Locus 15785

Sequence ID dm3.chrX
Location 21,042,159 – 21,042,259
Length 100
Max. P 0.780029
window21753 window21754

overview

Window 3

Location 21,042,159 – 21,042,255
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 76.25
Shannon entropy 0.42776
G+C content 0.39603
Mean single sequence MFE -15.62
Consensus MFE -8.56
Energy contribution -9.80
Covariance contribution 1.24
Combinations/Pair 1.33
Mean z-score -1.53
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.600712
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21042159 96 + 22422827
AAAAAUCAUCUCUUUCAUUCGCUGACUAAGUCCAAGACUAGCAACAGAAAGCCAAUCAGCUUUCCAACCUUAUCUUCAGACGAACCACCUGAAGUC
............(((((((((((((...((((...)))).......((((((......))))))...........)))).)))).....))))).. ( -16.50, z-score =  -2.00, R)
>droSim1.chrX 16165119 94 + 17042790
AAAUAUCAU--GUUUCAUUCGUUGUCAAAGUCCAAGAUUAGCAACAGAAAGUCAGUCAGCUCUCCAACCUUAUCUUCAGACGAACCACCUGAAGAC
.........--.........(((((...((((...)))).))))).((.(((......))).))........(((((((.........))))))). ( -12.80, z-score =  -0.00, R)
>droSec1.super_8 412837 96 - 3762037
AAGUAUCAUAUGUUUCAUUCGUUGUCAAAGUCCAAGAUUAGCAACAGAAAGUCAGUCAGCUCUCCAACCUUAUCUUCAGACGAACCACCUGAAGAC
....................(((((...((((...)))).))))).((.(((......))).))........(((((((.........))))))). ( -12.80, z-score =   0.26, R)
>droEre2.scaffold_4929 751497 96 - 26641161
AAAUAUCAUAUCUUUCAUUCGUUGUCUAAGUCCAAGACUAACAACAGAAGGCCAGUCAGCCUUCCAACCUAAUAUUCAGACAAACCACCUGAAGCU
....................(((((...((((...)))).))))).((((((......))))))..........(((((.........)))))... ( -18.20, z-score =  -3.18, R)
>droVir3.scaffold_13050 2046783 84 + 3426691
--AAAACAUAUCUUUCGUU-AUUGUCUGAGCCCAAGGCCAGCAAUAGAA-----GCCAACUUCAAAACAUAAUCUUCAGUAAUAUUACUGGA----
--................(-((((.(((.(((...)))))))))))(((-----(....))))...........(((((((....)))))))---- ( -17.80, z-score =  -2.72, R)
>consensus
AAAUAUCAUAUCUUUCAUUCGUUGUCUAAGUCCAAGACUAGCAACAGAAAGCCAGUCAGCUUUCCAACCUUAUCUUCAGACGAACCACCUGAAGAC
....................(((((...((((...)))).))))).((((((......)))))).........((((((.........)))))).. ( -8.56 =  -9.80 +   1.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 21,042,164 – 21,042,259
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 74.41
Shannon entropy 0.45850
G+C content 0.42116
Mean single sequence MFE -15.62
Consensus MFE -8.56
Energy contribution -9.80
Covariance contribution 1.24
Combinations/Pair 1.33
Mean z-score -1.59
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.780029
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 21042164 95 + 22422827
UCAUCUCUUUCAUUCGCUGACUAAGUCCAAGACUAGCAACAGAAAGCCAAUCAGCUUUCCAACCUUAUCUUCAGACGAACCACCUGAAGUCCCAC
.......(((((((((((((...((((...)))).......((((((......))))))...........)))).)))).....)))))...... ( -16.50, z-score =  -2.17, R)
>droSim1.chrX 16165124 90 + 17042790
--UCAUGUUUCAUUCGUUGUCAAAGUCCAAGAUUAGCAACAGAAAGUCAGUCAGCUCUCCAACCUUAUCUUCAGACGAACCACCUGAAGACC---
--.............(((((...((((...)))).))))).((.(((......))).))........(((((((.........)))))))..--- ( -12.80, z-score =   0.01, R)
>droSec1.super_8 412842 92 - 3762037
UCAUAUGUUUCAUUCGUUGUCAAAGUCCAAGAUUAGCAACAGAAAGUCAGUCAGCUCUCCAACCUUAUCUUCAGACGAACCACCUGAAGACC---
...............(((((...((((...)))).))))).((.(((......))).))........(((((((.........)))))))..--- ( -12.80, z-score =  -0.07, R)
>droEre2.scaffold_4929 751502 94 - 26641161
UCAUAUCUUUCAUUCGUUGUCUAAGUCCAAGACUAACAACAGAAGGCCAGUCAGCCUUCCAACCUAAUAUUCAGACAAACCACCUGAAGCUCAC-
...............(((((...((((...)))).))))).((((((......))))))..........(((((.........)))))......- ( -18.20, z-score =  -3.04, R)
>droVir3.scaffold_13050 2046786 81 + 3426691
ACAUAUCUUUCGUU-AUUGUCUGAGCCCAAGGCCAGCAAUAGAA-----GCCAACUUCAAAACAUAAUCUUCAGUAAUAUUACUGGA--------
.............(-((((.(((.(((...)))))))))))(((-----(....))))...........(((((((....)))))))-------- ( -17.80, z-score =  -2.69, R)
>consensus
UCAUAUCUUUCAUUCGUUGUCUAAGUCCAAGACUAGCAACAGAAAGCCAGUCAGCUUUCCAACCUUAUCUUCAGACGAACCACCUGAAGACC___
...............(((((...((((...)))).))))).((((((......)))))).........((((((.........))))))...... ( -8.56 =  -9.80 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:05:52 2011