Locus 12351

Sequence ID dm3.chr3R
Location 27,508,805 – 27,508,855
Length 50
Max. P 0.867144
window16976 window16977

overview

Window 6

Location 27,508,805 – 27,508,855
Length 50
Sequences 12
Columns 53
Reading direction forward
Mean pairwise identity 95.74
Shannon entropy 0.09114
G+C content 0.49922
Mean single sequence MFE -17.60
Consensus MFE -9.43
Energy contribution -9.84
Covariance contribution 0.42
Combinations/Pair 1.00
Mean z-score -3.23
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.662253
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27508805 50 + 27905053
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>droSim1.chr3R 27128805 50 + 27517382
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>droSec1.super_31 168389 50 + 568655
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>droYak2.chr3R 28446346 50 + 28832112
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>droEre2.scaffold_4820 10004362 50 - 10470090
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>droAna3.scaffold_12911 1781102 50 - 5364042
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>dp4.chr2 14189761 50 - 30794189
UUACACGCUCGUUGCCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
......((.....))(((((((((.-(.(((....))).).))))--))))). ( -17.00, z-score =  -3.24, R)
>droPer1.super_0 3791377 50 + 11822988
UUACACGCUCGUUGCCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
......((.....))(((((((((.-(.(((....))).).))))--))))). ( -17.00, z-score =  -3.24, R)
>droWil1.scaffold_181089 9472634 52 + 12369635
UUACACGGUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACACAGGAUGC
..............(((((((((..-..(((........)))..))))))))) ( -15.70, z-score =  -2.27, R)
>droVir3.scaffold_13047 9760783 50 - 19223366
UUACACGGUCGUUGGCAUCCUGUUU-CACGCAAGACCAAGCAACA--GGAUGC
..............((((((((((.-...((........))))))--)))))) ( -14.80, z-score =  -2.08, R)
>droMoj3.scaffold_6540 22114147 51 - 34148556
UUAUACGGUCGUUGGCAUCCUGUUUUCAUGCAAGACCAAGCAACA--GGAUGC
..............(((((((((.....(((........))))))--)))))) ( -15.10, z-score =  -2.27, R)
>droGri2.scaffold_14906 11798653 50 - 14172833
UUACACGCUCGUUGGCAUCCUGUUU-CAUGCAACAGCAAGCAACA--GGAUGC
..............((((((((((.-(.(((....))).).))))--)))))) ( -18.80, z-score =  -3.67, R)
>consensus
UUACACGCUCGUUGGCAUCCUGUUU_CAUGCAACAGCAAGCAACA__GGAUGC
..............((((((((((....(((....)))...))))..)))))) ( -9.43 =  -9.84 +   0.42)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 27,508,805 – 27,508,855
Length 50
Sequences 12
Columns 53
Reading direction reverse
Mean pairwise identity 95.74
Shannon entropy 0.09114
G+C content 0.49922
Mean single sequence MFE -19.52
Consensus MFE -12.60
Energy contribution -12.86
Covariance contribution 0.26
Combinations/Pair 1.08
Mean z-score -3.14
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.867144
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27508805 50 - 27905053
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>droSim1.chr3R 27128805 50 - 27517382
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>droSec1.super_31 168389 50 - 568655
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>droYak2.chr3R 28446346 50 - 28832112
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>droEre2.scaffold_4820 10004362 50 + 10470090
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>droAna3.scaffold_12911 1781102 50 + 5364042
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>dp4.chr2 14189761 50 + 30794189
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGGCAACGAGCGUGUAA
.(((((--((((...(((....)))..-.)))))))))((.....))...... ( -19.00, z-score =  -2.46, R)
>droPer1.super_0 3791377 50 - 11822988
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGGCAACGAGCGUGUAA
.(((((--((((...(((....)))..-.)))))))))((.....))...... ( -19.00, z-score =  -2.46, R)
>droWil1.scaffold_181089 9472634 52 - 12369635
GCAUCCUGUGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGACCGUGUAA
(((((((((..(((........)))..-..))))))))).............. ( -18.80, z-score =  -3.03, R)
>droVir3.scaffold_13047 9760783 50 + 19223366
GCAUCC--UGUUGCUUGGUCUUGCGUG-AAACAGGAUGCCAACGACCGUGUAA
((((((--((((...((......))..-.)))))))))).............. ( -16.20, z-score =  -2.00, R)
>droMoj3.scaffold_6540 22114147 51 + 34148556
GCAUCC--UGUUGCUUGGUCUUGCAUGAAAACAGGAUGCCAACGACCGUAUAA
((((((--((((((........))).....))))))))).............. ( -16.40, z-score =  -2.82, R)
>droGri2.scaffold_14906 11798653 50 + 14172833
GCAUCC--UGUUGCUUGCUGUUGCAUG-AAACAGGAUGCCAACGAGCGUGUAA
((((((--((((...(((....)))..-.)))))))))).............. ( -20.70, z-score =  -3.56, R)
>consensus
GCAUCC__UGUUGCUUGCUGUUGCAUG_AAACAGGAUGCCAACGAGCGUGUAA
((((((..((((...(((....)))....)))))))))).............. (-12.60 = -12.86 +   0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:00:29 2011