22421105 103 - 27517382
CCGGAAGUGGACAGGAUGCACUGGCCACGGCCAUUCGACCAGUCGGCCGGUCGAGCGAAAGCAGGAGUUCGGCGCGUUCGCAGAUAUAUAUUUUAAUACAAUU
(((((.((((.(((......))).))))..((..((((((.(....).))))))((....)).))..))))).((....))...................... ( -33.10, z-score =  -1.19, R)
>droSec1.super_13 1363808 103 - 2104621
CCGGAAGUGGACAGGAUGCACUGGCCACGGCCAUUCGACCAGUCGGCCGGUCGAGCGAAAGCAGGAGUUCGACGCUUUCGCAGGUAUAUAUUUUAAUACAAUU
..((..((((.(((......))).))))..))..((((((.(....).))))))((((((((.(........)))))))))..((((........)))).... ( -37.60, z-score =  -2.95, R)
>droYak2.chr3R 4927510 103 + 28832112
CCGGAAGUGGACAGGAUGCACUGGCCACGGCCAGUCGACCAGUCGACCAGUAGAGCGAAAGCCGGAGUUCGGCGCAUUCGCAGAUAUAUAUUUUAAUACAAUU
..((..((((.(((......))).))))..)).(((((....))))).......(((((.((((.....))))...)))))...................... ( -33.90, z-score =  -2.69, R)
>droEre2.scaffold_4820 5013050 95 + 10470090
CAGGAAGUGGACAGGAUGCACUGGCCACGGCCAGUCGAGCAGUC--------GGGCGAAAGCCGGAGUUCGGCGCAUUCGCAGAUAUAUAUUUUAAUACAAUU
..((..((((.(((......))).))))..)).(((((((..((--------.(((....))).)))))))))((....))...................... ( -36.00, z-score =  -4.08, R)
>consensus
CCGGAAGUGGACAGGAUGCACUGGCCACGGCCAUUCGACCAGUCGGCCGGUCGAGCGAAAGCAGGAGUUCGGCGCAUUCGCAGAUAUAUAUUUUAAUACAAUU
..((..((((.(((......))).))))..))..((((((........))))))(((((.((...........)).)))))...................... (-24.28 = -25.52 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:31 2011